TECAN
Instructions for Use for
magellan
Document Part No.: 30143531
2021-11
Document Revision No.: 1.4
Software Revisions:
magellan: 7.5
magellan Tracker: 7.5
2 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
WARNING
CAREFULLY READ AND FOLLOW THE INSTRUCTIONS PROVIDED IN
THIS MANUAL BEFORE OPERATING THE INSTRUMENT.
Notice
Every effort has been made to avoid errors in text and diagrams; however,
Tecan Austria GmbH assumes no responsibility for any errors which may appear
in this publication.
It is the policy of Tecan Austria GmbH to improve products as new techniques
and components become available. Tecan Austria GmbH therefore reserves the
right to change specifications at any time with verification, validation, and
appropriate approvals.
We would appreciate any comments on this publication.
Manufacturer
Tecan Austria GmbH
Untersbergstr. 1A
A-5082 Grödig, Austria
T: +43 6246 89330
F: +43 6246 72 770
www.tecan.com
E-mail: office.austria@tecan.com
Copyright Information
The contents of this manual are the property of Tecan Austria GmbH and are not
to be copied, reproduced or transferred to another person or persons without our
prior written permission.
Copyright © Tecan Austria GmbH
All rights reserved.
Printed in Austria.
Declaration for EC Certificate
Provided upon request.
magellan Intended Use
See 1.2 Intended Use/Purpose of magellan.
About this Manual
magellan is a universal data reduction package used to analyze data generated
from microplate assays. It is designed for professional use only.
This manual instructs how to:
• Install the software
• Operate the software
Remark on Screenshots
The version number displayed in screenshots may not always be the one of the
currently released version. Screenshots are replaced only if content related to
application has changed.
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 3
Warnings, Cautions and Notes
The following types of notices are used in this publication; they highlight
important information or warn the user of a potentially dangerous situation:
4 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Symbols
Manufacturer
Date of manufacture
CE conformity marking
Consult the instructions for use
In vitro diagnostic medical device
United Kingdom Conformity Assessed
marking shows that the labeled product is following the applicable
regulation in Great Britain.
Unique Device Identification
The UDI symbol identifies the data carrier on the label.
Catalogue number
Serial Number
WEEE symbol
China RoHS symbol
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 5
Table of Contents
1. Introduction ........................................................................................................................ 9
1.1 Area of Application .................................................................................................................... 9
1.2 Intended Use/Purpose of magellan ........................................................................................ 10
1.3 User Profile ............................................................................................................................. 10
1.3.1 Professional User - Administrator Level .................................................................................. 10
1.3.2 End User or Routine User ....................................................................................................... 10
1.4 Specifications .......................................................................................................................... 11
1.4.1 System Requirements ............................................................................................................. 11
1.4.2 Reader Compatibility ............................................................................................................... 12
1.5 Software Installation Procedure .............................................................................................. 12
1.5.1 Automatic Software Setup Program ........................................................................................ 12
1.5.2 Installation Qualification – IQ ................................................................................................... 13
1.5.3 Operation Qualification – OQ................................................................................................... 13
1.5.4 System Recovery .................................................................................................................... 14
1.5.5 Automatic Software Removal .................................................................................................. 15
1.5.6 Cybersecurity Information ........................................................................................................ 16
2. Start Working with magellan ........................................................................................... 17
2.1 User Interface – Wizard List .................................................................................................... 17
2.2 Components & Terms – Basic Logic of magellan ................................................................... 19
2.2.1 File Types Used with magellan ................................................................................................ 19
2.2.2 Folder Handling ....................................................................................................................... 20
2.2.3 Standard Elements .................................................................................................................. 21
2.2.4 The Help Button ....................................................................................................................... 21
2.2.5 The Welcome Dialog Box ........................................................................................................ 22
2.2.6 Shortcuts List ........................................................................................................................... 22
2.3 Starting magellan .................................................................................................................... 23
2.3.1 Starting Standard Version ....................................................................................................... 23
2.3.2 Starting Tracker Version .......................................................................................................... 23
2.4 Connecting an Instrument ....................................................................................................... 24
2.4.1 Connect to SUNRISE Instruments ........................................................................................... 24
2.4.2 Connect to INFINITE F50 Instruments .................................................................................... 25
2.4.3 Licensing magellan .................................................................................................................. 27
2.4.4 Registration Wizard ................................................................................................................. 27
3. Instrument Control & Settings ........................................................................................ 31
3.1 Instrument Options .................................................................................................................. 31
3.1.1 Movements... ........................................................................................................................... 31
3.1.2 Temperature Control... ............................................................................................................ 31
3.2 Setup & Service Options ......................................................................................................... 32
3.2.1 Change Instrument... ............................................................................................................... 32
3.2.2 Define Filter Slides... ............................................................................................................... 32
3.3 Log Files .................................................................................................................................. 32
4. Create/Edit a Method Wizard ........................................................................................... 33
4.1 Introduction ............................................................................................................................. 33
4.2 Define the Measurement Parameters ..................................................................................... 34
4.2.1 Measurement Types - SUNRISE ............................................................................................. 34
4.2.2 Measurement Parameters - SUNRISE .................................................................................... 35
4.2.3 Measurement Parameters - INFINITE F50 .............................................................................. 36
4.3 Define Evaluation .................................................................................................................... 38
6 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
4.3.1 The Create/Edit Method Overview Window ............................................................................. 38
4.3.2 Method Layout: How to Define a Plate Layout ........................................................................ 41
4.3.3 Method Layout: Conc., Dil. and Ref. Values ............................................................................ 46
4.3.4 Precalculation: Spectra Data Reduction .................................................................................. 49
4.3.5 Transformed Data: Add New Transformation .......................................................................... 52
4.3.6 Kinetic: Kinetic Data Reduction ............................................................................................... 55
4.3.7 Kinetics Transformations: Add New Kinetics Transformations ................................................ 58
4.3.8 Concentrations: Standard Curve ............................................................................................. 58
4.3.9 Concentrations Transformations: Add New Concentration Transformations ........................... 63
4.3.10 Evaluate Data: Cutoff Definition .............................................................................................. 63
4.3.11 Evaluate Data: QC Validation .................................................................................................. 64
4.3.12 Data Handling: Data Export ..................................................................................................... 65
4.3.13 Data Handling: Printed Report ................................................................................................ 70
4.3.14 Data Handling: Automated Data Handling .............................................................................. 74
4.3.15 Miscellaneous: User Prompts .................................................................................................. 78
4.3.16 Miscellaneous: Number Format .............................................................................................. 78
4.3.17 Miscellaneous: Method Notes ................................................................................................. 78
4.4 Saving the Method .................................................................................................................. 79
4.4.1 Password Protection of Methods ............................................................................................. 80
4.5 Multiplate Methods .................................................................................................................. 81
5. Create/Edit a Sample ID List Wizard .............................................................................. 83
5.1 Introduction ............................................................................................................................. 83
5.2 Create/Edit a Sample ID List ................................................................................................... 83
5.2.1 Create New Sample ID List ..................................................................................................... 83
5.2.2 Import/Edit a Sample ID List .................................................................................................... 85
5.2.3 Import a Sample ID List ........................................................................................................... 89
5.2.4 Saving the Sample ID List ....................................................................................................... 96
6. Start Measurement Wizard .............................................................................................. 97
6.1 Introduction ............................................................................................................................. 97
6.2 Obtain Raw Data ..................................................................................................................... 98
6.2.1 Obtain Raw Data with the SUNRISE Instrument ..................................................................... 98
6.2.2 Obtain Raw Data with the INFINITE F50 Instrument ............................................................... 98
6.3 Use Predefined Method .......................................................................................................... 99
6.4 Start Favorite ........................................................................................................................... 99
6.5 Start Measurement with a Predefined or Favorite Method ...................................................100
6.6 Measurement Status .............................................................................................................104
7. Evaluate Results Wizard ............................................................................................... 107
7.1 Introduction ...........................................................................................................................107
7.2 Select a File ..........................................................................................................................107
7.2.1 File Selection Criteria ............................................................................................................ 108
7.3 The Workspace Overview Window .......................................................................................109
7.4 Evaluate Results Tab ............................................................................................................111
7.4.1 Menus ................................................................................................................................... 111
7.4.2 Toolbar Menu: File ................................................................................................................ 112
7.4.3 Toolbar Menu: Edit ................................................................................................................ 115
7.4.4 Toolbar Menu: Instrument ..................................................................................................... 116
7.4.5 Plate Layout Window ............................................................................................................ 116
7.4.6 Special Characters ................................................................................................................ 117
7.4.7 Control Bar: Instrument Data ................................................................................................. 117
7.4.8 Control Bar: Reduced Data ................................................................................................... 117
7.4.9 Control Bar: Transformed Data ............................................................................................. 117
7.4.10 Control Bar: Kinetic Parameters ............................................................................................ 118
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 7
7.4.11 Control Bar: Concentrations .................................................................................................. 118
7.4.12 Control Bar: Qualitative Results ............................................................................................. 122
7.4.13 Control Bar: Sample IDs ........................................................................................................ 122
7.4.14 Control Bar: Method Layout ................................................................................................... 122
7.4.15 Control Bar: QC Validation .................................................................................................... 122
7.4.16 Control Bar: Miscellaneous .................................................................................................... 122
7.4.17 Color Scale Box ..................................................................................................................... 123
7.4.18 Context-Sensitive Menu of a Well .......................................................................................... 123
7.5 Edit Method Tab .................................................................................................................... 128
7.6 Saving the Evaluated Results ............................................................................................... 128
8. Attach Signature Wizard ................................................................................................ 129
8.1 Introduction ........................................................................................................................... 129
8.2 Sign a File ............................................................................................................................. 129
9. Miscellaneous Icon ........................................................................................................ 131
9.1 Instrument Control ................................................................................................................ 131
9.2 File Handling ......................................................................................................................... 131
9.2.1 Archive Files .......................................................................................................................... 131
9.2.2 Import Raw Data .................................................................................................................... 134
9.2.3 Convert To ............................................................................................................................. 134
9.2.4 Convert From ......................................................................................................................... 135
9.2.5 Save Log Files ....................................................................................................................... 137
9.3 Options .................................................................................................................................. 137
9.3.1 Default Data Paths ................................................................................................................ 138
9.3.2 Copy/Export Options ............................................................................................................. 139
9.3.3 Plate View Settings ................................................................................................................ 140
9.3.4 Miscellaneous ........................................................................................................................ 142
9.4 User Administration (magellan Tracker) ............................................................................... 144
9.4.1 Add/Modify User (magellan Tracker) ..................................................................................... 145
9.4.2 Add/Modify Role .................................................................................................................... 147
9.4.3 User Administration Audit Trail .............................................................................................. 148
9.4.4 User Administration Options .................................................................................................. 149
9.4.5 User Administration Summary ............................................................................................... 151
9.5 User Administration (magellan Standard) ............................................................................. 152
9.5.1 Add/Modify User (magellan Standard) ................................................................................... 153
9.5.2 Login ...................................................................................................................................... 153
9.5.3 Change User ......................................................................................................................... 153
9.6 User Rights ........................................................................................................................... 154
9.7 About magellan ..................................................................................................................... 158
10. Additional Features for magellan Tracker ................................................................... 159
10.1 User Administration ............................................................................................................... 159
10.1.1 Audit Trail .............................................................................................................................. 159
10.2 File Handling ......................................................................................................................... 160
10.2.1 Saving a File .......................................................................................................................... 160
10.2.2 Changing a Method or Workspace File ................................................................................. 160
10.2.3 Opening a File ....................................................................................................................... 160
10.2.4 Opening a File Created on Another PC – Add HUIDs ........................................................... 160
10.3 System Audit Trail ................................................................................................................. 161
11. Calculations .................................................................................................................... 163
11.1 Evaluate Results – Calculation Procedure ........................................................................... 163
11.1.1 Statistics ................................................................................................................................ 164
11.2 Spectra Data Reduction ........................................................................................................ 164
8 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
11.2.1 Mathematical Description ...................................................................................................... 164
11.3 How to Write a Formula ........................................................................................................165
11.3.1 Introduction ........................................................................................................................... 165
11.3.2 Formula Variables ................................................................................................................. 165
11.3.3 Formula Functions ................................................................................................................ 167
11.3.4 Basic Functions ..................................................................................................................... 168
11.3.5 Statistical Functions .............................................................................................................. 169
11.3.6 Elimination Functions ............................................................................................................ 171
11.3.7 Other Functions ..................................................................................................................... 174
11.3.8 Spectra Functions ................................................................................................................. 174
11.3.9 Examples .............................................................................................................................. 175
11.4 Standard Curve Analysis Types ............................................................................................176
11.4.1 Definitions ............................................................................................................................. 176
11.4.2 Analysis Type Parameters .................................................................................................... 177
11.4.3 Error Messages ..................................................................................................................... 177
11.4.4 Point to Point ......................................................................................................................... 177
11.4.5 Linear Regression ................................................................................................................. 177
11.4.6 Non-Linear Regression ......................................................................................................... 178
11.4.7 Polynomial ............................................................................................................................. 179
11.4.8 Cubic Spline .......................................................................................................................... 179
11.4.9 Akima .................................................................................................................................... 180
11.4.10 LogitLog ................................................................................................................................ 180
11.4.11 Four Parameters ................................................................................................................... 182
11.4.12 Four Parameters – Marquardt ............................................................................................... 183
11.4.13 Five Parameters – Marquardt ................................................................................................ 183
11.4.14 Weighting for Four / Five Parameter Fit – Marquardt / Polynomial Fit ................................... 184
11.5 Calculation of Dilution Series ................................................................................................185
11.5.1 Detection of Dilution Series ................................................................................................... 185
11.5.2 Curve Parameter Calculation ................................................................................................ 185
11.5.3 Calculation of IC Values ........................................................................................................ 185
12. Application Example ..................................................................................................... 187
12.1 Step-by-Step Example: Quantitative ELISA ..........................................................................187
12.1.1 Test Kit Description ............................................................................................................... 187
12.1.2 Create a Method ................................................................................................................... 188
12.1.3 Run the Method ..................................................................................................................... 201
12.1.4 Evaluate the Result ............................................................................................................... 202
12.1.5 Summary of Definition of Quantitative ELISA in magellan .................................................... 204
13. Glossary of Terms ......................................................................................................... 205
Index ......................................................................................................................................... 209
Trademarks .............................................................................................................................. 212
Tecan Customer Support ....................................................................................................... 213
1. Introduction
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 9
1. Introduction
1.1 Area of Application
magellan software is a reader control and data analysis software for analyzing
data generated by measurements with a Tecan single-mode absorbance
microplate reader (e.g. SUNRISE and INFINITE F50) for in vitro diagnostic use.
Note
It is important to note that the proper installation of the instrument and
the magellan software alone will not ensure compliance with laws and
requirements. Corresponding policies concerning processes and
standard operating procedures, including validation and quality control,
must also be established.
magellan is designed for use with the operating systems and Microsoft Office
versions specified in chapter 1.4.1 System Requirements. If additional programs
are installed, functionality in accordance with IVD for Europe and FDA
Regulations cannot be guaranteed.
Note
To prevent the misuse of user rights and falsification of data it is
recommended that the User Administrator does not have magellan rights.
Ideally the User Administrator should belong to the IT department.
Note
The customers’ system administrator is responsible for any changes
made to the computers operating system. The customer has to make sure
that the appropriate user rights are set to avoid manipulation or deletion
of data outside magellan software.
Note
magellan is designed to be used with one computer; it is not intended to
be integrated into a network.
Note
Any serious incident that has occurred in relation to the device and
software shall be reported to the manufacturer and the competent
authority of the member state in which the user and/or the patient is
established.
1. Introduction
10 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
1.2 Intended Use/Purpose of magellan
magellan software is a reader control and data analysis software for analyzing
data generated by measurements with a Tecan single-mode absorbance
microplate reader (e.g. SUNRISE and INFINITE F50) for in vitro diagnostic use.
magellan software is intended to be used primarily for absorbance
measurements and evaluation of qualitative, semi-quantitative, and quantitative
IVD assays. magellan software is user programmable; the software needs to be
configured by the user according to the assay instructions.
The product is intended for professional laboratory use by trained personnel. The
product is not for home or lay person use.
magellan is available in two versions:
• magellan
• magellan Tracker
magellan Tracker offers all necessary functionality to become compliant with the
FDA Regulation 21 CFR part 11 in addition to the functionality of magellan.
Note
magellan is available in two versions: magellan and magellan Tracker.
For ease of reference in this operating manual, the magellan version is
marked as magellan Standard.
1.3 User Profile
1.3.1 Professional User - Administrator Level
The administrator is a person who has suitable technical training and
corresponding skills and experiences. If the product is used as intended, the
person can recognize and avoid dangers.
The administrator has extensive skills and can instruct the end user or the
routine user in assay protocols in connection with a Tecan product within the
bounds of the intended use.
Computer application skills and good English skills are required.
1.3.2 End User or Routine User
The end user or routine user is a person who has suitable technical training and
corresponding skills and experiences. If the product is used as intended, the
person can recognize and avoid dangers.
Computer application skills and good language skills for the respective national
language at the installation site and English are required.
Note
Training dates, their duration and frequency are available at your
customer support.
Address and telephone number can be found in these Instructions for
Use and in the web: http://www.tecan.com/customersupport
1. Introduction
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 11
1.4 Specifications
1.4.1 System Requirements
The following requirements have to be met for using magellan:
Supported
Recommended
PC
Windows compatible PC with a Pentium
compatible processor running at 1 GHz (Dual
Core)
2 GHz (Dual Core)
Operating System
Windows 10 (32-bit)
Windows 10 (64-bit)
Editions: Pro
Memory
Windows 10
(32-bit): 1 GB RAM
2 GB RAM
Windows 10
(64-bit): 2 GB RAM
4 GB RAM
Free Hard Disk
Space
3 GB
5 GB
Monitor
Super VGA Graphics
Resolution
1024 x 600 and higher
1920 x 1080
Color Depth
256
Mouse
Microsoft mouse or compatible pointing device
Communication
1 x USB 2.0
2 x USB 2.0
1 x RS232 (Serial)
Devices
Windows 10:
DirectX 9 graphics device with WDDM 1.0 or
higher driver
.NET
Microsoft .NET Framework 3.5:
In Windows 10 the user will be prompted to
install the required .NET framework (3.5) if it is
not already present.
Windows Installer
3.1
If this version is not present, the install/upgrade
program will install it.
Microsoft Excel
2007, 2010, 2013, 2016 (32-bit),
2019 (32-bit),
Microsoft Excel 365 (32-bit)
Only 32-bit editions supported!
Starter editions NOT supported!
2010 (32-bit)
2019 (32-bit)
1. Introduction
12 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
1.4.2 Reader Compatibility
The following Tecan readers can be used with magellan:
Instrument Types
Measurement Mode
SUNRISE
Absorbance
INFINITE F50
Absorbance
1.5 Software Installation Procedure
1.5.1 Automatic Software Setup Program
magellan is installed by an automatic software setup program. All necessary
components are installed automatically.
Start Magellan_Setup.exe to begin the installation procedure.
• In the first InstallShield Wizard window the components, which are required
prior to installing magellan are shown. Click Install to continue.
Windows 10: If the required .NET Framework (3.5) is not present, the user is
prompted to start the installation. Select Install this feature (an internet
connection is required). If the installation is skipped by the user, the magellan
installation will not be successful.
• A Welcome Window appears with information about the software and the
installation process. Click Next to continue.
• The next window displays the License Agreement. Read the License
Agreement and click I agree to accept it and continue.
• The Customer Information window appears next. If you have already
purchased the software, enter now your serial number, and click Next. If you
do not yet have a serial number, click Next as well to continue the setup. You
can register later (see chapter 2.4.3 Licensing magellan).
• The Destination Folder window appears next. The default installation path is
displayed. Click Browse to change the default destination path, if desired.
Click Next to continue.
• The Language Selection window appears next. Choose your preferred
language.
• In the Use For Regulated Environments window, select magellan Standard
or magellan Tracker, depending on which version you have ordered, to install
the software. Click Next to continue.
• The setup program is now ready for installation. Click Next to start installation.
• Click Finish to end installation and to close the setup program.
The software can be started via the Windows Start menu by selecting magellan.
The setup program automatically detects a previous installation of magellan.
The old version has to be de-installed before being able to install a new
Magellan version. The de-installation can be performed automatically by using
the installation wizard (see also chapter 1.5.5 Automatic Software Removal).
Note
It is very important that the person who installs the software has
administrator rights on the computer.
1. Introduction
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 13
Note
If an older version of magellan is to be installed, the currently installed
version has to be completely de-installed before the older version can be
installed from scratch.
1.5.2 Installation Qualification – IQ
It is recommended to use the automatic installation qualification program to
check that the installation of magellan was successful.
Start Magellan IQ.exe from the Windows Start menu: Start > Programs >
Tecan > Magellan IQ or directly from the file system in the default installation
path specified in the setup program (typically, C:\Program
Files\Tecan\Magellan).
The installation qualification program automatically detects the installed version
of magellan. Click Check to start the installation qualification.
The IQ tool shows the state of all installed components. There are three possible
states: Successful, Warning and Failed (=Error). If any errors are reported
please contact your local helpdesk for support.
After the check is finished, it is possible to generate a report containing the
information displayed by the IQ tool. In addition to the information of the IQ tool,
the report contains a signature field, so that the report can be saved and printed
for auditing purposes. Click the Report button in: File > Report to generate a
report. The report can be saved as a PDF file as well as other file types.
Click Cancel or Exit to close the Installation Qualification program.
Note
The installation qualification should be repeated each time magellan is
installed, updated to a newer version, or the underlying system is
updated or modified.
1.5.3 Operation Qualification – OQ
In addition to the installation qualification check, Tecan also recommends that
the calculation abilities of magellan are tested. For this purpose, the installation
medium of magellan contains a workspace and report file.
Open the OQ workspace file for the installed magellan version and print the
report. The newly printed report has to be identical to the corresponding OQ pdf
report (except, of course, for the time and date information).
If the two reports differ, please contact your local dealer for support.
1. Introduction
14 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
1.5.4 System Recovery
In order to repair a damaged magellan installation after a hardware failure, it is
important to start the data backup ahead of time.
System Recovery with Data Backup Software
The data backup is usually performed with data backup software. This makes it
possible to save the entire system, including all data, so it can be restored
whenever needed.
A detailed description and precise user instructions can be found in Windows
Help (for Windows backup software packages) or in the provided documentation.
The magellan license is tied to the computer’s hardware, which means it can
become invalid after a hardware change. You should therefore check to make
sure your license is still valid after a system restoration. This can be done in the
About Magellan dialog box by starting the registration wizard and checking
whether the registered serial number and license number are still valid. In case
of an error message, please contact Tecan’s customer support to get a new
license number.
Manual System Recovery
In those cases where a complete system restoration is not possible with the
backup software (e.g. because the hardware changes are too extensive, or
because a different version of the Windows operating system was installed on
the new computer), magellan has to be re-installed and several files have to be
copied from a backup archive.
In that case, the system restoration process consists of these steps:
1. Install magellan
2. Start magellan and define the magellan Administrator
3. Re-enter the user and user rights.
4. Copy magellan.ini file from the backup archive.
5. Copy magellan methods from the backup archive.
6. Copy sample ID lists from the backup archive.
7. Copy workspaces from the backup archive.
8. Copy exported data from the backup archive.
After the hardware changes and a relicensing of magellan Tracker have been
completed, the user, when opening method and workspace files generated
under the old license, is informed that the files originate from a different
computer. To solve this problem, please follow the detailed description in chapter
10.2.4 Opening a File Created on Another PC – Add HUIDs.
Data Security
To make sure that the steps of the system restoration process listed above can
be completed quickly, a backup archive should be set up in time. The backup
archive should include magellan methods, workspaces, sample ID lists,
exported data, audit trail files, system audit trail files, UserManagement.xml file,
files of Pdfx Directory and the magellan.ini file. The contents of the backup
archive should always be up to date. Tecan recommends using the Auto
Archiving option for the backup of the methods, workspaces, and sample ID
lists. You can find details about Auto Archiving in chapter 9.2.1 Archive Files /
Automatic Archiving.
1. Introduction
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 15
magellan Paths – Windows 10
Magellan.ini
C:\Users\Public\Documents\Tecan\Magellan
Methods
Standard path:
C:\Users\Public\Documents\Tecan\Magellan\mth
or as set in the Options dialog box
Workspaces
C:\Users\Public\Documents\Tecan\Magellan\wsp
or as set in the Options dialog box
Sample ID lists
C:\Users\Public\Documents\Tecan\Magellan\smp
or as set in the Options dialog box
Exported data
C:\Users\Public\Documents\Tecan\Magellan\asc
or as set in the Options dialog box
Audit Trail files
Path as shown in the Audit Trail dialogue box (under user
administration)
System Audit Trail
Path as specified in 10.3 System Audit Trail
User Management
C:\ProgramData\Tecan\Tecan User
Management\v1.1\UserManagement.xml
Pdfx Files
C:\Users\Public\Documents\Tecan\Pdfx
1.5.5 Automatic Software Removal
The magellan software can be removed using the standard Windows uninstall
routine:
• Close magellan
• Select Add/Remove Programs from the Settings - Control Panel in the
Windows Start menu.
• Select the magellan icon and click Remove.
In the removal procedure you will be asked whether or not shared components
should be removed. If Yes is selected, magellan will be completely uninstalled
and other Tecan programs will no longer work. Leaving these components
installed will not harm your system. If you are not sure what to do, we suggest to
not remove the shared components. After clicking Yes or No, the magellan
software is uninstalled.
Note
When removing all shared components, the user administration data is
also removed. Some Tecan programs, for example EVOware, will not
work anymore and must be re-installed.
1. Introduction
16 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
1.5.6 Cybersecurity Information
CAUTION
IT IS THE USER’S RESPONSIBILITY TO TAKE THE NECESSARY
PRECAUTIONS TO PROTECT THE SYSTEM FROM CYBERSECURITY
THREATS.
WHEN INSTALLING VIRUS PROTECTION SOFTWARE OR SECURITY-
RELATED UPDATES OF THE OPERATING SYSTEM PLEASE FOLLOW
THE RECOMMENDATIONS OF THE LOCAL IT DEPARTMENT. BACK UP
MAGELLAN FILES BEFORE STARTING UPDATES. RUN INSTALLATION
QUALIFICATION (IQ), OPERATION QUALIFICATION (OQ) AND
PERFORMANCE QUALIFICATION (PQ) OF MAGELLAN AFTER EVERY
SYSTEM MODIFICATION.
Back up your data
The importance of backing up files to be able to recover in case of a ransomware
attack cannot be overstated. Be sure to create destruction-resistant backups of
your critical systems and data. There are many tools and services available for
file backup, restoration (of previous file versions) and recovery. Also, be sure to
regularly test that the backups are working.
Use magellan archive functionality or your product of choice to backup magellan
data files. For a detailed description, refer to chapter 9.2.1 Archive Files.
Manage and control privileged access to data
To minimize risk of credential compromise and abuse, implement unique local
administrator passwords on all systems, separate and protect privileged
accounts and reduce broad permissions on file repositories.
Use standard windows operators (not administrators) to operate magellan.
Use magellan Tracker functionality to control access and further secure the
application.
Operation Qualification
In addition to the installation qualification check, Tecan also recommends that
the calculation abilities of magellan are tested. For a detailed description, refer to
chapter 1.5.3 Operation Qualification – OQ.
2. Start Working with magellan
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 17
2. Start Working with magellan
Standard magellan wizards represent workflow modules, which are step-by-step
guides for performing complex procedures.
Occasionally, menus are available in the heading bar. The Menu offers a
conventional way of using the software: the relevant menu item is selected from
the main menus. All subsequent actions are started instantly, or a dialog box is
displayed where further selections or entries can be made.
2.1 User Interface – Wizard List
The main type of the user interface in magellan is the wizard.
After launching magellan, the Wizard List appears:
Each wizard can be started either by double-clicking or by selecting it and
clicking the Next button.
Start Measurement Wizard
The Start Measurement wizard includes the following options:
• Obtain Raw Data is used to generate raw data quickly and easily by setting
the required measurement parameters and starting a measurement.
• Use Predefined Method is used to perform measurements based on
previously defined methods.
• Start Favorite is used to select one of the most frequently used methods from
the list of numbered icons.
For a detailed description, refer to chapter 6 Start Measurement Wizard.
After the measurement is finished a workspace file is created.
Evaluate Results Wizard
The Evaluate Results wizard is used to view the raw data and to evaluate the
results. The evaluation parameters can be viewed and data can be re-evaluated.
For a detailed description, refer to chapter 7 Evaluate Results Wizard.
2. Start Working with magellan
18 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Attach Signature Wizard
The Attach Signature wizard is used to sign method and workspace files. This
feature is only available with magellan Tracker.
For a detailed description, refer to chapter 8 Attach Signature Wizard.
Create/Edit a Sample ID List Wizard
The Create/Edit a Sample ID list wizard is used to create new and to edit
existing sample ID lists.
For a detailed description, refer to chapter 5 Create/Edit a Sample ID List Wizard.
Create/Edit a Method Wizard
The Create/edit a method wizard is used to define or edit methods.
For detailed description, refer to chapter 4 Create/Edit a Method Wizard.
Icons
Icon: Change Current User
If the user administration is active (refer to chapter 9.4 User Administration
(magellan Tracker) and to chapter 9.5 User Administration (magellan Standard))
click this icon to log out the current user and to login a new user.
With magellan Standard, user administration is optional. With magellan Tracker
user administration is obligatory.
Icon: Miscellaneous
Click on the Miscellaneous icon to select the following options:
Instrument control
Options
File handling
User administration
About magellan
• Instrument control provides quick access to several instrument functions, to
service and setup options. See chapter 3 Instrument Control & Settings.
• File handling is used to move files to an archive location, to convert files from
or to another magellan version and to import raw data from an ASCII-file. See
chapter 9.2 File Handling.
• Options is used to customize certain default settings as path of generated
files, clipboard and Excel copy options, the plate view and miscellaneous
wizard, startup, language and password settings. See chapter 9.3 Options.
• User administration is used to add or disable users and to set or modify user
rights. See chapter 9.4 User Administration (magellan Tracker), respectively
chapter 9.5 User Administration (magellan Standard).
• About magellan provides license information and details on the currently
installed version and components. Registration can be requested starting the
Register wizard (see chapter 2.4.3 Licensing magellan).
Close the Miscellaneous window to go back to the wizard list.
2. Start Working with magellan
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 19
Icon: Temperature control
Use this icon to set the target temperature for the connected instrument.
For a detailed description, refer to chapter 3.1.2 Temperature Control... .
Icon: Move plate
Use this icon to move the plate carrier in or out of the instrument.
2.2 Components & Terms – Basic Logic of
magellan
2.2.1 File Types Used with magellan
The following file types are used with magellan.
By default, all file types associated with magellan are stored in subdirectories in
the appropriate directory:
...\All Users\Documents\Tecan\
The subdirectories are displayed in the table below:
Type of File
File Extension
Directory
Workspace
.wsp
\magellan\wsp
Method
.mth
\magellan\mth
Sample ID List
.smp
\magellan\smp
Export Files
.asc
\magellan\asc
Standard Curve
.std
\magellan\wsp
Plate Definition
.pdf
.pdfx
\Reader\Pdf
\Pdfx
For a detailed description on methods, sample ID lists, workspaces and standard
curves, refer to the chapters 4 Create/Edit a Method Wizard, 5.2.3 Import a
Sample ID List and 7 Evaluate Results Wizard.
Note
INFINITE F50 instruments use the .pdfx file format, whereas SUNRISE
instruments use .pdf files.
Note
The menus and toolbars available vary depending on the type of file
currently opened.
2. Start Working with magellan
20 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
2.2.2 Folder Handling
In magellan, it is possible to create a user-specific folder structure for saving
files (methods, workspaces, standard curves and sample ID lists) in any folder of
the Windows Explorer. New folders can be created by right-clicking and selecting
New folder from the context sensitive menu. Files and folders can be
moved/cut/copied in the same manner as in Windows Explorer.
File Type Symbols
magellan uses the following symbols for methods, workspaces, standard curves
and sample ID lists in the file view window:
Method
Standard curve
Workspace
Password protected method
Sample ID list
magellan Standard
Default paths for saving newly created files can be set via: Wizard list main
page → Miscellaneous button → Options button → Paths tab.
Users can create new folders in any folder of the Windows Explorer during the
saving process.
In the Save window, the folder, specified by the default path of the file, is opened
automatically, whenever a new file is created. If an already existing file is
modified, the path to the current location of the file will be opened. However, it is
possible to save files in any folder of the Windows Explorer or in a newly created
folder.
magellan Tracker
magellan users with administration rights can set the default paths for saving
newly created files via: Wizard list main page → Miscellaneous button →
Options button → Paths. These default paths are valid for all users.
Users can create new subfolders only with Windows administrator rights and
only in the folder specified by the default path during the saving process.
In the Save window, the folder, specified by the default path of the file, is opened
automatically, whenever a new file is created. If an already existing file is
modified, the path to the current location of the file will be opened. However, it is
only possible to save files in the default folder, or in an existing or newly created
subfolder within this folder.
2. Start Working with magellan
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 21
2.2.3 Standard Elements
Each wizard displays sequentially a number of windows, in which all necessary
information, settings and data entry possibilities are provided.
Standard Elements of a magellan Wizard
For navigation from one window to another there are several buttons at the
bottom of the wizard page:
Back button
The Back button is used to navigate back to the previous
window within a wizard.
Next button
The Next button is used to navigate forward to the next window
within a wizard.
Finish button
The Finish button is used to navigate forward to the save
window of the wizard.
Save button
The Save button is only found in the last window of a wizard
and replaces the Next button. It is used to close the wizard and
save all changes or to start a process.
Cancel button
The Cancel button is used to close a wizard without saving any
changes to settings or documents.
Help button
The Help button opens the help window.
Standard Elements of Microsoft Windows
OK button
This button confirms settings, applies and saves changes
accordingly and closes the dialog box.
Cancel button
This button closes the dialog box without saving any changes to
settings or documents.
Help button
Click the Help button to open the magellan online help.
Status Bar Information
The status bar displays the following information:
• Current command info
• User name of the currently logged in user.
• Name of connected instrument. For example: Sunrise
• Method: measurement mode and unit. For example: Absorbance [OD]
• Workspace: date and time of measurement. For example: 27.11.2002
14:13:03
Number of selected wells. For example: 3 well(s) selected
• Keyboard status information: activity of the keyboard toggles: CAP (caps lock),
NUM (Numeric block lock), SCRL (Scroll lock)
• Instrument connection state icon
2.2.4 The Help Button
Click the Help button or press ‘F1’ to open the magellan online help.
2. Start Working with magellan
22 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
2.2.5 The Welcome Dialog Box
Each wizard starts with a Welcome dialog box, which gives a short introductory
description of the procedure to be performed.
Clear the Show welcome page check box to suppress welcome pages when
starting wizards in the future.
2.2.6 Shortcuts List
SHIFT+B
Back button
SHIFT+N
Next button
ESC
Cancel button
ENTER
Next or Finish button, if active window
F1
Help menu
CTRL+C or CTRL+INSERT
Copy
CTRL+V or SHIFT+INSERT
Paste
CTRL+X
Cut
CTRL+Y
Redo
CTRL+Z
Undo
DEL
Delete content of active well (edit sample ID,
edit formula)
CTRL+SHIFT
Show formula of selected well when
transformation result is viewed (Evaluate
Results wizard)
2. Start Working with magellan
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 23
2.3 Starting magellan
2.3.1 Starting Standard Version
Perform the following steps to start magellan:
1. Make sure that an instrument is connected or select a simulated instrument.
2. In the Windows Start menu, select the Tecan program group and click the
magellan icon.
3. magellan starts.
Note
magellan can be run with an instrument connected or in a demo mode,
simulating an instrument. If you want to connect to an instrument (see
chapter 2.4 Connecting an Instrument), switch the instrument on before
starting magellan.
Note
Before starting to work with magellan, we suggest reading the Release
Notes for magellan for any malfunctions in the application.
2.3.2 Starting Tracker Version
Note
When using magellan Tracker, the user administration system must be
customized by a designated administrator, who is responsible for the
setup of user accounts and for the assignment of user rights. The
Administrator must always be trained by Tecan or a Tecan authorized
organization.
Logging in for the First Time with magellan Tracker
When magellan Tracker is started for the first time, a dialog box appears,
informing the user that a User Administrator must be created first. Click OK
and the Create Administrator dialog box appears.
Complete the text fields and click OK to save the settings. At least one user
administrator must be created.
CAUTION
IF THE USER ADMINISTRATOR PASSWORD IS FORGOTTEN, USER
ADMINISTRATION SETTINGS CANNOT BE CHANGED AND MAGELLAN
MUST BE COMPLETELY REINSTALLED.
WE RECOMMEND TO CREATE AT LEAST TWO USER ADMINISTRATORS.
For all further user definitions of the user administration (e. g. user rights), refer
to chapter 9.4 User Administration (magellan Tracker) and chapter 9.5 User
Administration (magellan Standard).
2. Start Working with magellan
24 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Password
Initial Password (magellan Tracker only)
When a user logs in for the first time, the password assigned by the administrator
has to be changed.
After entering the User name and Password and clicking OK, the message
“Your initial password is only valid once. You have to change the password!”
appears. Click OK; the Change Password window forces the user to enter a
new password.
Password Expiration (magellan Tracker only)
When the password expires, the user will be prompted to enter a new password.
See chapter 9.4.4 User Administration Options.
Login
Once user administration has been activated, the Login dialog box will appear
each time magellan starts.
The Login dialog box contains the following elements:
Username text box
Enter your UserID
Password text box
Enter your Password
Click the GO button to enter or the Cancel button to terminate magellan.
Application Locked
If the application has not been in use for the specified maximum of time (user
defined only in magellan Tracker) it will be locked. The password must be
entered to unlock the application.
2.4 Connecting an Instrument
2.4.1 Connect to SUNRISE Instruments
Connect the instrument to your computer as described in the instructions for use
for the instrument and switch on the instrument before starting magellan.
First Start of magellan
The first time magellan is started, the Setup Port dialog box appears:
Instrument
Select the connected instrument from the drop down list or
select Find any.
Port
Select the appropriate COM port from the drop down list or
select Find any and Click OK.
2. Start Working with magellan
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 25
Change Instrument
Click the miscellaneous icon in the wizard list and instrument control in
the miscellaneous list. Select Change instrument from Setup & Service to
connect an instrument or to change the currently connected instrument.
Demo Mode
If no instrument is connected, select the instrument to be simulated from the
drop-down list in the Instrument group box and select Demo mode in the Port
group box. Click OK. magellan is now in demo mode.
Demo mode allowed (in the Options dialog) is selected by default.
In demo mode it is possible to perform all functions except running actual
measurements.
2.4.2 Connect to INFINITE F50 Instruments
First Start of magellan
The first time magellan is started, the Setup Port dialog box appears:
Select INFINITE F50 in the Instrument group box in the Setup Port dialog box.
Click OK to display the Connect to Instrument dialog box.
2. Start Working with magellan
26 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Select the instrument and click OK.
Demo Mode
If no instrument is connected, select the instrument to be simulated from the
drop down list in the Instrument group box of the Setup Port dialog.
For demo mode select the Show simulated instruments checkbox and the
preferred instrument from the drop-down list, click the instrument name and click
OK.
2. Start Working with magellan
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 27
2.4.3 Licensing magellan
Note
magellan can be used unregistered for 30 single days of work. If magellan
is not registered after this period, the save and print options will be
disabled.
The licensing of magellan is performed with the Register magellan wizard. If
magellan has not been registered, this wizard will launch automatically each
time the program is started.
The Register magellan wizard can also be opened via the miscellaneous icon
in the wizard list starting page. (miscellaneous → About magellan →
Register).
In order to register magellan, a Magellan serial number, the hardware (PC) unit
identification number (HUID) and a license number are required.
For licensing magellan there are two possibilities:
1. The software has been purchased. Together with the software the serial
number is delivered.
After the serial number has been entered in the register magellan dialog box, fill
out the registration form to start the license number request. The completed
registration form is sent together with the individual HUID to Tecan Austria. The
HUID number is generated by the software and is inserted into the registration
form automatically. It is related to Windows given system drive number.
After receiving the license number, you have to start the registration wizard again
and enter it. The Register magellan wizard confirms the license number and
summarizes the user information. Click the Finish button to complete the
registration procedure. magellan’s functions will then remain fully available to
the user.
2. The software was delivered as a demo version together with the instrument.
A registration is possible afterwards (No serial number is delivered).
To purchase magellan and to receive a serial number, select the option Order
magellan to obtain a valid license and proceed with the registration procedure
as described above.
Note
It is very important that the person who registers the software also has
administrator rights for the operating system on the computer.
2.4.4 Registration Wizard
The registration wizard starts with the Welcome dialog box, which contains a
short description of the wizard. Click Next and the Serial Number dialog box
appears.
Serial and License Number
Order a Serial Number for magellan
To purchase magellan and to receive a serial number, select the option Order
magellan to obtain a valid license. The Registration Form window will then
appear (see chapter Registration Form below).
2. Start Working with magellan
28 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
magellan has already been purchased
Select Enter your magellan serial number. Enter the serial number, which is
found in the magellan package.
After having entered the serial number, click Next and the License Number
dialog box appears.
Users installing the software for the first time will not yet have a license number
and must select Request a magellan license number because you did not
receive one. Click Next and the Registration Form window appears.
2. Start Working with magellan
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 29
Registration Form
Complete the registration form. Fields marked with an asterisk are mandatory.
Click Next and the license agreement window appears. Read it carefully and
click the I agree button.
Click Next and the registration information is displayed.
Click E-Mail Form… to send the information using the default e-mail program on
your computer or click Print Form… to print out the registration form for faxing or
mailing it to Tecan. Click View Form… to view the registration form using
WordPad or Notepad. Within 24 hours you will receive the license number.
Finishing Licensing magellan
After having received the license number of Tecan, repeat the steps above and
insert the license number. Click Next. The registration wizard then confirms the
license number and summarizes the user information.
Click Finish; the Register magellan wizard will close and magellan’s functions
will remain fully available to the user.
3. Instrument Control & Settings
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 31
3. Instrument Control & Settings
Click the Instrument Control button in the Wizard List dialog box and the
Instrument Control dialog box appears.
Depending on the instrument connected, different instrument and setup &
service options are enabled or disabled.
3.1 Instrument Options
3.1.1 Movements...
This opens the Movements dialog box, in which it is possible to control the
movements of the plate carrier and filter slide.
3.1.2 Temperature Control...
Only available for instruments equipped with temperature control.
This option allows the user to establish the temperature inside the reader.
This dialog is also accessible via the Start Measurement dialog box before
starting a measurement. (See chapter 6.5 Start Measurement with a Predefined
or Favorite Method).
Current
temperature
The current temperature is displayed in the corresponding
field. Click the Refresh button to update the current
temperature.
Target
temperature
To start or stop the temperature control, select or clear the
check box and enter the target temperature. Click Apply
to send the temperature to the instrument and finally OK to
close the dialog box.
3. Instrument Control & Settings
32 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
3.2 Setup & Service Options
3.2.1 Change Instrument...
In the Setup & Service box, click Change instrument… to open the Setup Port
dialog box.
This option allows connecting magellan to an instrument. See chapter
2.4 Connecting an Instrument for further details.
Note
If you connect another instrument to your computer or if you modify the
interface parameters, you must always select this menu option. The
settings will be automatically used the next time the software is launched.
3.2.2 Define Filter Slides...
Standard and custom filter slides can be defined. See the corresponding
chapters in the instrument Instructions for Use.
3.3 Log Files
During working with magellan log files are created. The communication between
the software and the instrument and the communication between components of
the software are stored in these log files.
They can be found in the following paths:
• magellan Log files (communication between single components of magellan):
Windows 10:
C:\Users\Public\Documents\Tecan\LogFiles\
• Collection of necessary log files
Log files can be saved as zip archive by selecting the Save Logfiles… button
in the File handling dialog (Miscellaneous → File Handling). The zip
archive can now be named and saved in a defined directory. In case of any
magellan measurement or status error(s), this archive contains all well data,
status (e.g. overflow, lamp low) or calculation error(s) and can be easily sent
to your local helpdesk for support request. For further information please refer
to chapter 9.2 File Handling – Save Log Files.
• INFINITE F50 log files (communication between magellan and INFINITE F50
instrument):
Windows 10:
C:\Users\Public\Documents\Tecan\LogFiles\Magellan\V x.y\Instrument Serial
Number
• SUNRISE Log files (RdrOle.log; communication between magellan and
SUNRISE Instrument):
Windows 10:
C:\Users\CurrentUser\AppData\Local\Temp
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 33
4. Create/Edit a Method Wizard
4.1 Introduction
The Create/Edit a Method wizard is used to
• Create or edit methods,
• Set measurement and evaluation parameters,
• Define the plate layout,
• Select the format of the printed report and
• Set the automated data handling parameters.
Workflow Summary
Click Continue on the welcome page of the Create/Edit a Method wizard. In the
next window, select
• Create new if you want to define a new method or
• Edit if you want to modify an existing method.
In the Define Measurement Parameters window, measurement parameters can
be set. Click Define Evaluation to define the plate layout, evaluation parameters,
print out and automated data handling parameters. At the end of the wizard the
new or modified method is saved as .mth file.
Note
For a step-by-step description of how to create a method, refer to
12 Application Example.
File Selection Page
In the wizard list, click Create/Edit a method button. Click Next on the welcome
page of the Create/Edit a method wizard and the File Selection page with the
following elements appears:
Create new
button
Select Create New button to create a new method.
Edit button
The Edit button must be selected to edit an existing method.
Show combo
box
In the Show combo box a file filter can be defined in order to get
only those methods in the list, which fulfill the selected criteria:
• All files
• Files from this instrument
• My files: This option is available if the user administration is
enabled (always enabled in magellan Tracker).
• Signed files: only available for magellan Tracker
• Example files: only available if they have been installed.
Filename list
Select the method to be edited from the Filename list.
A Remarks field next to every file name contains - if entered - a
short description of the method.
All methods available in the standard method directory will be
displayed (see chapter 9.3 Options).
Print
Preview…
button
Click the Print Preview... button to open the Print Preview
dialog box, where a preview of the settings of the selected
method is displayed and a printout can be started.
4. Create/Edit a Method Wizard
34 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Note
If a SUNRISE instrument is connected, but an INFINITE F50 method is
selected, the Instrument Mismatch dialog appears:
• Connect to the proper instrument.
4.2 Define the Measurement Parameters
In the Measurement Parameters window it is possible to set all required
parameters for the measurement, including measurement mode, wavelengths,
read mode, temperature, etc. depending on the type of instrument connected.
When connected to an INFINITE F50 instrument, refer to the Instructions for Use
for i-control for further details on defining measurement parameters.
4.2.1 Measurement Types - SUNRISE
Click Make your selection and the Measurement type dialog box appears:
The measurement type is to be selected from an option button list.
The Measurement type window contains the following elements (depending on
the instrument connected):
Measurement type
group box
• Select Endpoint measurement to perform a
single measurement.
• Select Kinetic measurement to perform kinetic
measurements per plate with a specified interval
time.
• Select Multilabel measurement to perform
multilabel measurements with different
measurement parameters.
Click Measurement parameters... to open the Measurement Parameter dialog
box.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 35
4.2.2 Measurement Parameters - SUNRISE
Select the required Measurement type and click Measurement parameters... .
to open the Measurement Parameter dialog box for adjustment of
• Barcode,
• Wavelengths,
• Measurement parameters (read mode),
• Kinetics
• Temperature and
• Shaking.
Click the OK button to save the changes and the Cancel button to reject them.
Depending on the instrument connected and on the measurement type selected,
the Measurement Parameters dialog box and the respective tabs available vary.
When connected to an Infinite instrument refer to the Instructions for Use for
i-control.
Multilabel Measurement
If the measurement type multilabel measurement was selected, the Multilabel
Measurement dialog box is displayed.
To create a list of parameter windows the New button must be clicked. The
Measurement Parameters dialog box will appear where a new set of
measurement parameters can be defined. At least two sets of measurement
parameters must be created in the multilabel dialog box.
Note
If Move plate out after measurement is selected when running the
method, magellan displays a message box where liquids in the plate can
be modified and the measurement continued. Otherwise the
measurement is performed without a break.
The measurement parameter Comments can be used to label the set of
measurement parameters in the list.
The Multilabel dialog box contains the following elements:
4. Create/Edit a Method Wizard
36 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Label list
In the Multilabel list the existing measurement parameter
definitions are listed line by line. In the No. column a guide
number counts up the existing measurement parameter
definitions and a small icon is presented. The Label
column displays a customizable name (in Measurement
Parameters – General Tab – Comment to this
measurement). The Measurement parameters column
lists a summary of the selected measurement parameters.
New button
Click the New button and the measurement parameters of
each new measurement can be defined. The
Measurement Parameters dialog box will appear.
Define names for each label. In the Measurement
Parameters dialog box, the name written in the comment
field of the General tab is used as label.
All parameters must be entered to define a new
measurement.
Properties...
button
Click the Properties button and all measurement
parameters of the highlighted label in the measurement
parameters list are displayed and can be edited.
Delete button
Click Delete or press DEL to delete the highlighted
measurement parameter(s) from the multilabel field.
Number of cycles
Defines the number of kinetic cycles for a multilabel kinetic
measurement.
Interval
Defines the kinetic interval or the pause between labels (if
only one cycle is defined).
4.2.3 Measurement Parameters - INFINITE F50
Defining Endpoint Measurements
The following example describes an Absorbance Endpoint Measurement in all
wells of a 96-well microplate.
1. Select a 96-well microplate from the Plate definition drop-down list.
2. By default, all wells of the 96-well microplate are chosen for measurement.
3. Enter the desired measurement and reference wavelengths.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 37
Defining Multilabel Measurements
The following example describes an Absorbance Multilabel Measurement in
all wells of a 96-well microplate. Three absorbance labels shall be measured.
1. Select a 96-well microplate from the Plate definition drop-down list.
2. By default, all wells of the 96-well microplate are chosen for measurement.
3. Enter the desired measurement wavelength.
4. Insert 2 more Absorbance elements and enter the measurement
wavelengths.
Defining Kinetic Measurements
The following example describes a kinetic measurement of a 96-well microplate.
1. Select a 96-well microplate from the Plate definition drop-down list.
2. Insert a Kinetic Cycle program element between the part of plate and the
absorbance element.
3. Cycles/Number of cycles: 50
4. Kinetic interval (interval between measurements): select Use kinetic interval
and enter: 2 minutes 30 seconds.
5. Define the Absorbance element by entering the desired measurement
wavelength.
4. Create/Edit a Method Wizard
38 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
4.3 Define Evaluation
4.3.1 The Create/Edit Method Overview Window
In the Define Evaluation window the user defines the plate layout,
transformations and calculations, selects the format of the printed report and sets
the automated date handling parameters.
Toolbar
On top of the window a Toolbar is displayed with the most common functions
depending on the currently selected options:
Undo button
Click Undo to undo a previous action.
Redo button
Click Redo to redo an action that was undone.
Select all unused
button
Plate Layout mode only: All unused wells of the plate
are marked.
Zoom to 10%
button
This will set the plate layout view to 10%.
Zoom to 100%
button
This will set the plate layout view to 100%.
Zoom mode button
Use the Zoom mode button to zoom into the marked
area. If activated, the user can select an area to zoom in
by clicking and dragging a frame over the desired layout
area. Click the right mouse button to zoom out to 100%
display.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 39
Plate Layout Window
In the central area of the window the Plate Layout Window displays a
schematically layout of a microplate.
When creating a new method select the wells for the measurement. A mouse
click selects an individual well. Unselected wells will remain gray.
For the defined layout, the identifiers, transformations and formulas selected in
the Control Bar are displayed in the corresponding wells (see Control Bar of
Create/Edit Method below).
Plate Layout: Context-Sensitive Menu
By right-clicking on a well on the plate layout, a context-sensitive menu for the
marked wells is displayed. The following commands are available:
Menu
Description
Summary…
Any plate view. The Summary dialog box is displayed.
Refer to chapter 7.4.18 Context-Sensitive Menu of a Well/
Summary Dialog for further information on the Summary…
dialog box.
This option is available if a layout has been assigned to the
selected well.
Fill Selection
Plate Layout mode only. If a well or an area of the plate
has been marked, it can be filled with the respective
identifiers. The IDs and the color identifiers will be
displayed on the plate layout.
Delete Selection
Plate Layout mode only: This command will delete the
IDs and color identifiers of the selected wells and leave
them blank.
Select all Unused
Plate Layout mode only: All unused wells of the plate are
marked.
Set / Remove
Alias…
Plate Layout mode only: Sets or removes alias
designations for the well names.
See chapter 4.3.2 Method Layout: How to Define a Plate
Layout/ Assign Alias to the Required Well.
Control Bar of Create/Edit Method Tab
The Control Bar on the left of the screen provides a number of options, which
should be executed in the suggested sequence. Depending on the kind of
measurement and the connected reader type, some of the options may not be
available and therefore are hidden.
When selecting an item in the control bar the corresponding dialog or plate view
is displayed in the Plate Layout window pane on the right side of the screen.
All available options will be marked with a checkmark, once they have been
defined. For any kind of transformation the transformation name is displayed.
The Control bar - Create/edit method tab contains the following elements:
4. Create/Edit a Method Wizard
40 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Method layout
group
• Plate layout item
The Plate layout window is opened, displaying the plate
layout and the Well assignment dialog box.
• Conc., Dil., and Ref.-values item
The Concentration/Dilution/Reference definition dialog
box is opened, displaying the dilution, concentration or
reference value of each well. The standard
concentrations can be established as well as the dilution
factors and the reference values. An Autofill function
provides easy assignment of concentrations in case of
distinctive mathematical relations of the concentrations
between the individual wells.
Precalculation
• Spectra data reduction for wavelength scans
Transformed data
group
• Add new transformation … item
The Plate layout window is opened, displaying the
plate layout and the Transformations dialog input
field.
Kinetic group
• Kinetic data reduction item
The Kinetics Calculation Parameters window is
opened. The evaluation of the kinetics measurement
data can be defined.
Kinetics
transformation
• Add new kinetic transformation … item
The Plate layout window is opened, displaying the
plate layout and the Transformations dialog input
field (only kinetic input data can be selected).
Concentrations
group
• Standard curve item
The Standard Curve window is opened to set the
parameters for the calculation of concentrations and
the graphical display of the standard curve of the
evaluated data.
Concentration
transformation
data group
• Add new concentration transformation … item
The Plate layout window is opened, displaying the
plate layout and the Concentration Transformations
dialog input field (only concentrations can be selected
as input data).
Evaluate data
group
• Cutoff definition item
• QC validation item
The Define Cutoff window is opened. In this dialog
box the limits for a qualitative evaluation (screening)
can be defined.
The Define QC Validation window is opened. It is used
to verify the validity of a test.
Data handling
group
• Data export item
• Printed report item
• Automated data handling item
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 41
Miscellaneous
group
• User prompts item
• Number format item
• Method notes item
The Define User Prompts window enables the
assignment of data (keywords, comments or prompts) to
each measurement, which can then be incorporated into
a printout.
The Number format window allows the user to define the
number format for the displayed raw data or transformed
data.
In the Method notes it is possible to enter a description
of the method.
Control Bar – Create/Edit Method Tab: Context-Sensitive Menu
By right-clicking on any transformation, kinetic transformation and concentration
transformation on the control bar, a context-sensitive menu for the marked
transformation is displayed. The following commands are available:
Menu
Description
Rename transformation
A different name can be assigned to the selected
transformation.
Insert transformation
Used to define a new transformation.
Remove transformation
Used to delete a transformation.
4.3.2 Method Layout: How to Define a Plate Layout
In the Control bar expand Method layout and select Plate layout. The Plate
view and the Well Assignment dialog box are displayed.
To each well in the analysis plate an identifier can be assigned. On this basis the
plate layout should be defined, (i.e. a well that is to be viewed as being a positive
control, would be allocated a different identifier from that of a well that is to be
viewed as being a negative control).
4. Create/Edit a Method Wizard
42 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Standard identifiers are:
Sample
SM (Sample)
Blank
BL (Blank)
BF (Polarization reference
buffer)
Reference
RF (Polarization reference)
Standard
ST (Standard)
Control
PC (Positive control)
NC (Negative control)
LPC (Low positive control)
HPC (High positive control)
CL (Calibrator)
Assign an Identifier to the Required Well
In the Well Assignment dialog box, well identification and layout definition can
be carried out. This box also provides a number of automated ID assignment
capabilities, which is an essential tool for high density plates.
The desired settings must be made in the Well Assignment dialog box.
Generally, the wells can be selected by clicking the individual well or dragging
the mouse over the required wells.
Following ways are possible to assign the selected identifier to the wells:
• Double-click when making the selection of the well
• Select the wells on the microplate and then click the Fill selection button (or
click the right mouse button and select Fill selection in the context-sensitive
menu) on the Well Assignment dialog box
• Select the wells on the microplate and then double click the identifier in the
identifier list box of the well assignment dialog.
• After assigning the definitions the display in the modified wells will change.
Example of a labeled well:
SM1_4
1
st
line: sample, experimental group number of 1, sample ID
number of 4.
1/14
2
nd
line: number of replicate is 1, total number of replicates
is 14.
x-BL1
3
rd
line: primary empty – filled with the transformation
formula or a concentration, dilution or reference value if
defined, e.g. reduce the value of this well (x) by the mean of
the blanks.
The Well assignment dialog box contains the following elements:
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 43
Identifiers
group box
In this group box, corresponding identifiers for the marked
wells have to be selected.
• All available identifiers are listed in a drop-down list.
• Click the Define Identif… button to define additional
identifiers. The Define Identifiers dialog box appears,
see below for further details.
Exp. group
selection field
If the plate is made up of more than one test, then there
needs to be more than one experiment group. In the
Experiment group selection field, define which experiment
the wells belong to.
ID-Num.
group box
The ID Number is used to assign the same ID to replicates
that belong together. The ID Number is only available for
samples and standards.
• ID-Num. selection field
The ID-Num option allows the user to mark those
replicates that are associated with the same ID. This can
be used if the replicates have been assigned to different
areas of the plate.
• Arrow buttons
The ID will be calculated automatically. If a number of
wells is marked, the direction in which the IDs are
assigned to the wells (vertically, horizontally) can be
established using the arrow buttons.
Replicates group
box
Determines the number of replicates for the selected
identifier type. Two option buttons allow the decision whether
multiple or individual values are to be defined:
• Fix number option button
Only enabled for standards and samples where IDs can
be used.
If this option button is active a number can be entered in
the corresponding text field. This number defines how
many replicates are intended for this identifier. The
selected wells are then filled with the entered number of
replicates. Therefore, the number of selected wells must
be a multiple of the entered number of replicates.
• All option button
All selected wells are defined as replicates of one
identifier. If an existing ID number for the samples and
standards is chosen, the selected wells are then added
as replicates to the existing replicates. With all other
identifier types the selected wells are added as replicates
to the existing replicates.
Two Arrow buttons define the direction of counting up the
replicate number.
Fill section
button
If an area of the plate has been marked, it can be filled with
the respective identifiers. The IDs and the color of the
identifiers will be displayed on the plate layout.
Delete section
button
Click Delete or press DEL to delete the IDs and color
identifiers of the selected wells and leave them blank.
Define identifier
button
Click Def. identif. if a new identifier is to be defined or if an
existing identifier is to be edited (see Expert’s Know How,
Define a New Identifier)
4. Create/Edit a Method Wizard
44 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Assign Alias to the Required Well
To assign alias designations for defined well names, click the right mouse button
in the required well, select Set/Remove Alias... and choose an alternative
identifier name in the drop-down list. The alias is marked with an asterisk * and
has same experimental group, ID number and replicate number as the primarily
defined well. This feature is used, if e.g. the 0-Standard is also used as Negative
control.
Define a New Identifier
In the Well Assignment dialog box, click Def. Identif. to define a new identifier
or edit an existing one.
The identifiers are listed in groups (see table below). Highlighting an identifier, its
properties are displayed in the right window.
Standard identifiers are:
Sample
SM (Sample)
Blank
BL (Blank)
BF (Polarization reference buffer)
Reference
RF (Polarization reference)
Standard
ST (Standard)
Control
PC (Positive control)
NC (Negative control)
LPC (Low positive control)
HPC (High positive control)
CL (Calibrator)
The Define Identifiers dialog box contains the following elements:
Identifier tree
structure
A structured view of all existing identifiers, their colors
and abbreviations is offered in a small window.
The identifiers are listed under the groups Sample,
Blank, Reference, Standard and Control.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 45
Identifier group box
The criteria held by the various identifiers used in the
program will be displayed. If new identifiers are
required, they can be inserted here.
In the Identifier group box, the type, abbreviation, well
color and description of the identifier selected in the
tree structure is displayed.
The Identifier group box is only activated for entering
data, when
• one of the identifier groups in the tree structure is
selected and the Insert button has been clicked or
• one of the identifiers in the tree structure is
selected and the Edit button has been clicked.
Then, in this group box, the type, abbreviation, well
color and description of the new identifier need to be
defined.
Type text field:
The type of identifier is displayed. No changes are
possible.
Abbreviation text field:
The identifier’s abbreviation will be used in the analysis
plate display.
Color drop down list:
The color of the identifier on the plate layout has to be
selected here.
Description text field:
A text description can be entered for each identifier.
Use one of these two buttons to save changes of newly
entered data or to discard any changes:
Save button:
The Save button saves the entered color, abbreviation
and description of the relevant identifier.
Discard button:
The Discard button will cancel any changes.
Insert button
Click the Insert button to create a new identifier. This
new identifier will be associated with the currently
selected identifier group in the tree structure.
Edit button
A selected identifier can be modified.
Delete button
Click Delete or press DEL to delete any selected
identifier.
Set as default
button
Using this option, the settings can be defined as default
for future use.
Restore default
button
Using this option, the settings can be reset to the
previously defined default.
4. Create/Edit a Method Wizard
46 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
4.3.3 Method Layout: Conc., Dil. and Ref. Values
In the Control bar expand Method layout and select Conc./Dil./Ref.-values.
The Plate View and the Select Identifier dialog box are displayed.
The Concentration/Dilution/Reference window contains the following elements:
Select Identifier
drop-down list
The values are co-related within the individual well
types; this field provides all wells currently included in
the measurement. Select an identifier to edit the
corresponding dilution or concentration factors.
All wells, which match the selected well type identifier,
are listed.
Exp. group
selection field
Select the respective experimental group. If there is
only one experimental group, the field cannot be edited.
Table with Identifier
and Concentration/
Dilution columns
This table displays all wells in the Identifier column,
which match the selected identifier (as from the Select
Identifier list). The corresponding dilutions,
concentrations or reference values are inserted and
listed in the Dilution/Concentration/Reference
column. E.g. entering a dilution factor of 2 means that
the sample has been diluted by half. The calculated
concentration will therefore be multiplied by 2.
Unit text field
The displayed concentration unit can be determined.
Autofill check box
The Autofill function provides the calculation of the
corresponding concentrations or dilution factors
according to available types of series.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 47
Option buttons for the
mathematical
concentration
calculation
If the Autofill check box has been selected, the
following options are available:
• Arithmetic series: a (n+1) = a (n) + .....
• Geometric series: a (n+1) = a (n) x .....
• User defined series a(n+1) = ...
Example: Each subsequent concentration should
contain twice + 0.5 of the previous concentration:
Formula 1: a(n+1) = 2 * n + 0.5
Apply button
The Apply button applies the selected mathematical
concentration calculation to the wells as displayed in
the table with Identifier and Concentration/ Dilution
columns.
Dilution series
group box
Calculate ICx check box
Displays a dilution graph of the sample and
automatically calculates the ICx values. This requires
samples with at least 4 replicates and at least 4
different dilutions defined.
Input Data drop down list
Select from the drop down list the input data.
Calculation Condition text field
The intercept will be calculated with the entered
percentage of the maximum value respectively
maximum value minus minimum value*.
ICx name text field
Data can be selected for ICx calculation. The name is
filled in automatically based on the calculation
condition.
Set 0% value to
Intensity 0*
Min. intensity of dilution series*
Dilution can be edited directly in the plate layout window by right mouse clicking
in one or more selected wells. In this way, it is possible to assign different dilution
values to replicates.
4. Create/Edit a Method Wizard
48 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
ICx Calculation
The mathematical calculation of the fit for the dilution series is identical to the
calculation of the standard curve with the Marquardt 4 parameter algorithm.
This requires at least four replicates with different dilutions.
In addition, the specified intercept(s), e.g. IC 50 is calculated.
It is possible to define more than one intercept for the dilution series.
It is possible to define the 0% value for the calculation by selecting:
• Intensity 0
Using 0 OD
The largest value of the dilution series is considered 100%, the value of 0 is
considered 0%. The ICx (e.g. IC 50) is then defined as the dilution where the
response reaches x% (e.g. 50%). It is only calculated if the value is within the
available data (no extrapolation is used).
or
• Minimum intensity of the dilution series
Using the minimal intensity of the dilution series
Note
The IC 50 is often calculated with the mean value of dilution=1:1 and
dilution=1:infinity. To achieve this, the dilution series must be baseline
corrected before ICx calculation.
The largest value of the dilution series is considered 100%, the minimum
intensity of the dilution series is considered 0%.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 49
4.3.4 Precalculation: Spectra Data Reduction
This option is only available for measurements containing a two-dimensional
scan (absorbance scan).
Expand Precalculation in the control bar and select Spectra Data Reduction.
Spectra data reduction allows to perform a spectra blank reduction and to extract
specific data, e.g. intensities, from the scan.
The Spectra data reduction window contains the following elements:
Blank reduction
check box
This option is only available if blanks are defined on the
layout. The blank reduced spectra is calculated by
subtracting the spectrum of the blank well from all other
wells. When more blanks are defined on the plate, e.g.
when multiple experimental groups are defined, an
additional options button appears. This allows to define
the blank to be used.
Input data text box: shows the input data to be
processed.
Blank reduction option button: select, if a blank reduction
should be performed on the selected experimental group.
Reduce all by dropdown list: select to define the identifier
to be used for blank reduction.
Smooth check
box
A spectrum containing a lot of noise can be smoothed. A
smooth factor can be set in the options part. This factor
defines the degree of smoothing.
Input data text box: shows the input data to be
processed.
Smooth factor: to define the smooth factor.
4. Create/Edit a Method Wizard
50 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Wavelength pick
check box
Wavelength pick is used to extract intensities at specific
wavelengths and calculate results like ratios. It is
mandatory to set the options.
The Wavelength pick parameters dialog box contains the
following elements:
Intensities at a specific wavelength can be extracted,
ratios and areas can be calculated and customized
formulas can be entered.
Input data text box: shows the input data to be
processed.
Pick Wavelengths option button: an intensity at a specific
wavelength can be added to the list of calculated results.
Calculate Ratio option button: two wavelengths can be
specified. The ratio of the intensities at those wavelengths
is calculated and available as result.
Area: to calculate the area below the spectra curve
between two defined wavelengths.
Custom option button: a user defined formula can be
entered. Intensities at specified wavelengths can be used
in formulas.
Results list box: summarizes all defined formulas
Add button: the current selection is added to the list of
results.
Delete button: the selected result is removed from the list.
Edit button: the data name of the selected result can be
defined.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 51
Normalize check
box
The Normalize parameters dialog box contains the
following elements:
Use this option to normalize the spectrum to the intensity
at a given wavelength or to the maximum intensity of the
spectra graph of each well.
Input data text box: shows the input data to be
processed.
Normalize to: select between maximum intensity or insert
customized intensity.
Peak check box
A peak is defined as the position of the maximum value of
the spectrum. Overflows and maxima at the left or right
border of the spectrum are not treated as peaks. It is very
important to sufficiently smooth the spectrum before
finding a peak.
The Peak parameters dialog box contains the following
elements:
Use this option to find the peak with the highest intensity
within a defined wavelength.
The threshold (OD/RFU value) and the calculation criteria
for calculation of width and area can be defined as well.
The following data will be calculated for the found path:
• peak intensity
• wavelength of the peak
• peak width
• peak area
Custom
formulas check
box
Select this check box to enter formulas to calculate the
spectrum using given functions; e. g. smooth.
Refer to chapter 11.2 Spectra Data Reduction for further
information.
Transformation must either return a spectrum or a single
data for all wells; it is not possible to mix both. Using this
option, functions can be defined which are not available in
the standard selection. E.g. to find more peaks within a
spectrum or to create a derivation of a spectrum.
4. Create/Edit a Method Wizard
52 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Available results
Available results of all data are listed.
S is a spectrum
V is a value.
4.3.5 Transformed Data: Add New Transformation
In the control bar expand Transformed data. All defined transformations are
displayed in the control bar.
To define a new transformation, select the well(s) for which the transformation is
to be applied and click Add new transformation… .
The default name should be changed immediately in the edit box. The name can
be inserted or changed also later, clicking Rename Transformation from the
context-sensitive menu.
A typical example of a transformation is the reduction of the empty value (blank)
from all wells.
Note
The transformation name has to be in Latin characters in order to make
the transformation available as additional input data for further
transformations with multiple input data.
Note
The name of a transformation is used to represent the result of the
calculations and will also be used when the values are displayed in the
specific data output menus. Calculated values of the transformations are
also available as input data for further evaluations.
Note
If a blank is set in the Plate Layout, the formula to calculate the blank
reduction is offered in the combo box: x-BL1.
The symbol x refers to the current value within a well. BL1 is the average
value of the blank well(s).
Note
If a multilabel measurement with two labels is defined, different formulas
to reduce the multilabel data are offered in the combo box.
‘Label1’!x/’Label2’!x … predefined ratio calculation
‘Label2’!x/’Label1’!x … predefined ratio calculation
‘Label1’!x-‘Label2’!x … predefined difference calculation
‘Label2’!x-‘Label1’!x … predefined difference calculation
(‘Lable1’!x-‘Label1’!BL1)/(‘Label2’!x-‘Label2’!BL1) ...
predefined ratio caculation with blank reduction
(‘Lable2’!x-‘Label2’!BL1)/(‘Label1’!x-‘Label1’!BL1) ...
predefined ratio caculation with blank reduction
Note
If the read mode is set to absorbance, the formula to calculate the
transmission is offered in the combo box: 1/10^x.
A number of transformation calculations can be defined when setting up the
method. A typical example of this is the deduction of the empty value (blank)
from all wells. Refer to chapter 11.3 How to Write a Formula for more details.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 53
The formula text box above the plate view is used to define these various
transformation calculations, using raw data and previous transformations as
input data.
On the microplate, the wells for which the transformation is to be applied must be
selected.
The transformations edit field contains the following elements:
Input data drop down
list
The list contains the measurement values, the results
from precalculations and all already defined
transformations, as well as the averages. If Mean data
is selected as Input data for Transformations, then
transformations will be assigned to the first replicate of
an identifier only.
Formula text box fx
Formulas can be entered by typing or by selecting the
needed function from the Functions&Constants list box.
Formula drop down
list
This list contains some standard formulas (see Notes
below) and all formulas which have been incorporated
into the current method. A formula may therefore be
selected from this list or a new formula can be added.
Formulas for transformations can be entered using the
appropriate variables, operators and multiple functions.
Confirm button
Formula edit mode only. Green hook
Assigns the transformations to the selected well.
Click Confirm button or press ENTER key to assign the
formula definition to the well and change to Select
mode.
Cancel button
Formula edit mode only. Red cross
Click the Cancel button or press the CANCEL key to
leave the Edit mode without assigning the formula
definition to the well.
Available data drop
down list
Select from this list the appropriate data, if more than
one set of input data shall be used for calculations. The
data set will appear in the formula text box within
apostrophes followed by an exclamation sign. To
complete the definition, enter the identifier’s name or
refer to the corresponding value within the well. E. g.
‘Raw data’ ! BL1
The list contains the measurement values, the results
from precalculations and all, up to this moment defined
transformations.
Functions drop down
list
Lists all mathematical and Boolean functions for the
definition of formulas.
Options button
Use this button to customize the behavior when
selecting wells in the edit mode. It is possible to select
between the following options:
• Identifier average name
• Identifier replicate name
• Plate well name
Constants button
Click this button to open the Define Constants dialog
box where constants for calculation can be defined.
The transformation definition has two modes:
4. Create/Edit a Method Wizard
54 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Select mode
When clicking on a well, the corresponding formula is
displayed in the text box. The currently active well is
displayed with a red border.
Edit mode
When entering a formula or pressing the ‘=’ key, the
active well is displayed with a blue border. Selecting
other wells adds the corresponding identifier to the
current formula. When selecting the currently active well
an ‘x’ is added to the formula. The symbol ‘x’ refers to
the current value within a well.
Once the formula is created, it will be assigned to the selected well with pressing
enter or clicking the confirm button (green hook). After assigning the formula the
select mode is reached. An integrated formula checker verifies the plausibility of
the formula. A warning appears in case the created formula is not executable.
Select CANCEL to discard the defined formula and to reach the select mode. It
is also possible to use the corresponding buttons on the left of the formula text
box.
When in Select mode click the red square in the right lower edge of the well and
drag the red selection frame over those wells for which the formula should be set.
It is also possible to select the desired wells and use the functions Set Formula
and Remove Formula(s) which are available from the context-sensitive menu.
These actions have to be performed for all wells, which shall contain
transformations.
Define Constants
Use the Define Constants dialog box to define the constant values of a method.
These constants can be used wherever a formula can be entered.
Click the OK button to save the edited parameters.
The Define Constants dialog box contains the following elements:
Constants list
In each row, a constant can be defined. The rows are divided
into 4 columns:
• Name
Enter an appropriate identifier name for the constant, for
example: a code or an abbreviation. Only letters can be
used.
• Value
In the Value text field a numerical value must be allocated
to the constant.
• Comment
Enter a short comment to the constant.
• Req. ("required")
The Req. check box indicates that a measurement can only
be launched on receipt or confirmation of the value for the
constant.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 55
4.3.6 Kinetic: Kinetic Data Reduction
In the control bar expand Kinetic and select Kinetic data reduction.
The dialog box is structured in tabs: Slopes, Onsets, Min./Max./Area, Available
output data, Enzyme kinetics. The unit of the values is displayed according to
the selected measurement mode (for example: OD for absorbance).
Note
Unusable data (e.g. overflow values) are ignored for kinetic data
calculation.
Slopes Tab
This tab allows the user to establish the evaluation of the kinetic curve’s slope:
Input data drop
down list
Select the input data to be processed.
Calculation drop
down list
Select the calculation method, linear or quadratic
(refer to chapter 11 Calculations).
Mean slope
check box
The start and end time can be typed into the provided
text fields, otherwise the whole kinetic is analyzed.
• Time/Points option buttons:
If Time is selected the start and end time is entered in
hours, minutes and seconds. If Points is selected the
start and end point for the analysis is given through
the entered kinetic cycle number.
• Start field:
The start time (in hours, minutes and seconds) or
cycle number must be entered here.
• End field:
The end time (in hours, minutes and seconds) or cycle
number must be entered here.
Maximum slope
check box
The start and end time can be typed into the provided
text fields, otherwise the whole kinetic is analyzed.
• Time/Points option buttons:
If Time is selected the start and end time is entered in
hours, minutes and seconds. If Points is selected the
start and end point for the analysis is given through
the entered kinetic cycle number.
• Start field:
The start time (in hours, minutes and seconds) or
cycle number has to be entered here.
• End field:
The end time (in hours, minutes and seconds) or cycle
number has to be entered here.
• Points text field:
Select for how many points the maximum slope
calculation is performed.
The mean slope option determines the mean slope (mean increase/decrease)
throughout the defined interval. A start time, end time and a calculation mode
(linear or quadratic) must first be entered. All measurement points that fall within
the selected interval will be determined. A regression line (linear regression or
polynom 2nd degree) will be laid through the selected measurement points and
4. Create/Edit a Method Wizard
56 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
the mean slope will be formed. The mean slope is defined as the arithmetical
mean of the slopes that are calculated from the center points of two adjacent
measurement points. The kinetics data made available through this method,
includes the mean slope per second, per minute and per hour, as well as the
correlation coefficient and the goodness of fit.
Using the maximum slope option, the maximum slope (maximum
increase/decrease) achieved in the selected interval will be determined. Under
the Points option, the number of combined points has to be entered. At the
beginning the slope will be calculated from the center point of the 1
st
and the n
th
point from the first n points. Then the interval will be moved one point further and
the process is repeated. This process will continue over all points within the
selected interval. The result will be determined as the largest absolute value of
these individual slopes. The kinetics data made available through this method
includes the maximum slope per second, per minute and per hour, as well as the
time span from the first measurement to the maximum slope in seconds.
Onsets Tab
Use the Onsets tab to determine the time to reach a certain data point (OD
value):
Input data drop
down list
Select the input data to be processed.
Time to onset
check box
If the Time to onset check box is selected, an absolute
value for the onset can be entered in the following text
field.
• Text field:
An absolute value for the onset must be entered.
• Basis mean of the first n points option button and
text field:
If selected, enter the desired number of points.
• Basis option button and text field:
If selected, an absolute value for the basis must be
entered in the adjacent text field.
Time to onset %
check box
If the Time to onset % check box is selected, a
percentage value for the onset can be entered in the
following text field.
• Text field:
A percentage value for the onset must be entered.
• Basis mean of the first n points option button and
text field:
If selected, the desired number of points can be
entered.
• Basis option button and text field:
If selected, an absolute value for the basis must be
entered in the adjacent text field.
The result data made available through this method includes the basis value, the
time taken to reach the basis value, the time taken to reach the sum of basis and
onset value, and the difference of these two time spans (Time Basis to Onset).
With increasing kinetic measurement values the onset value is to be defined as a
positive number, with decreasing values the onset value is to be defined as a
negative number.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 57
Min./Max./Area Tab
Use this tab to define the evaluation of the minimum and maximum values
contained in the curve and to define the calculation of the area under the kinetic
curve:
Input data
drop down list
Select the input data to be processed.
Mean minimum
value check box
Select to open the Points text field where the fixed
number of points has to be entered for the minimum
value. An even curve will then be generated using these
points and the lowest value contained in the curve
determined.
Mean maximum
value check box
Select to open the Points text field where the fixed
number of points must be entered for the maximum
value. An even curve will then be generated using these
points and the highest value contained in the curve
determined.
Area check box
The start and end time can be typed into the provided
text fields, otherwise the whole kinetic is analyzed.
• Time/Points option buttons:
If Time is selected the start and end time is entered in
hours, minutes and seconds. If Points is selected the
start and end point for the analysis is given through
the entered kinetic cycle number.
• Start field:
The start time (in hours, minutes and seconds) or
cycle number has to be entered here.
• End field:
The end time (in hours, minutes and seconds) or cycle
number has to be entered here.
Averages are taken from the number of points starting from the first kinetic
measurement value and stepping through one by one until the last kinetic
measurement point is included in the average calculation. The
minimum/maximum value is determined from these averages.
The result data made available through this method includes minimum/maximum
value and the time span from the first measurement to the minimum/maximum
value in seconds.
Example:
With a kinetic of 5 cycles and a fixed number of 3 points, following averages are
taken:
average of 1
st
, 2
nd
, and 3
rd
kinetic value
average of 2
nd
, 3
rd
, and 4
th
kinetic value
average of 3
rd
, 4
th
, and 5
th
kinetic value
The minimum/maximum value is determined from these 3 averages.
The area under the curve is calculated using the formula given below:
−
=
++
+
−−
+−=
1
1
11
1
2
)(*)(
)(*
n
i
iiii
iii
xxyy
xxyA
4. Create/Edit a Method Wizard
58 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Available Data Tab
A list of the results is displayed in the Available output data tab:
Data field
The data field lists values as selected in the previous
tabs of the Kinetic Calculation Parameters dialog box.
This data field is for pure display of the listed output data
only and provides no edit functions.
Enzyme Kinetics Tab
Use this tab to establish the evaluation of enzyme kinetics according to the
model of Michaelis and Menten:
Input data drop
down list
Select the input data to be processed.
Calculate Km and
Vmax check box
Decide whether to calculate Km and Vmax selecting the
corresponding check box.
Calculation type
group box
The calculation type can be selected as:
• Hanes (concentration versus concentration/input data)
• Eadie-Hofstee (input data/concentration versus input
data)
• Lineweaver-Burk(1/input data versus 1/concentration)
The result data made available through this method includes Km and Vmax for
Enzyme kinetic graph of each experimental group.
Unlike the results of the other kinetic calculations, these results are displayed in
the Graph: Enzyme Kinetics dialog box.
This tab is only available if standards are on the plate and either transformations
or slope calculations are defined.
4.3.7 Kinetics Transformations: Add New Kinetics
Transformations
In the Kinetic transformations dialog box a transformation formula can be defined,
which is used for transforming kinetic input data individually for every well.
In the Kinetic transformations dialog box further calculations can be performed
on kinetic input data.
The window elements are similar to the Transformation input. Refer to chapter
4.3.5 Transformed Data: Add New Transformation for further information.
4.3.8 Concentrations: Standard Curve
Use this option to set up standard curves for quantitative tests.
The standard curve dialog box contains various settings concerning the analysis
type, the axes and the display of the standard curve. The editable fields and
elements are grouped in 5 different tabs.
Data Tab
This tab stipulates some basic settings like the input data source.
Exp. group spin
control
If several tests are to be performed on one plate the
Experiment group must be selected. If the plate
contains only one test, then the spin control will not be
displayed.
For each experiment group the input data can be defined
individually.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 59
Input data drop
down list
Select the Input data to be used for the standard curve.
Select measurement data or any available transformation
results.
Standards from
layout option button
Calculate the standard curve from the standards on the
layout.
Standards from
ext. file option
button
If the selected experimental group contains no standards,
a standard curve can be loaded from a .std file. The
Select button must be clicked to select the file.
Standards from
exp. group option
button
If the selected experimental group contains no standards,
a standard curve from another experimental group can be
used.
No standard curve
option button
If the selected experimental group contains no standards,
it can be decided to calculate no concentrations for this
experimental group (in this case set per default).
Additional
Concentrations
button
Click the Additional Concentrations button to open the
Calculate Additional Concentration dialog box. Select
additional sets of input data, which are to be used to
calculate concentrations based on the current standard
curve.
The Calculate Additional Concentrations dialog box contains the following
elements:
Input data drop
down list
Select the input data for calculation of additional
concentrations.
Selected data list
The list contains the input data names for calculation of
additional concentrations.
Add button
Click the Add button to add the currently selected input
data in the Input data drop down list to the Selected
data list.
Remove button
Click the Remove button to remove the currently
selected data from the Selected data list.
Analysis Type Tab
Use this tab to select the analysis type. Please refer to chapter 11.4 Standard
Curve Analysis Types for a detailed description of the analysis types.
Analysis type
option buttons
Select which interpolation algorithm is to be employed
when calculating the standard curve:
All offered analysis types are listed and can be selected:
1. Point to point
2. Linear Regression
3. Non-linear Regression
4. Cubic spline
5. Akima
6. Polynomial (including the field for selection of the
polynomial order and including weight options)
7. Four Parameters (including the more button for
minimum and maximum determination)
8. Four Parameters Marquardt (including the more
button for definition of the weighting options)
9. Five parameters (including the more button for
definition of the weighting options)
4. Create/Edit a Method Wizard
60 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
10. LogitLog (including the more button for minimum
and maximum determination)
Data scaling drop
down list
The analysis type is applied to scaled values. Following
scaling modes can be selected:
• Lin(x)Lin(y): x and y axis are scaled linear
• Lin(x)Log(y): x axis is scaled linear, y axis is scaled
logarithmically
• Log(x)Lin(y): x axis is scaled logarithmically; y axis is
scaled linear
• Log(x)Log(y): x and y axis are scaled logarithmically
Note
Please note, that, if one selects log-scaling for the x-axis, it is not
possible to have a concentration value of 0 since it is mathematically not
possible to calculate a logarithm of 0. But it is possible to use a value of
for example 0.0000001.
More
button
Click the More button to view the following options:
• Standard curve numeric selection field
If there is more than one experimental group, for
LogitLog and Four Parameters the Min. and Max.
value can be selected for each curve individually.
• Weighting
Select Use weights to use one of the following
weighting methods:
- Automatic using variance
- Automatic using relative weight
- Manual
See chapter 11.4.14 Weighting for Four / Five Parameter
Fit – Marquardt / Polynomial Fit
• Weighting dialog – select More button if “Automatic
using variance” is selected => Error handling dialog is
displayed – Define the weighting factors, which should
be used if one of the two error cases (All replicates
are equal or only one replicate is left) occurs, which
give a variance of 0 and therefore would lead to an
calculation error.
• Min/Max text fields
Min/Max allows the user to define the minimum or the
maximum limit of the standard curve for LogItLog and
Four Parameters.
Include (0,0) check
box
If the Include option is selected, (0,0) will be added as
standard point. This is only available if Linear has been
selected as the axis division for both axes.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 61
Extrapolation
check box
Extrapolation applies the concentration calculations to
those base points which lie outside of the permitted range
as well as to those which lie within the range, for
example: an extrapolation factor of 3 forces a
concentration calculation of values between min-2*(max-
min) and max+2*(max-min), where min and max
correspond to the minimum and maximum concentration
value of the standard curve.
Extrapolation
factor
numeric field
The factor data field is only active, if the Extrapolation
check box has been selected. It defines the new limits for
the concentration calculation.
Intercepts Tab
Use this tab to calculate concentrations for selected Y values based on the
standard curve.
Exp. group spin
control
If a number of experimental groups is available, the
appropriate group can be chosen.
Input data drop
down list
All data available for calculation is displayed in this list.
Intercept name and
formula list field
A name for the intercept must be created first. Then, the
intercept formula must be defined. A numerical value or a
formula can be entered.
Formula input
operators
The selection boxes allow for the easy input of formulas
by providing a variety of functions, operators and
variables.
• Variables
All variables accepted by the software are available
using in the list box.
• ... button
Click this button to open the Define constants dialog
box.
• Operators
All operators accepted by the software are displayed
here.
• Functions
All functions accepted by the software are displayed
here.
Example
IC50 for standard curve:
Formula: (ST1_1+ST1_8)/2
value of the smallest standard plus the value of the highest standard, divided
by 2
4. Create/Edit a Method Wizard
62 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Axis Tab
Use this tab to define the appearance of the axes.
X-axis group box
Y-axis group box
Following elements are available in each group:
• Label text field: Enter an axis label
• Color button: Select a color for all elements of the
axis
• Log-scaling check box: Select this check box to
display the axes of the graph logarithmically (does not
affect the calculation).
• Auto select range option button: The software will
automatically determine minimum and maximum
value of the axis
• Range option button: The Min and Max numeric fields
are enabled. The minimum and maximum value of the
axis can be specified.
• Grid check box: If selected, the grid will be displayed
on the axis. The Color button and the Line style drop
down list can be used to customize the grid.
Graph Tab
Use this tab to define the appearance of the graph.
Title group box
Following elements are available:
• Label text field: Enter a label for the graph.
• Color button: Select a color for the label of the graph.
Curves group box
Following elements are available:
• Experimental group spin control: Select the
experimental group to be customized (only available if
more than one experimental group defined).
• Color button: Select a color for the curve of the
selected experimental group.
• Symbol drop down list: Select a symbol for the base
points of the selected experimental group.
• Label text field: Enter a label for the curve of the
selected experimental group.
• Hide curve check box: If selected, the curve is not
displayed.
• Line Width spin control: Select the line width for the
selected experimental group.
Font group box
Select Small, Medium, or Large font size.
Display... group
box
Following elements can be selected to be viewed:
Legend: The curve color, base point style, and label are
viewed together with additional information (analysis type
parameters, correlation coefficient, and so on).
Base points
Intercepts: If intercepts are specified, the intercepts can
be displayed and labeled in the graph.
Error bars: If standards are defined as replicates, a bar
showing the range plus/minus standard deviation is
displayed for each base point.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 63
4.3.9 Concentrations Transformations:
Add New Concentration Transformations
In the Concentration transformations dialog box a concentration formula can
be defined, which is used for transforming concentration input data individually
for every well.
In the Concentration transformations dialog box further calculations can be
performed on concentration input data.
The window elements are similar to the Transformation input. Refer to chapter
4.3.5 Transformed Data: Add New Transformation for further information.
4.3.10 Evaluate Data: Cutoff Definition
Use this option to categorize either raw data or calculated data on threshold
limits. Threshold limits can be defined as fixed numeric values or formulas.
Use the Cutoff Definition window to define the cutoff ranges and to assign
colors and names to cutoff results.
The Cutoff Definition window contains the following elements:
Input data
drop down list
Select the input data which is to be used in the evaluation.
Exp. group
selection list
In case the plate contains more than one test, the relevant
experimental group to which the cutoff should apply must
be selected. If the plate contains only one test, then only
one group will be available, and the field is not visible.
In the Cutoff list, up to ten cutoff ranges can be defined. The limits for each
range can be entered.
The highest limit value must be entered on top of the list. The next lower will be
placed beyond and so on. A displayed Low-High arrow shows the level. The limit
values itself belong to the upper ranges (greater and equal condition).
Colors buttons
A color can be allocated to the individual result levels.
When displaying the results these colors will be
incorporated, representing the qualitative results.
Labels text fields
The result indicators for every value range must be named,
for example: positive (pos), negative (neg), intermediate
(?), ...
Limits text fields
The limits can be entered as a constant value or as a
formula. Formulas can be entered directly into a field or via
the Formula input fields. A maximum of up to nine limits
may be defined.
Formula input
group box
Formulas to be entered into the Limits field can be
composed by using the variables, operators and functions
below. Refer to chapter 11.3 How to Write a Formula for
further details.
• Variables drop down list
All available variables are displayed.
• ... button
Click this button to open the Define constants dialog
box.
• Operators drop down list
All available operators are displayed.
• Functions drop down list
Available functions can be selected.
4. Create/Edit a Method Wizard
64 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Competitive Test
check box
Competitive tests allocate a positive result to low values
and a negative result to high values. In the evaluation, the
limits will run from top to bottom and the corresponding
results symbol will be allocated when a value is found to be
equal to or less than the limit. In view of this, the Low-High
arrow will be reversed.
Cutoff results
selection... button
Click the Cutoff results selection... button to open the
Cutoff Results Selection dialog box.
Cutoff Results Selection
Use this window to select whether a qualitative result for a certain identifier type
is shown or not.
The Cutoff Results Selection contains the following elements:
Cutoff display
selection tree
structure
All defined identifier names are shown in a tree structure,
grouped by identifier types. Each identifier is associated
with a check box.
Selecting or clearing the check box of an identifier name
indicates, whether the qualitative results of the according
wells will be shown or not. After evaluation, only cutoff
results for the selected identifier types are displayed.
4.3.11 Evaluate Data: QC Validation
Validations are used to check the validity of a test. If the defined criteria are not
met, an error message will be displayed after the measurement run and no cutoff
results will be displayed. (Except the user has the right to continue evaluation
when error – see chapter 9.6 User Rights.
Upon selecting the correct input data, the desired formulas are to be entered in
the Validation Conditions list field. A formula editor supports the user in the
creation of the corresponding mathematical formulas.
Example:
If the validation criteria are defined as follows:
NC1>0 and NC1<0.1
the evaluation will check whether the negative control can be found within the
given range. If this is not the case an error message will appear.
The Define QC Validations dialog box contains the following elements:
Input data drop down
list
Select the relevant data, to which the validation must
apply. For example: Raw data, etc.
Exp group selection
field
If the plate contains more than one test, the relevant
experimental group to which the validation should apply
must be selected. If the plate contains only one test, then
only one group will be available.
Validation group
selection field
Use Validation groups to define validation criteria for the
same experimental group with different input data.
Validation
Conditions list field
This one-dimensional list will be filled with the formulas
and logical equations, which define the Validation
Conditions. These logical equations will generate a
logical result. The program will examine the input data
using this equation and, if the validation criteria are met,
will return a result of TRUE. If the criteria did not meet, a
result of FALSE and an error message will be displayed.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 65
Formula input
group box
Parts of the formulas to be entered into the Validation
Conditions field can be selected from the following drop
down lists:
• Variables drop down list
All available variables displayed.
• ... button
Click this button to open the Define constants dialog
box.
• Operators drop down list
All available operators are displayed.
• Functions drop down list
Using the given palette, available functions can be
chosen.
• Refer to chapter 11.3 How to Write a Formula for
further details.
Plate to Plate QC
Use this option to define a long-term QC validation (refer to chapter
7.4.2 Toolbar Menu: File/ Plate to Plate QC):
Input data
drop down list
Select the relevant data, to which the validation must be
applied, from the drop-down list.
Control
check boxes
Select the type of control from the drop-down list, then
enter the expected mean and standard deviation.
A scroll bar appears next to the dialog controls to define
more than 4 QC controls.
Workspaces to be
evaluated options
Select the appropriate filter to define which workspaces
should be evaluated.
4.3.12 Data Handling: Data Export
Data to be exported into an ASCII or Excel file can be selected using this dialog
box:
Available data list
A list of all available data is displayed, depending on the
method definition.
and → buttons
Data for exporting can be selected simply with drag and
drop or by clicking the data in the Available data window
and then the arrow pointing towards the Selected data
window. Data can be deselected by operating the reverse
procedure.
Up and Down
buttons
The order of the selected data can be changed by
selecting an item and pressing the button Up to move it
up or Down to move it down
Selected data list
This list shows all selected data, which has been
transferred from the Available data field list.
Export options...
button
Click this button to open the Export Options dialog box.
The actual exporting of data only occurs using automated data handling (see
4.3.14 Data Handling: Automated Data Handling).
4. Create/Edit a Method Wizard
66 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Export Options
The Export Options dialog box contains the following elements
Direction group
box
The user can define whether the plate data is extracted
horizontally line by line or vertically column by column
and written in this order to the file.
• Horizontal option button
The data is collected in rows.
• Vertical option button
The data is collected in columns.
Result group box
Select how to export the data in the form of a matrix or of
a continuous list:
• Matrix (nested) option button
Data of all selected data sets is arranged in a single
matrix. This matrix contains the first columns of all
data sets followed by the second columns of all data
sets.
• Matrix (separated) option button
Data of each selected data set is arranged in a
separate matrix.
• Matrix (XFluor style) option button
Data of each selected data set is arranged in a
separate matrix together with column and well
description similar to XFluor.
• Table (well data in rows) option button
All data of one well is arranged in horizontal direction
starting with data of the well position A1.
• Table (well data in columns) option button
All data of one well is arranged in vertical direction
starting with data of the well position A1.
If the Add kinetic timestamps check box is selected, the
time stamps of the measurements are added.
If the Add Temperatures check box is selected, the
temperatures of the measurements are added.
If the Insert Data names check box is selected, a list
with the names of the exported data is displayed on top
of the ASCII-file respectively the EXCEL worksheet.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 67
Add data group
box
Provides selectable data options.
The selected information will be attached to the end of
the data and then exported with the selected data.
Select the respective check boxes:
• Date/time of measurement check box
• Method filename check box
• Method pathname check box
• Workspace filename check box
• Workspace pathname check box
• Filter wavelength value(s) check box
• User prompts check box
• Current user name check box
• Measurement parameters check box
• Multiplate plate information check box
• Workspace audit trail check box
(magellan Tracker only)
• Workspace signatures check box
(magellan Tracker only)
Set as default
button
Settings can be logged as a default for future use.
Restore default
button
Settings can be reset to the previously defined default.
Example
Raw data, kinetic cycle 1, timestamp 0 s
11 12 13
21 22 23
Raw data, kinetic cycle 2, timestamp 33 s
81 82 83
91 92 93
4. Create/Edit a Method Wizard
68 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Matrix (nested),
horizontal:
11 81 12 82 13 83
21 91 22 92 23 93
Matrix (separated),
horizontal, with
timestamps:
0 s
11 12 13
21 22 23
33 s
81 82 83
91 92 93
Matrix (XFluor style):
<> 1 2 3
A 11 12 13
B 21 22 23
<> 1 2 3
A 81 82 83
B 81 82 83
Table (well data in rows),
horizontal, with
timestamps:
0 s 33 s
11 81
12 82
13 83
21 91
22 92
23 93
Table (well data in
columns), horizontal:
11 12 13 21 22 23
81 82 83 91 92 93
Table (well data in
columns), vertical:
11 21 12 22 13 23
81 91 82 92 83 93
Export to ASCII File
The Export to ASCII File dialog box contains the following elements:
Decimal character
group box
The decimal character may be a point or a comma:
• Point (x.xx) option button
• Comma (x,xx) option button
Delimiter group box
This option sets a delimiter to separate the individual
values within the data in the lines of an ASCII file:
• Tabulator option button
Default option, using tabulators as delimiters.
• Other symbol option button
If selected, a user-defined delimiter character can be
entered.
Path group box
This option sets the path where the ASCII file will be
stored:
• Export default path option button
• Use path option button: Select any path where the
ASCII file shall be stored
Encoding group
box
• Select the export code:
• ANSI: For ANSI compatible characters.
• Unicode: For characters that cannot be exported with
ANSI code (e.g. Chinese, Cyrillic).
Set as default
button
The settings can be logged as a default for future use.
Restore default
button
The settings can be reset to the previously defined
default.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 69
CAUTION
A SUITABLE EXPORT DELIMITER MUST BE SELECTED. THE EXPORT
DELIMITER AND DECIMAL CHARACTER SHOULD NOT BE THE SAME.
TAB IS SET AS THE DEFAULT DELIMITER, BUT ANOTHER SYMBOL
CAN BE SELECTED.
Export to Excel
The Export to Excel dialog box contains the following elements:
Target group box
The option buttons define where to position the
transferred data within Excel. This option is also valid for
automatic Excel export.
• New workbook option button
Transferred data will be stored in the first worksheet of
a new workbook. A new file will always be created, no
matter if Excel is started or not.
• New worksheet option button
Transferred data will be put into a new worksheet
within an open, active Excel workbook.
If Excel is not open, when selecting this option, it will
be started and a new workbook created, including the
requested data into the first worksheet.
• Insert into worksheet at cell option button and cell
coordinates text field
The first value of the transferred data will be placed
into the cell indicated (default is cell A1) of an open,
active Excel worksheet.
If Excel is not open when selecting this option, it will
be started and a new workbook will be created,
inserting the requested data into the first worksheet at
the defined cell.
• Append to current worksheet option button
This option will append the data to the current
worksheet.
If Excel is not open when selecting this option, it will
be started and a new workbook will be created,
inserting the requested data into the first worksheet.
• Use Insert into Template to export data into a
predefined Excel template. Path and name of the
Excel template must be entered, clicking
the …-button. The corresponding cell position must
be indicated.
Set as default
button
The settings can be logged as a default for future use.
Restore default
button
The settings can be reset to the previously defined
default.
4. Create/Edit a Method Wizard
70 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
4.3.13 Data Handling: Printed Report
The Printed report dialog box provides formatting features for hardcopy printouts
to customize the contents and the appearance of the printout.
The settings for the reports are grouped in four tabs, which represent certain
formatting areas:
• Data Selection tab
• Page Setup tab
• Header tab
• Footer tab
Data Selection Tab
The Data Selection tab provides a list of data available for printing.
Print as group box
Select whether the data is to be printed in the form of a
matrix or in the form of a list:
• List
The individual list format (horizontal, vertical, sorted
and alternating) must be configured in the properties
dialog (see below).
• Matrix
The matrix selection prints the data in a 2 dimensional
list (matrix).
Data source and
destination lists
Two lists are used to define the printed data:
• Available data list:
List of all available data, which can be printed. Page
breaks and dividing lines can be added in order to
achieve the preferred layout. Elements to be printed
can be selected by double-clicking; they are listed in
the selected data list.
• Selected data list:
List of all selected data, which will be printed.
Informative notes also help to give an awareness as
to how the data will be printed, for example: whether
the data will be displayed in form of a matrix, a list, as
data collection or as a graph. Entries that appear
under a heading will be incorporated into the
corresponding list or matrix format, providing
possibilities to compare different sets of values, for
example, measurement values and results.
Append button
Click this button to transfer data highlighted in the
Available data window to the Selected data window.
You can also use drag and drop.
Insert button
Use this option to display two pieces of similarly
formatted data within the same area. First, data from the
Available data list must be selected, then data from the
Selected data list. When clicking the Insert button, the
former will be included within the latter and will then
occupy the same area in the print-out as its parent
element. For example, if the standard deviation values
are included in the measurement value element, both will
be displayed within the corresponding cell of a matrix.
The measurement values will, in this case, serve as the
parent element and will therefore be displayed first.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 71
Remove button
Selected elements within the Selected data list can be
deleted.
Up and Down
buttons
Use these buttons to reorganize the sequence of lists,
graphs, matrixes… on the printout or to reorganize items
within a matrix or a list.
Properties button
Is enabled when a list is selected. Style and content of
the list can be selected.
Style group box
Vertical list option button
Prints the data in form of a vertical list (order A1, B1, and
so on).
Vertical list alternating option button
The order of the data is alternating for each row or
column (order A1, B1, ... H1, H2, G2, ... A2)
Horizontal list option button
Prints the data in form of a horizontal list (order A1, A2,
and so on).
Horizontal list alternating option button
The order of the data is alternating for each row or
column (order A1, A2, ...A12, B12, B11,...B1).
Sorted list option button
This option will sort the entries of all columns according
to the entries of the first column. The alphanumerical
entries in the first column are split into two parts, the first
containing only letters, the second numbers. The entries
are sorted first alphabetically. Entries with the same
name are then sorted numerically.
Example: You can use this option with sample IDs or with
the layout, restricted to one experimental group. A sorting
of numerical values will work only if all entries are integer
values.
Sample oriented list(s) button
Allows the printout of individual lists per sample. The
separation for the single tables is done either by the
sample IDs (if available) or by the identifier names on the
plate layout. Sample IDs are needed if the layout
contains different experimental groups representing
different parameters for the same samples. It is possible
to combine the list style Sample oriented list(s) with
other parameters like Identifiers, Exp. Groups and Cutoff
results.
4. Create/Edit a Method Wizard
72 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Limitations
group box
Select between the following options:
Identifiers: select or unselect which identifiers should be
displayed in the list.
Exp. Group: select between all experimental groups or
enter the Experimental group number you want to
displayed in the list.
Cutoff results: select between all cutoff results or select
from the list which results should be displayed in the list.
Page Setup Tab
In the Page Setup tab, general settings are defined:
Display
Header/Footer
group boxes
• Print Header check box
If selected, the header will be printed
• Print Footer check box
If selected, the footer will be printed
• Header option buttons
- Every page (prints the header on every page)
- First page only (prints the header only on the first
page)
- Except fist page (prints the header on all pages
except the first one)
• Footer option buttons
- Every page (prints the footer on every page)
- First page only (prints the footer only on the first
page)
- Except fist page (prints the footer on all pages
except the first one)
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 73
Print/Page group
• Color option button
The printout is in colors, if supported by the printer.
The well specific data is printed in the color of the
layout (for example: sample raw data is printed blue).
The cutoff results are printed in the color of the range
(for example: “pos” wells are printed red). The graph
is printed as displayed.
• Black and white option button
The printout is black and white.
Margins group box
In the Unit drop down list cm or inch can be selected.
There are 4 numeric fields, which define the margins:
• Left text field: enter the value of the left margin.
• Right text field: enter the value of the right margin.
• Above text field: enter the value of the top margin.
• Below text field: enter the value of the bottom margin.
Header Tab
In the Header tab, the content of the document header is defined:
Option check boxes
Use Option to select any of the following check boxes to
be printed in the header:
• Page numbers
• Date (current)
• Time
• File name
• Program name
• Comment
The Comment text field is active, supposed the Comment
check box has been selected.
4. Create/Edit a Method Wizard
74 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Adjustment option
buttons
Select one of the following options:
• Left
• Centered
• Right
Row number list
Row number is a numeric field, where the row for each
option can be adjusted.
Separators check
boxes
The separators check boxes define where the bordering
lines shall appear. These can be placed below, above, or
both below and above the header.
• Above check box:
Separator line appears above the header.
• Below check box:
Separator line appears below the header.
Footer Tab
In the Footer tab, the content of the document footer is defined. The Footer tab
contains the same elements as the Header tab. For a description of the footer
tab refer to the header tab.
The footer tab will disappear if Print Footer is not selected in the Page setup
tab.
4.3.14 Data Handling: Automated Data Handling
After a measurement some actions can be started automatically.
Select these actions and they are executed chronologically in the following order:
• If the load sample ID list check box is selected, a sample ID list is
automatically loaded.
• If the save workspace check box is selected (always selected in magellan
Tracker), the created workspace is automatically saved.
• If the export to ASCII file check box is selected, the data selected for export
are automatically exported to an ASCII file.
• If the export to ASTM file check box is selected, after running the method,
the data selected for export is automatically exported in ASTM format and can
be further used in compatible Laboratory Information Systems (LIS).
• If the export to Sample Tracking check box is selected, after running the
method, the data selected for export is automatically exported to the Sample
Tracking system. For more information please refer to the corresponding
manual for Sample Tracking.
• If the export to Excel check box is selected, the data selected for export are
automatically exported to Excel.
• If the print check box is selected, the data selected for the printed report are
automatically printed on the default printer.
• If the view results after measurement check box is selected, the
measurement data and the calculated data are displayed for reviewing.
More – Load Sample ID List
The More (Load Sample ID List) dialog box contains the following elements:
Filename group box
Select the filename of the sample ID list to be loaded:
• Same filename as workspace option button
• Filename option button: Enter a filename in the text
field.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 75
Path group box
Select the path where the sample ID list is stored:
• Sample ID list default path option button
• Use path option button: Select any path.
Format group box
Select the format of the sample ID list to be loaded (see
chapter 5.2.3 Import a Sample ID List for details):
• Autodetect from the list of supported formats option
button
• Custom file format option button: Click the File
format... button to open the Custom Format dialog
box.
Note
If an only partly filled sample ID list is loaded automatically, all unused
samples are automatically deleted from the layout.
If a final control (e.g. in well H12) has been defined within the layout, this
control is automatically moved to the well after the last used sample well.
Note
Automatically loaded sample ID lists should contain only IDs for samples
and must not contain IDs for non-samples (controls, standards etc.).
More – Workspace Name
Selecting Save workspace – More the Workspace Name dialog box with the
following elements appears:
Format group box
One of the offered option buttons has to be selected for
defining the default workspace name. The name can
consist of the date, counter or a certain set of letters.
Another possibility is to combine the date with a choice of
letters. Counters used together with the date are reset
daily otherwise the counter is incremented with each
measurement:
• Date (DDMMYYYY) + Counter option button
• Date (YYYYMMDD) + Counter option button
• Total Counter option button
• Use available barcode option button
Prefix text field
The entered text is added at the beginning of the
workspace name as defined above.
Example text field
The Example text field shows an example of the current
selection.
Set as default
button
The settings can be logged as a default for future use.
Restore default
button
The settings can be reset to the previously defined
default.
4. Create/Edit a Method Wizard
76 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
More – Export to LIS
The More (Export to LIS) dialog box contains the following elements:
ASTM delimiter
definition group box
Define the ASTM delimiters :
• Field delimiter: Enter a sign for separating fields (| by
default)
• Repeat delimiter: Enter a sign for repeat (\ by default)
• Component delimiter: Enter a sign for separating
components (^ by default).
• Escape character: Enter a sign for escape (& by
default).
Sender ID group
box
• Define the Sender ID settings that are to be displayed
in the header of an ASTM file:
• Sender ID text field: Empty by default. If defined, e.g.
SUNRISE, the name is displayed in the header of the
ASTM file (e.g. H|\^&|||SUNRISE^Magellan
V7.2^Tracker).
• Append app. name: If selected, application name, i.e.
magellan, is exported in the header of the ASTM file
(e.g. Magellan V7.2^Tracker).
• Append app. version: If selected, the magellan
version number is exported in the header of the ASTM
file (e.g. Standard or Tracker).
LIS assay name
group box
• Select the LIS assay name to be displayed in the test
order record and result record of the ASTM file:
• Use method name: name of the method used for the
measurement.
• Use name text field: define a new name to be
displayed.
• Example: ASTM_Test
• Test order record:
O|1|SampleID||^^^method name||Date and time of
measurement
• Result record:
R|1|^^^ method name^results
Encoding group
box
• Select the export code:
• ANSI: For ANSI compatible characters.
• Unicode: For characters that cannot be exported with
ANSI code (e.g. Chinese, Cyrillic).
Path group box
• Define the path for the ASTM export:
• Export default path: the export is performed to the
folder defined in Miscellaneous.
• Use path text field: define a new export path.
Set as default
button
• Using this option, the settings can be logged as a
default for future use.
Restore default
button
• Using this option, the settings can be reset to the
previously defined default.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 77
ASTM Export – Example File
Each ASTM export file (.txt) consists out of the following components:
• Message Header Record:
H|\^&|||SUNRISE^Magellan V7.2^Tracker
• Patient Information Record (P):
P|1||Sample ID 1 for patient 1
• Test Order Record (O):
O|1|SampleID||^^^method name||Date and time of
measurement
• Result Record (R):
R|1|^^^ method name^results
• Message Terminator Record:
L|1|N
Example:
ASTM Export Settings:
The corresponding ASTM file:
H|\^&|||SUNRISE^Magellan V7.2^Tracker
P|1||sample1
O|1|sample1||^^^ASTM_Test||20180315091504
R|1|^^^ASTM_Test^Raw data^A1|0.101~|OD|
P|2||sample2
O|1|sample2||^^^ASTM_Test||20180315091504
R|1|^^^ASTM_Test^Raw data^B1|0.201~|OD|
P|3||sample3
O|1|sample3||^^^ASTM_Test||20180315091504
R|1|^^^ASTM_Test^Raw data^C1|0.301~|OD|
4. Create/Edit a Method Wizard
78 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
More – View Results
The More (View Results) dialog box contains the following elements:
Plate view group
box
Select the data to be displayed in the plate view:
• 1st line in well (fixed) drop down list: Select a name
from the available data names.
• 2nd line in well (fixed) drop down list: Select a name
from the available data names.
• 3rd line in well (first selection) drop down list:
Select a name from the available data names. In
contrast to the first two lines this selection is only
applied for the first time. Whenever another data to be
viewed in the plate view is selected in the control bar,
this data is displayed in the 3
rd
line. The first two lines
remain unchanged.
The 1
st
and 2
nd
line can be omitted by selecting not
used, which makes the plate view more easily readable.
Text box group box
Select a name from the available data names. This
selection is only applied for the first time. Whenever
another data to be viewed in the textbox is selected in the
control bar, this data is displayed in the text box.
4.3.15 Miscellaneous: User Prompts
In the control bar expand Miscellaneous and select User prompts.
In every Prompt field of the list, a keyword can be entered. This keyword will
then be displayed before measuring. Text can be entered, for example: lot
number or the analyst’s full name.
By selecting Req. (required), a measurement can only be launched on receipt of
an input (a text information must be added in the Prompt answer field).
Prompts will also appear in the list of available data for printing.
4.3.16 Miscellaneous: Number Format
In the control bar expand Miscellaneous and select Number format.
The Number format dialog box is used to set up the numeric format of the
display of values. Additionally, the scientific number format for values out of
range ca be selected.
The default setting is 5 significant digits. Selecting User defined, a number
format of 1 - 10 integer places and 0 - 7 decimal places can be set.
If the user defined number format is selected, the two numeric data fields have to
be set.
Additionally, the scientific (with exponent) or the non-scientific description can be
used. An example of the format of current selection is displayed.
Click Set as default or Restore default accordingly to save the entered
definition.
4.3.17 Miscellaneous: Method Notes
In the control bar, expand Miscellaneous and select Method notes.
The Method notes field allows the user to add some comments to the file name,
which will be displayed on the method printout.
Simple formatting like bold, italic, underlined and colored text is possible.
Formatting may be omitted during printout.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 79
4.4 Saving the Method
Click Finish save the method via the Save as window, which contains the
following elements:
Filename
field
Enter or modify the method’s file name.
File remarks
field
Add some comments to the file name, which will be
displayed for example in the Open file dialog boxes.
Audit trail comment
field
Add some comment, which will be stored in the audit
trail (only available for magellan Tracker).
Organize
favorites... button
Click this button to open the Organize favorites dialog
box. See 6.4 Start Favorite for further information.
Run this method
now check box
Select this check box to start the method immediately
after finishing this wizard.
The modified document can be saved under its current file name or under a
different name.
Click Save&Finish to save the method and close the Create/Edit a Method
wizard.
Additional buttons in magellan Tracker:
Audit trail... button
Click this button to open the Audit trail dialog box
where the user, the date, the executed action and a
comment are displayed.
A print preview of the workspace, the method and the
sample ID list of the current and all previous versions
can be displayed clicking the appropriate buttons.
Additionally it is possible to save a previous version of
the method under another name.
Signature... button
Click this button to open the Signature dialog box,
where user, date, action and comment are displayed.
This button is only available when the file has been
signed using the Attach Signature wizard. See chapter
8 Attach Signature Wizard for further details.
Method password
field
When entering a password for a method, this method
will be password protected and cannot be modified until
the correct password is entered. See detailed
description below.
4. Create/Edit a Method Wizard
80 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
4.4.1 Password Protection of Methods
Protect Method with a Password
Users who have the right to create and to edit methods can protect methods by
assigning them a password.
Per default, Administrators and Application Specialists possess the required
rights.
When a new method is created, the password protection can be set in the Save
as tab of the Create/edit a method wizard. Enter the name of the method, type
the password in the Method password edit field (right bottom corner of the
dialog) and click Finish.
Confirm the password in the displayed Method password dialog box and click
OK. The method is saved with the password protection.
Already saved, but not password protected methods can be protected by
opening the method and setting the password in the Save as tab as described
above.
Edit Password Protected Methods
For opening a password protected method enter the correct method password.
The method is opened in Edit mode. It is possible to edit and save the method.
If Read only is selected, the method is opened in read only mode. It is still
possible to edit the method, but it is not possible to save the changes.
Change the Password of a Password Protected Method
In order to change the password of a password protected method, open the
method in Edit mode (password entry required) and enter a new password in
the Method password edit field of the Save as tab. Click Finish.
Confirm the password in the successive Method password dialog box and click
OK.
4. Create/Edit a Method Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 81
4.5 Multiplate Methods
When connected to an INFINITE F50 instrument multiplate methods can be
defined.
The number of plates to be measured can be set in the measurement
parameters editor, during method definition.
When two or more plates are to be measured, a counter for switching between
the plates is available in the Define Evaluation window as well.
All further parameters can be defined as is done for single plate methods. At
starting a multiple plate method, the following dialog box appears:
4. Create/Edit a Method Wizard
82 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Sample IDs list
For each single plate a sample ID list can be selected.
STOP button
Measurement is stopped. The data of the already
measured plates are displayed in the created workspace
and it is not possible to add measurements of additional
plates.
PAUSE button
Measurement is paused. The data of the already
measured plates are displayed in the created
workspace, but it is possible to add measurements of
additional plates.
RUN button
Measurement of the next plate is started.
Plate in/ Plate out
The plate is moved into or out of the instrument.
Running a multiplate method allows to pause the measurement between two
plates, saving the achieved results, and continuing the measurement for the
remaining plates at a later date. If Automatic save workspace is selected, the
workspace is stored after each single measurement.
5. Create/Edit a Sample ID List Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 83
5. Create/Edit a Sample ID List
Wizard
5.1 Introduction
The Create/edit a sample ID list wizard is used to create new sample lists or to
edit existing sample lists.
Workflow Summary
Start the Create/edit a sample ID list wizard. After a welcome page, the File
selection page appears. Select one of the options: Create new sample ID list or
Edit an existing sample ID list and save the ID list using the Save as page.
5.2 Create/Edit a Sample ID List
The File Selection window contains the following elements:
a) Create new
option button
A new sample ID list can be created.
b) Edit option button
An existing sample ID list can be modified.
Show combo box
The files are displayed according to the chosen
selection:
• All files
My files: This option is available if the user
administration is enabled (always enabled in magellan
Tracker)
Filename list
The sample ID list to be edited has to be selected. A
Remarks field next to every file name contains - if
entered - a short description of the sample ID list.
All sample ID lists available in the standard sample ID
list directory, which fulfill the filter criteria selected in the
show combo box, will be displayed.
Print Preview…
button
A preview of the selected sample ID list is displayed and
a printout can be started.
5.2.1 Create New Sample ID List
In the Select Plate Type window the number of sample IDs per well and the
used plate type can be selected. The Import from external sample ID list
option allows to browse for different types of sample ID files and to import them
into magellan.
Note
Some sample ID lists may contain additional information such as
concentrations and dilutions which may affect evaluation of the
measurement data.
5. Create/Edit a Sample ID List Wizard
84 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
The Select plate type dialog box contains the following elements:
Settings
Sample IDs per
well option buttons
Enter the number of sample IDs required per well (a
maximum of three can be entered).
Printout option
buttons
Define the layout for printing the sample ID list.
Plate type option
buttons
Four option buttons define the plate type to be selected:
• Plate type from method
Select a method to load the plate layout.
Click Load to browse for existing method files. The
Windows
TM
Open dialog box appears. Select the
desired file and click Open.
• Standard plate type
Standard geometry plate types can be selected to
define the plate format.
When activated, a standard geometry plate type can
be chosen from an associated drop-down list.
• Plate type from pdf-file
A predefined pdf file (SUNRISE instruments) or a pdfx
file (INFINITE F50 instruments) can be used to define
the plate format.
• Import from external Sample ID list
An external file type can be selected for import as
sample ID list. See chapter 5.2.3 Import a Sample ID
List.
The Enter sample IDs button is only enabled if the required settings have been
defined (method has been loaded, standard plate type or pdf-file has been
selected).
5. Create/Edit a Sample ID List Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 85
5.2.2 Import/Edit a Sample ID List
After the selection of the plate type, the Import/edit a sample ID list plate
window is displayed:
• Toolbar with Settings, Edit, Autofill, Delete, Undo/Redo, Print format, Print
preview and Zooming buttons
• Plate view with a schematically layout of a microplate.
• Sample ID list (when Plate type from method has been selected)
• Dialog to insert sample IDs (when Standard plate type has been selected)
If a new sample ID list is to be created no sample IDs are assigned to the wells.
A well can be selected by clicking in the well.
All required sample IDs have to be entered either manually or using the buttons
in the tool bar or can be read by the handheld barcode scanner for sample IDs.
The sample IDs can be defined and edited in the defined microplate type. Up to
three sample IDs can be entered in each well. Sample IDs can be moved or
copied.
When a method has been selected, on the left side a List of all Samples from
the plate layout is displayed. Only samples without replicates are shown in the
list. The sample IDs can be entered either in the list or on the plate. All changes
are shown immediately.
Toolbar Buttons
Settings... button
The button opens the Sample ID List Settings dialog
box, where the number of sample IDs per well can be
selected.
Edit... button
The Edit button opens the Edit Well dialog box. The
sample IDs of the marked well can be edited.
See below for further information.
Autofill... button
The whole plate or a part of the plate can be selected to
be automatically filled with sample IDs. After selecting the
corresponding wells, click Autofill to open the Autofill
Selection dialog box.
See below for further information.
Delete button
The whole plate or part of the plate can be selected. This
function deletes the sample IDs of the selected wells
immediately. No dialog box asks for confirmation.
Click Delete or press the DEL key to delete the sample
IDs in the selected wells.
Undo button
Performs an undo of the last action.
Click Undo or press CTRL-Z to undo a previous action.
Redo button
Repeats the action, which was performed before the
undo step.
Click Redo or press CTRL+Y to redo an action that was
undone.
Print format
Select the layout for printing the sample ID list:
• horiz. Table
• vert. Table
• Matrix
Print preview
Opens the print preview of the printed sample ID list.
5. Create/Edit a Sample ID List Wizard
86 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
10% button
This will set the plate layout view to 10%.
100% button
This will set the plate layout view to 100%.
Zoom check box
In case the well plate consists of a large number of wells,
the individual well assignments cannot be displayed in
the 100% zoom mode. In such a case the Zoom mode
button allows a zoom into the marked area. If activated,
the user can select an area to zoom in by clicking and
dragging a frame over the desired layout area. Click the
right mouse button to zoom out to 100% display.
Context-Sensitive Menu of the Plate Layout
By right-clicking on a well on the plate layout, a context-sensitive menu for the
marked wells is displayed. The following commands are available:
Menu
Description
Summary...
The Summary dialog box is displayed.
See below for further information.
Cut
The sample IDs of the marked wells are deleted from the
wells and copied to the clipboard.
Copy
The sample IDs of the marked wells are copied to the
clipboard.
Paste
The sample IDs copied to the clipboard are pasted into
the marked wells.
Delete
Click Delete or press DEL to delete the sample IDs of the
marked wells.
Copy in ASCII-
Format
The sample IDs of the marked wells are copied to the
clipboard in ASCII file format. This way, they can easily
be pasted into other applications (e.g. Excel, Notepad).
Paste in ASCII-
Format
Sample IDs can be pasted from the clipboard in ASCII file
format from other applications.
See below for further information.
Edit...
The Edit option opens the Edit Well dialog box. The
sample ID of the marked well can be edited.
See below for further information.
Autofill Selection...
The whole plate or a part of the plate can be selected to
be automatically filled with sample IDs. After selecting the
corresponding wells, selecting the Autofill option
displays the Autofill Selection dialog box.
See below for further information.
Note
When editing a Sample ID list it is possible to use Drag&Drop.
Use the left mouse button to select and drag items.
5. Create/Edit a Sample ID List Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 87
Edit well…
The Edit Well dialog box can be accessed via the context-sensitive menu or the
tool bar button.
Sample IDs for all wells on a microplate can be defined. A maximum of three
sample IDs per well is possible.
The desired sample IDs for the marked well have to be entered in the Edit Well
dialog box. This has to be repeated for every well that shall be filled with sample
IDs. The navigation functions of the Edit Well dialog box can be used for
comfortable working. Click OK to close the dialog box and the sample IDs for the
latest marked well are saved.
The Edit Well dialog box contains the following elements:
Left, Right, Up
and Down buttons
The direction buttons can be used to select another well on
the plate while leaving the dialog box open and saving the
changes of the current well.
The Arrow keys can also be used for this kind of
navigation.
On Enter move in
vertical direction
check box
On clicking Enter or Tab, the entry field is moved to the
next well. Use the check box to specify the direction of
movement, vertically or horizontally across the plate.
Edit sample IDs
text fields
In each well up to 3 sample IDs can be entered. Therefore,
the list contains three Sample ID text fields and an
Autoincrement check box associated to each of them.
A sample ID for the marked well can be entered in the text
fields. The sample ID can contain letters, numbers or a
combination of both. For example: Smp 1. Up to 100
alphanumeric characters can be entered. The entire plate
can be filled with sample IDs.
Autoincrement
check box
The Autoincrement check box can be selected, if the wells
for the sample IDs are to be automatically numbered. For
example: if the starter value is Smp1 then the next well is
automatically named Smp2, using the Enter / Tab key or
the arrow buttons.
Using Autoincrement, the sample IDs can be allocated to
the wells in a numerically consecutive manner. Simply
enter the initial value into the first well. The entered ID may
also be alphanumeric, although it must end in a number to
enable for the consecutive numbering of further wells, for
example: If John1 is entered into the first well, John2 will
automatically be displayed when moving to the second
well.
Autofill Selection
The Autofill Selection dialog box can be accessed via the context-sensitive menu
or the tool bar button.
This dialog box allows the user to fill the selected wells with sample IDs
automatically.
Select the whole plate or parts of the plate and enter the desired sample IDs and
increment settings for the marked wells in the Autofill Selection dialog box. Click
OK to close the dialog box and to fill the selected wells with the defined sample
IDs. In each well up to 3 sample IDs can be entered. Therefore, the list contains
three Sample ID text fields and an Autoincrement check box, a Start index text
field and a Vertical check box associated to each of them.
The Autofill Selection dialog box contains the following elements:
5. Create/Edit a Sample ID List Wizard
88 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Use ID check box
The Use ID check box can only be accessed, if the
identical number of sample ID were selected. The
checkmark determines if the autoincrement function is
applied to the selected sample ID.
Sample ID text
fields
Sample IDs for the marked well can be entered in the
Sample ID text fields. The sample IDs can contain
letters, numbers or a combination of letters and numbers.
Autoincrement
check box
The Autoincrement check box must be selected, if the
sample IDs for the wells are to be numbered
automatically (incremented by 1).
Start index text field
The Start index text field is only editable, if the
Autoincrement check box is selected. The starter value
for the automated incrementing of the sample ID has to
be entered.
Vertical check box
The Vertical check box can only be accessed, if the
Autoincrement check box is selected. If this check box
is selected, the sample IDs will be entered and numbered
in vertical direction. If it is cleared, the sample IDs will be
entered and numbered in horizontal direction.
Well Summary
The Well Summary dialog box can be accessed via the context-sensitive menu.
This dialog box delivers an overview of all defined Sample IDs and the Sample
ID list related settings of a selected well.
The Summary dialog box contains the following elements:
Information tree
The information tree gives an overview of all defined well-
based parameters of the selected well. The tree is filled
according to the available information. For sample ID lists
the sample IDs, the pipetting status, etc. are displayed.
Left, Right, Up and
Down buttons
The direction buttons can be used to select another well
on the plate while leaving the dialog box open.
Expand All /
Shrink All
This button displays the information tree expanded to the
highest level or shrunk to the first level.
Paste in ASCII-Format
The Paste in ASCII-Format function can be accessed via the context-sensitive
menu.
This function pastes the contents of selected data in ASCII format from the
clipboard into magellan.
The function allows transferring data from other software applications (for
example: Excel, Notepad) into the magellan plate layout.
First, the relevant data must be selected in the other software application and
copied to the clipboard. The rows must be separated by linefeed, the columns by
tab stops. This is automatically done in Excel when selecting multiple cells.
The Paste in ASCII-Format function pastes the copied data in ASCII format
from the clipboard into the wells. Data is always inserted starting at position A1.
5. Create/Edit a Sample ID List Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 89
5.2.3 Import a Sample ID List
Sample ID lists that have been created using other programs, or sample ID lists
that have been defined using other forms of analytical equipment have to be
imported into magellan before being used.
CAUTION
SOME SAMPLE ID LISTS MAY CONTAIN ADDITIONAL INFORMATION
SUCH AS CONCENTRATIONS AND DILUTIONS WHICH MAY AFFECT
EVALUATION OF THE MEASUREMENT DATA.
Click Import button in the Sample ID list settings dialog box to browse for
existing external sample ID files. The Windows
TM
Open dialog box appears.
The window offers a list of File names that match the selected File type. The
File type can be chosen from an associated drop-down list.
The following external file types are supported:
• Easy-Files .esy
• Tecan-files .tpl
• DD1-Files .dd1
• Hamilton-Files .pro
• APL-Files .apl
• Gemini-Files .csv
• Custom Format Files .txt
Select the requested file to be imported and click the Open button. The
Windows
TM
Open dialog box is closed and the file is loaded.
Confirming the Sample ID List Setting dialog box with Next will open the
Import/Edit a Sample ID List plate window with the sample IDs displayed.
The Import button can also be accessed via the Insert Sample ID List dialog
box, which is available in the Start Measurement window (Insert button) and
Evaluate Results plate view (Edit toolbar menu).
CAUTION
MAKE SURE THAT THE CORRECT ID LIST HAS BEEN SELECTED,
OTHERWISE THE RESULTS WILL BE ASSIGNED TO ANOTHER LIST.
Note
When importing .tpl, .dd1, or custom format sample ID lists, additional
information that modifies the evaluation definitions can be included.
Note
When importing sample ID lists with dilutions, the dilution must not be
more than 1:1e+12 (magellan Standard and magellan Tracker).
5. Create/Edit a Sample ID List Wizard
90 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Easy-Files .esy
These files consist of lines which contain the sample ID and the well name.
Well name:
alpha numeric, max. 3 characters
Sample-ID:
alpha numeric, max. 20 characters
The lines are separated by CR + LF.
Example
C01
B01
A01 0001
H02 0002
G02 0003
F02 0004
E02 0005
Interpretation
When magellan is processing an .esy-file
• Number of sample IDs is set to 1
• Sample ID is set as sample-ID in well
Tecan-files .tpl
These files (<PLATEID>.TPL) consist of lines, which contain parameters
separated by semicolons. The format is:
H;date;time
D;testno;sample-ID + control-name;position;pre-dilution;errors
L;
The file starts with an H and ends with an L. The fields are defined as follows:
date;time;testno;sample-ID
the same as in the job list (BES3)
control name
alpha numerical, max 8 characters
Note! This entry contains sample-ID or the name
of a control
position
alpha numerical, max. 3 characters
pre-dilution
numerical, max. 8 characters plus 1 decimal
(separated by a ‘.’)
errors
alpha numerical, max. 3 characters. If an error
occurred during pipetting one of the following
characters is displayed here:
First character
<Space> no liquid error
L: no or not enough liquid
Second character
<Space> no barcode error
M: manually entered barcode
Third character
<Space> no timer overrun
O: timer overrun
The lines are separated by CR + LF.
5. Create/Edit a Sample ID List Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 91
Example
H;29-02-94;12:47:11
D;1;NEG;A1;1.0;
D;1;POS;B1;1.0;
D;1;0001;C1;1.0
L;
Interpretation
When magellan is processing a .tpl-file
• Number of sample IDs is set to 1
• Sample ID or control name is set as sample ID in well position
• Error flags are stored for every well
• Pre-dilution is used as the dilution of the well position
DD1-Files .dd1
These files consist of lines, which contain parameters of a fixed length.
The format is:
First line: Date (DD-MM-YY)
Second line: Time (HH:MM:SS)
Field
Pos
Length
Format / Description
TestNr
1-3
3
number (001-049)
TestName
4-23
20
Alphanumeric
SampleID
24-35
12
Alphanumeric
ControlName
36-43
8
Alphanumeric
PlateID
44-51
8
Alphanumeric
PlatePos
52-55
4
Alphanumeric
Errors
56-61
6
Alphanumeric
The lines are separated by CR + LF.
Example
13-04-1999
11:01:32
953test1 KBR
KBR3
H1
953test1 KBR
KBR3
G1
953test1 KBR
KBR3
C1
953test1 KBR
KBR3
B1
953test1 KBR
KBR3
A1
953test1 KBR
0001
KBR3
H2
953test1 KBR
0001
KBR3
G2
953test1 KBR
0001
KBR3
F2
953test1 KBR
0001
KBR3
E2
953test1 KBR
0001
KBR3
D2
5. Create/Edit a Sample ID List Wizard
92 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Interpretation
When magellan is processing a .dd1-file
• Number of sample IDs is set to 1
• <Testname> specifies the magellan method name at the well
• <PlatePos> specifies the well
• <SampleID> or <ControlName> specifies the magellan sample ID
• <Errors> specifies the pipetting flag: L: Liquid error, C: Clot error, E: manually
entered
When a .dd1-file is read the current layout will be modified using the layout
defined in the different methods where the names are specified in the .dd1-file.
Hamilton-Files .pro
These files consist of lines that contain the sample-ID and the well name.
A header information is available, too.
Well name: alpha numeric, max. 3 characters
Sample-ID: alpha numeric, max. 20 characters
The lines are separated by CR + LF.
Example
14ESP-AK-Bommeli
-> Header
08403009070
-> Header
SendInfoHost=00
-> Header
SendInfoPrnt=00
-> Header
SendInfoDisk=00
-> Header
A01091111111110
A02090325228840
A03090325228930
A04090325235730
A05090336975200
Interpretation
When magellan is processing a .pro-file
• Number of sample IDs is set to 1
• Sample ID is set as sample ID in well
• Header information is ignored
APL-Files .apl
Description of .apl-files created by MiniSwift 1.3 or later or Minilyser 5.30 or later.
The file format is defined as follows:
Field
Pos
Length
Format / Description
PlateID
1-8
8
Alphanumeric
PlatePos
9-12
4
Alphanumeric
TestNumber
13-15
3
Number
TestName
16-27
12
Alphanumeric
SampleID
28-39
12
Alphanumeric
ControlName
40-47
8
Alphanumeric
Result_1
48-55
8
Alphanumeric
5. Create/Edit a Sample ID List Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 93
Result_2
56-63
8
Alphanumeric
Errors
64-69
6
Alphanumeric
Date
70-79
10
Alphanumeric
Time
80-87
8
Alphanumeric
CutOff
88-95
8
Alphanumeric
The lines are separated by CR + LF.
Example
990520S1A1
2
test1_2
BLANK
05-20-199919:12:53
990520S1B1
2
test1_2
BLANK
05-20-199919:12:53
990520S1C1
2
test1_2
NC1
LR
05-20-199919:12:53
990520S1D1
2
test1_2
PC1
05-20-199919:12:53
990520S1E1
2
test1_2
00000000010
05-20-199919:12:53
990520S1F1
2
test1_2
00000000010
V
05-20-199919:12:53
Interpretation
When magellan is processing an .apl-file
• Number of sample IDs is set to 3
• <Testname> specifies the magellan method name at the well
• <PlatePos> specifies the well
• <SampleID> specifies the magellan Sample ID 1
• <ControlName> specifies the magellan Sample ID 2
• <Errors> specifies the magellan Sample ID 3
• <Errors> specifies the pipetting flag: pipetting errors L, B, N at position 1 are
uncritical for samples but critical for controls, verification read and barcode
errors are uncritical, too.
Gemini-Files .csv
Description of .csv-files created by Gemini 3.40 and 3.60. The following is an
example of an output file in Excel format:
Position
Tube ID
ScanError
SRCRack
SRCPos
SRCTubeID
Volume
Error
SRCRackID
GridPos
SiteOnGrid
TipNumber
DetectVol
Time
Version 2.00
3091
Microplate
12
8
0
9900001
18
1
3.8.1998
1
0
Tube
13*85mm
1
0001
10
0
013_000064
1
1
1
11:55:42
3
0
Tube
13*85mm
2
0002
20
0
013_000064
1
1
2
11:55:42
5
0
Tube
13*85mm
3
0003
30
0
013_000064
1
1
3
11:55:42
7
0
Tube
13*85mm
4
0004
40
0
013_000064
1
1
4
11:55:42
5. Create/Edit a Sample ID List Wizard
94 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
The file format is defined as follows:
The first line contains the column headers, which are the same for all formats,
except for some which support only upper-case characters. The second line
shows information about the rack / striprack, for which that file was created. Only
the column Tube ID, SRCRack, SRCPos, SRCTubeID, Error, SRCRackID,
GridPos, SiteOnGrid and Time are valid.
With Gemini 3.60 the SRCPos contains the number of x wells, the SRCTubeID
contains the number of y wells and the Volume contains the line to read.
The third and following lines are entries for the used wells of a rack / used tubes
of a striprack.
The columns contain the following information (Column\Range\Explanation):
• Position\1 .. number of wells\Position of the well in the rack. The numbering
sequence is rear to front and then left to right. (1 = A1, 2 = B1, ...) If the
microplate has been pipetted in portrait mode (e.g. dimensions 8x12, iso.
12x8), the numbering sequence is left to right and then front to rear.
(1 = H1, 2 = H2, ...)
• TubeID\Max. 32 characters\This column is only filled for stripracks and when
the tube barcodes were scanned with a POSID command. In row 2 this
column shows the version of Gemini.
• ScanError\0 .. 4294967295\This column contains possible scanning errors.
Please note the table with the error codes below. In row 2 this column shows
the serial number of Genesis.
• SRCRack\Max. 32 characters\Here Gemini reports for dispense commands
the configuration name of the source rack. In row 2 this column shows the
configuration name of the rack, for which the output file was written.
• SRCPos\1 .. number of wells\This column states for dispense commands the
position in the source rack, where the liquid came from.
• SRCTubeID\Max. 32 characters\If the source for a dispense command was a
striprack, Gemini reports here the barcode of the source tube.
• Volume\-7158278 .. +7158278\This column contains the volume in µl, which
was dispensed (positive value) or aspirated (negative value).
• Error\0 .. 4294967295\This column contains possible pipetting errors. Please
note the table with the error codes below. In row 2 this column shows the
scanning errors.
• SRCRackID\max. 32 characters\For dispense commands this is the source
rack barcode. In row 2 this column shows the barcode of the rack, for which
the output file was written.
• GridPos\1 .. 67 This is the grid position of the source rack for dispense
commands.
• SiteOnGrid\1 .. 128\Here Gemini shows the y-position (site on the carrier) of
the source rack for dispense commands.
• TipNumber\1 .. 8\Here Gemini reports the tip number, which was used for
pipetting into / from this well.
• DetectVol\0 .. +7158278\If liquid detection was used, the detected volume in
the well before the aspirate / dispense command is listed here.
• Time\...\This is the time (format hh:mm:ss) when the well was used.
The lines are separated by CR + LF. The columns are separated by either
commas or semicolons. The columns separator is detected from the first header
line.
Interpretation
The number of lines separated by newline is counted. This number reduced by 2
is used to define the plate format, which can be 8x12, 16x24, 24x36, 32x48
(rows x columns).
5. Create/Edit a Sample ID List Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 95
With Gemini 3.60 the format information is extracted from the second line,
SRCPos and SRCTubeID. Multiple lines per well are possible. The number in the
second line, Volume, defines the line to use. If the indicated line does not exist,
the sample ID list cannot be read. If any line contains an error number greater
than zero, depending on the error number either a critical or an uncritical error is
set.
• Position: Well position (e.g. 1 = A1, 2 = B1, ...)
• Tube ID: ignored
• Scan error: if the error number is greater than zero a critical error is set
• SRCRack: sample ID 2
• SRCPos: if SRCTubeID is empty, used as sample ID 1 (SRCRackID + “_” +
SRCPos)
• SRCTubeID: if not empty used as sample ID 1
• Volume: ignored
• Error: sample ID 3, if the error number is greater than zero a critical error is
set
• SRCRackID: if SRCTubeID is empty, used as sample ID 1 (SRCRackID + “_”
+ SRCPos)
• GridPos: ignored
• TipNumber: ignored
• DetectVol: ignored
• Time: ignored
Custom Format Files *.*
When importing custom format files the Custom Format dialog box is displayed.
The Custom Format dialog box contains the following elements:
Plate type group box
In the plate type group box the plate format can be
specified. If the format is already specified the edit
fields are disabled.
Rows
Enter the number of rows.
Columns
Enter the number of columns.
File format group
box
In the File format group box the format of the specified
file can be defined.
File extension
In the File extension field the file extension is
displayed and the field is disabled.
Note
Using this feature in the Create/Edit a method wizard, the file extension
field is enabled, and the file extension has to be specified.
Column separator
combo box
Select the column separator used in the file. The row
separator must be CR+LF.
Start with line
Enter a number greater than 1 if header lines shall be
ignored.
5. Create/Edit a Sample ID List Wizard
96 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Example
Assume following settings:
Plate type
• 2 rows
• 3 columns
Format
• column separator = Tabulator
• start with line = 2
• column 1 = Plate position (A1, A2, ...)
• column 2 = Sample ID 1
• column 3 = pipetting status
Example:
**Tecan custom file**
A1
BLANK
0
A2
NC
0
A3
SM001
0
B1
SM002
3
B2
SM003
0
B3
SM004
0
5.2.4 Saving the Sample ID List
Click Next in the Import/Edit a Sample ID List window and the Save as window
appears, in which the created or modified sample ID list can be saved:
Filename
field
This field is intended for entering or modifying the file name
of the sample ID list (.smp).
File remarks
field
The File remarks field allows adding some comments to the
file, which will be displayed for example in the Open File
dialog boxes.
Audit trail
comment
field
The Audit trail comment field allows adding some
comments, which will be stored in the audit trail (only
available for magellan Tracker).
Audit trail… button
Displays the audit trail of the sample ID list (only available in
magellan Tracker). See 4.4 Saving the Method - Audit trail
for further information.
The Save&Finish button is only enabled when a document has been modified.
The modified document can be saved under its current file name or under a
different name.
Click Save&Finish to save the sample ID list and close the Create/Edit a Sample
ID List wizard.
6. Start Measurement Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 97
6. Start Measurement Wizard
6.1 Introduction
In the Wizard List window, click Start Measurement to open the wizard. Click
Continue on the welcome page and the Select a file dialog box appears:
Obtain Raw Data
Is used to generate raw data quickly by setting the required
measurement parameters.
Use Predefined
Method
Is used to perform measurements based on already defined
methods.
Start Favorite
Is used to select one of the most frequently used methods
from the list of numbered icons.
6. Start Measurement Wizard
98 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
6.2 Obtain Raw Data
6.2.1 Obtain Raw Data with the SUNRISE Instrument
Select Obtain Raw Data and click Next to open the Measurement Parameter
dialog box.
In the Measurement Parameter dialog box, the following options are available:
Endpoint
measurement
Use this button to perform a single measurement.
Kinetic
measurement
For multiple measurements within a specified time interval
this type of measurement is used.
Measurement
parameters...
Click this button to define the parameters in the
Measurement Parameters dialog box.
WARNING
IT IS STRONGLY RECOMMENDED TO CHECK ALL OF THE
MEASUREMENT PARAMETERS (EVEN PARAMETERS NOT USED IN
THE CURRENT MEASUREMENT), BECAUSE PARAMETERS FROM
THE PREVIOUS MEASUREMENT METHOD WILL STILL BE SET.
6.2.2 Obtain Raw Data with the INFINITE F50 Instrument
When an INFINITE F50 instrument is connected the following window appears
after selecting Obtain Raw Data:
Define the measurement parameters following the list on the left side.
Click Choose Measurement Parameters to finish the definition. Refer to
the i-control instructions for use for further information.
6. Start Measurement Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 99
6.3 Use Predefined Method
Click Use Predefined Method and select a method from the Filename list.
The available methods are displayed according to the selection of the Show
drop down list, i.e. All files, Files from this instrument, My files, Signed files
or Last selected methods.
6.4 Start Favorite
Click Start Favorites to select a method, previously defined as so called favorite,
frequently used method, from the list of numbered icons.
Click Organize favorites to add to or remove methods from the favorites list.
Organize Favorites
Method files can be dragged from the Method list onto one of the 15 icons in the
Favorite list to save it as a favorite.
The Organize Favorites dialog box contains the following elements:
Methods
list
Lists all available methods. The filename and corresponding
remarks - if entered - are displayed.
Set
button
After selecting a method from the Methods Filename list and
selecting a method icon, click Set to add the selected method to
the Favorites.
Remove
button
Select a method icon and click Remove to delete a method from
the Favorites.
6. Start Measurement Wizard
100 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
6.5 Start Measurement with a Predefined or
Favorite Method
Click Make your selection respectively Show Summary in the Select a file
dialog box to open the Start Measurement dialog box. Before the instrument
starts to measure, the user has to (if defined) answer the report prompts and/or
to confirm or change the constants.
Edit Prompts Dialog
If user prompts were specified in the method, the Edit user prompts dialog
box is displayed:
Prompt Answer list
At each text field of this list any text prompt can be
entered.
Req. check box
A Required check box next to every Prompt Answer
text field determines that the measurement can only be
started when a text has been entered.
Click Continue to close the user prompts dialog; the Start Measurement
window appears. If set in the method, the Edit Constants dialog appears.
Edit Constants Dialog
The Edit Constants dialog box appears only, if the required flag is set for at
least one constant in the selected method.
Constants list
At each text field of this list the value of the constant or
the comment can be modified.
Req. check box
A Required check box next to every Constant value text
field determines that this constant value needs to be
confirmed. Do this by continuing to the next page.
If the method constants have been modified, the new values can be
automatically transferred and saved into the corresponding method. Click Modify
constants in Method to modify the current method with the new defined
constants. Please note that this dialog is available only for Magellan users with
the user right Edit methods.
Click Continue to close the constants dialog; the Start Measurement window
appears.
Note
Using magellan Tracker or magellan Standard with User administration, a
default magellan Operator (refer to the chapters 9.6 User Rights and
9.5.3 Change User) can edit only the required constants. The constants
without required flag set are displayed gray and cannot be edited.
A default magellan Administrator can also edit constants without required
flag set.
For a default magellan Application Specialist it depends on the method he
runs. Using an unsigned method, he is allowed to edit constant with and
without required flag. Using a signed method, he can edit only the
required constants
6. Start Measurement Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 101
After these two optional pages the Start Measurement dialog box is displayed:
Measurement
group box
Workspace text field: The default workspace filename as
defined in Automated Data Handling is displayed. The
filename of this workspace can be renamed.
Arb. cycle kin. ... button: This button is available if a kinetic
measurement is performed. Click this button to display the
Arbitrary Cycle Kinetic dialog box. In this dialog box the
measurement can be split up into several sub-measurements
with a different number of measurement cycles and interval
times. Each of these sub-measurements can be started at
any time, for example: the workspace can be saved and the
measurement can be continued on another day.
Note
This option is not available for INFINITE F50 instruments.
Method text field: The filename of the previously selected
method is displayed.
Modify layout... button: Depending on the user rights, the
plate layout can be modified. Click the Modify
layout...button to open the Modify Layout dialog box. The
user can move controls and remove samples, change the
concentration or change the measurement parameters. The
changes are stored only in the workspace and not in the
previously selected method.
This button is not available when Obtain Raw Data has
been selected and after inserting a sample ID list.
Sample ID List text field: The filename of the currently
loaded sample ID list is displayed
6. Start Measurement Wizard
102 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Insert... button: see also below. Click this button to open the
Insert Sample ID List dialog box. After selection of a sample
ID list file the Sample ID List with Plate Layout Preview
dialog appears in which the user has to confirm the selection.
Instrument group
box
The workspaces will be stored with default workspace
names. After all plates have been measured only the first
workspace is open. Use File Open or the Evaluate Results
wizard to open the other workspaces. It is not possible to
use the stacker when performing kinetic measurements.
Plate In/Out button: Click to move the plate carrier. This
button changes its text depending on the position of the plate
carrier.
Movements button: Further movements of the instrument
can be invoked (filter slide, mirror carriage and so on.)
Current Temperature text field: The current temperature of
the instrument is displayed.
Target Temperature text field: The target temperature, set
in the Temperature Control dialog box, is displayed.
Temperature Control button: Click this button to open the
Temperature Control dialog box. See chapter
3.1.2 Temperature Control... .
Measurement
parameters group
box
In a text field all configured measurement parameters are
listed and can be double-checked.
Please note
group box
Important information is displayed. Read this information and
start appropriate actions before running the method.
A warning is displayed if the layout is defined for wells that will not be measured.
Click Start to start the measurement.
If you run a multiplate method, the Run Measurement dialog box appears after
clicking Start.
6. Start Measurement Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 103
It contains the following elements:
Measurement of
plate
Displays the number of the currently processed plate.
Sample ID List
Insert the appropriate sample ID list for the selected plate.
Sample ID lists have to be inserted plate by plate.
Note
Only sample ID lists created in magellan can be inserted. Import of other
formats is not supported.
RUN
Click this button to start the measurement.
PAUSE
The Evaluate Results wizard is reached when clicking
Pause; further plates can be appended later.
STOP
The Evaluate Results wizard is reached when clicking Stop;
no further plates can be added.
After the measurement is completed, the Results dialog box appears, in which
all results and calculations can be viewed. See chapter 7 Evaluate Results
Wizard for more information.
Insert Sample ID List
The Insert Sample ID List option is used to load a previously defined sample ID
list file into a workspace:
Filename field
The list displays all available sample ID list files (.smp).
Select a sample ID list by clicking a filename.
Remarks field
Available comments and remarks will be displayed.
Import... button
Click to open a standard Windows Open dialog box.
External files can be imported. Refer to chapter 5.2.3 Import
a Sample ID List for further information.
Select the desired sample ID list from the Filename field and click OK to view
the sample ID list in the Sample ID List with Plate Layout Preview window.
This dialog box displays the sample ID list together with the defined plate layout.
If the method and the sample ID list have different plate formats, then an error
message is displayed.
When the sample ID list is selected in the printed report setup then it is displayed
on the printout.
6. Start Measurement Wizard
104 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
The Sample ID List with Plate Layout Preview dialog box displays the sample
ID list together with the defined plate layout. This helps the user to ensure that
the correct sample ID list is selected. The dialog box contains the following
elements:
10% button
Click to resize the displayed plate layout to show 10% of
the plate layout on the full screen.
100% button
Click to resize the displayed plate layout to show 100% of
the plate layout on the full screen.
Zoom
check box
When this Zoom function is activated the required wells
on the plate layout can be marked and the wells are
automatically enlarged to fit into the full screen.
Remove unused
samples check box
If an only partly filled sample ID list is loaded, the user
can delete all unused samples from the layout by
selecting this check box.
If a final control (e.g. in well H12) has been defined within
the layout, this control is automatically moved to the well
after the last used sample well. Per default, the Remove
unused samples option is selected.
6.6 Measurement Status
The Measurement Status dialog box is shown during the measurement
performance of the instrument and contains the following elements:
Status text field
The text field is updated during the measurement and
contains a measurement status information.
Display in wells
group box
Select the mode of representation of data in the wells:
Values: The measured value is displayed in the well. If
more than one value is measured all values are displayed
in one well.
Graph: The option is enabled if a kinetic graph can be
displayed. The graph is shown as soon as more than one
value is available.
Pause button
To pause a kinetic measurement run at the next possible
moment, click the Pause button. In the Pausing Kinetic
dialog click the Plate out / Plate in button to move the
plate transport out of or into the instrument. Click the
Continue button to go on with the kinetic run.
Break button
Click this button to break the measurement at the next
possible time point.
Plate View display
The Plate View display shows a schematic display of the
microplate. According to the Display in wells option the
contents of the wells are customized. The wells are
updated as fast as the instrument delivers data.
When injection or dispensing is performed, the currently
used well is automatically highlighted in a different color.
Cycle text field
If a kinetic measurement is performed, the Cycle text field
displays the current cycle number and the maximum
number of kinetic cycles.
6. Start Measurement Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 105
Graph display
If a kinetic or multilabel measurement is performed, the
kinetic or multilabel graph of the currently selected well is
displayed in a larger size at the right side of the
Measurement Status dialog box.
Previous cycle
group box
As long as the transmission of the data of the current cycle
was not started the Raw data and the Temperature text
fields contain the value and the temperature of the
previous measured cycle of the currently selected well,
respectively.
Time group box
The Elapsed time text field displays the time span since
the start of the measurement.
The Exp. run time text field displays the time span
expected for the whole measurement.
Scaling of the y-axis in the graph is possible by selecting either Auto select
range or Select range (MIN/MAX).
Note
It is possible to select multiple wells on the plate to view the selected
kinetic curves in a graph. When performing kinetic measurements, the
retrieved data is saved automatically every 30 min in the magellan log
file directory (refer to chapter 3.3 Log Files).
7. Evaluate Results Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 107
7. Evaluate Results Wizard
7.1 Introduction
The Evaluate Results wizard is designed to help the user analyze
measurement results. Raw data, evaluation data and evaluation parameters can
be viewed, and data can be re-evaluated.
Workflow Summary
Start the Evaluate Results wizard and select an existing workspace for
evaluation (Select a File dialog box)
Click Make your selection to open the Results dialog box, in which the results
can be viewed or printed (Evaluate Results tab) and if necessary, the used
method modified (Edit Method tab).
Click Finish and use the Save dialog box to save a workspace file which
contains method definitions, instrument data and sample ID list if configured.
Evaluated data are not stored in the workspace but recalculated every time the
workspace is opened.
7.2 Select a File
The Select a File dialog box contains the following elements:
Filename list
The Filename list contains the list of all files (and their
remarks) within the standard workspace directory.
Show
combo box
In the Show combo box, the displayed list of files can
be modified according to the selection:
• All files
• Files from this instrument
• My files: This option is available if the user
administration is enabled (always enabled in
magellan Tracker).
• Signed files: only available for magellan Tracker.
• Custom definitions are possible by clicking the
button; see File Selection Criteria below.
• Example files: only available if they have been
installed.
7. Evaluate Results Wizard
108 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
7.2.1 File Selection Criteria
Click the button to open the File Selection Criteria dialog box.
Select one of the options under Workspace Criteria or enter characters in the
Containing text field which must appear in the Filename. A time filter can be
applied by selecting one of the options under Workspace file created/modified
or enter a number in the Last ... days field. Click OK to save the settings.
Select the workspace file to be evaluated from the Filename list and click
Make your selection.
Note
If a SUNRISE instrument is connected, but an INFINITE F50 method is
selected, the Instrument Mismatch dialog appears:
• Connect to the proper instrument
7. Evaluate Results Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 109
7.3 The Workspace Overview Window
The Workspace Overview window displays all available data of the currently
selected workspace.
If the currently working user has the appropriate magellan rights, it is also
possible to make some changes in the method by clicking on the Edit Method
tab and perform a recalculation of the measured data.
The Workspace Overview is composed of the following elements:
• Plate Layout window: selected data for each well is displayed in the plate
layout. If a multiplate workspace is opened, a “counter” for switching between
the different plates is displayed in the right upper corner.
• Toolbar: for editing, zooming, switching between kinetic cycles and viewing
the summary of one selected well.
• Data Information window: data which cannot be assigned to a single well is
displayed in the text box window (for example: measurement parameters,
cutoff definition, result statistic, etc.).
• Control Bar of Evaluate Results tab: all available data set names are
displayed. Selecting a data set will either display the data in the plate layout or
display the data in the Data Information window.
• Control Bar of Edit Method tab: the settings and parameters of the loaded
method are displayed.
The size of the latter three windows can be changed by using the splitter bars
that separate the windows.
Plate Layout
The view displays a schematic layout of a microplate. Rows are marked
alphabetically, columns numerically.
In the control bar on the left-hand side, all available data is listed. The selected
data is displayed in the plate layout, in the text pane or in a separate graph
window, according to the type of the selected data.
7. Evaluate Results Wizard
110 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Context-Sensitive Menu of the Plate Layout
To display a summary of all data of one well, select the well and select
Summary from the right mouse button menu.
Toolbar Buttons
Available toolbar buttons are described in the following paragraphs.
Depending on the data selected, different buttons are displayed:
when Instrument data is selected, the Edit button is available;
when Concentration or Kinetic data is selected, the Curve/Graph button is
available.
The following buttons are only available in the Evaluate results wizard.
Edit
Click the Edit button to edit or mask raw data.
button
Click this button to display the Summary dialog box.
10% button
Click this button to resize the displayed plate layout to
show 10% of the plate layout on the full screen.
100% button
Click this button to resize the displayed plate layout to
show 100% of the plate layout on the full screen.
Zoom check box
When the Zoom check box is selected, the required wells
on the plate layout can be marked and the labeled wells
are automatically enlarged to fit into the full screen.
Measurement
cycle drop down
list
If the measurement is a kinetic measurement, the desired
measurement cycle can be selected in the drop down list.
Data Information Window
Click, for example, Miscellaneous data in the Evaluate Results tab to view the
corresponding information in the Data Information window.
7. Evaluate Results Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 111
7.4 Evaluate Results Tab
All available data set names are displayed in the Available Data control bar.
There are several different viewing options:
• Selected data that presents a value for each well is displayed in the plate
layout window. It can be viewed as values or in pseudo-colors together with a
colors scale.
• Kinetic data can be viewed as a small graph in each well.
• Selected data that presents a data collection which cannot be assigned to a
single well is displayed in the data information window (f.e. QC-Validation
criteria).
• If a graph (standard curve, kinetics, enzyme kinetics, dilution series, multilabel,
spectra) is selected, the Graph dialog box appears.
If a measurement sequence consisting of individual independent measurements
has been executed, the results of each measurement are displayed upon
selection of the relevant measurement number from a drop-down list in the
toolbar (f.e. kinetic cycles in a kinetic run).
If necessary, the measurement results can be modified by clicking the Edit
button. Manipulated data is marked with a ~ sign.
WARNING
THIS FUNCTION IS FOR RESEARCH USE ONLY AND MUST NEVER
BE USED FOR DIAGNOSTIC TESTS.
In each well of the plate layout, three lines of data can be displayed. Depending
on which criteria selected in the control panel in the left window, different values
are displayed.
7.4.1 Menus
File
ASCII File Export…
ASTM File Export (LIS)…
Sample Tracking Export…
Excel Export…
Method Export
Print…
Print Preview…
Printer Setup…
Printout Font…
Plate to Plate QC…
Edit
Copy to Excel
Copy to ASCII Format
Paste from ASCII Format
Insert Sample ID List…
Recalculate with another Method…
Instrument
Movements…
Temperature Control…
Start Measurement…
7. Evaluate Results Wizard
112 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
7.4.2 Toolbar Menu: File
ASCII File Export
Click ASCII File Export to export data as ASCII (.asc) files.
Before export procedure, the data must be selected in the Data Export dialog
box via Edit method tab → Data handling → Data export.
Select the folder, where the exported data shall be stored. Enter a file name
(.asc).
Upon clicking Save in the Save as dialog box, the data sets specified in the Data
Export dialog box will be saved as an ASCII file.
ASTM File Export (LIS)
In the File menu, click ASTM File Export to export data to in ASTM format to
compatible Laboratory Information Systems.
Select the data to be exported from the Data Export dialog box via Edit method
tab → Data handling → Data export.
Sample Tracking Export
In the File menu, click Sample Tracking Export to export data to the Sample
Tracking system
Select the data to be exported from the Data Export dialog box via Edit method
tab → Data handling → Data export.
Excel Export
Click Excel Export to export data to Excel.
Select the data to be exported from the Data Export dialog box via Edit method
tab → Data handling → Data export.
Method Export
Click Method Export to export a method.
Select the folder to save the method and enter the desired file name. Additionally,
some comments can be added in the Remarks text field.
Print
In the File menu, click Print… or press SHIFT-P to print the data as defined with
the Printed Report setup from the method. The standard Windows Print dialog
box is opened, where the printer, page range and number of copies can be
selected.
Print Preview
Click Print Preview....to see exactly how a print-out will appear without actually
having to print the document.
Printer Setup
Click Printer Setup.... to change the current printer or modify the printer settings.
The standard Windows Print Setup dialog box appears. Select printer, paper
size and orientation of printout.
Printout Font
Click Printout Font… to select a specific font, font style, font size, font color etc.
for future printouts.
These settings will have no effect on the screen display. Large fonts should be
avoided to prevent errors or misrepresentation of data.
7. Evaluate Results Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 113
Plate to Plate QC
When Plate to Plate QC is configured in the method definition, magellan
compares the currently observed mean value of a control against the mean and
standard deviation previously defined for this method. (Refer to chapter
4 Create/Edit a Method Wizard).
Levy-Jennings-Graph
Click Plate to Plate QC and the Levy-Jennings-Graph window appears. The
Levy-Jennings-Graph displays the trend of the control values.
On the y-axes, the data values (raw data, concentrations, etc.) as set in the
method definition are applied on the time scale of days (x- axes).
The control values are displayed together with the mean value and the distance
lines of the standard deviations (1s, 2s, 3s).
When the cursor is placed on a measurement point, a tool-tip shows additional
information (workspace name, etc.). Use the check boxes of the single elements
of the Show list to select various controls to be displayed.
Time Range
Click Time range to evaluate workspaces within a defined time range.
Select Workspaces
Click En-/Disable to enable or disable certain workspaces for evaluation.
7. Evaluate Results Wizard
114 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Data Sheet
Click View summary to open the Data sheet dialog box:
Workspace
column
A list of the evaluated workspace files. On the left-hand side of
the workspace name, a green checkmark indicates fulfillment,
a red cross indicates failure of the Westgard
®
rule evaluation
(see Instructions for Use for magellan for further information
on Westgards Rules).
Control
column
The different controls are listed.
Value
column
The mean value of each control is displayed.
Westgard
®
rule
evaluation
columns
The individual Westgard
®
rules are evaluated with OK for a
not violated control rule or x for a violated control rule
according to the table below (see Westgard rules below).
Comments
field
Comments to the evaluation can be entered.
Print Preview
button
Print preview with the Levy-Jennings graph, Westgard rules
check and comments.
Westgard Rules
The Westgard
®
rules are a multirule QC model:
Yes = control rule
violated
No = control rule
not violated
7. Evaluate Results Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 115
1:2s
Control rule to test whether a control measurement exceeds the control limits of
x + 2SD or x - 2SD.
This rule is used as a warning rule to trigger careful inspection of the control
data by the following control rules.
If no control measurements exceed the mean plus 2s or the mean minus 2s
control limit, then the measurement procedure is considered “in-control“,
regardless whether any of the other rules have been violated.
However, if one control measurement exceeds the mean plus 2s or the mean
minus 2s control limit, and any of the other rules are violated, the measurement
procedure is considered “out-of-control“.
1:3s
Control rule to test whether a control measurement exceeds the control limits of
x + 3SD or x - 3SD.
A run is rejected if a single control measurement exceeds the mean plus 3s or
the mean minus 3s control limit.
2:2s
Control rule to test whether two consecutive control measurements exceed the
same control limit of either
x + 2SD or x - 2SD.
A run is rejected if 2 consecutive control measurements exceed the mean plus
2s or the mean minus 2s control limit.
R:4s
Control rule to test whether the range, or difference, between control
measurements exceeds 4SD.
A run is rejected if 1 control measurement exceeds the mean plus 2s and
another exceeds the mean minus 2s. The two control results need not be
consecutive.
4:1s
Control rule to test whether four consecutive control measurements exceed the
same control limit of either
x + 1SD or x - 1SD.
A run is rejected if 4 consecutive control measurements exceed the mean plus
1s or the mean minus 1s control limit.
10:x
A run is rejected if 10 consecutive control measurements fall on the same side
of the mean. However, if one of these results falls directly on the mean, then the
run is not rejected.
7.4.3 Toolbar Menu: Edit
The Edit menu contains the following selections:
Copy to Excel
The Copy to Excel command allows the user to export data directly into an MS
Excel worksheet.
Copy in ASCII-Format
Select Copy in ASCII format to copy the data, which is contained in the
selected wells of the plate layout, to the clipboard.
This function allows transferring the well data to other software applications.
Paste from ASCII-Format
In the Edit menu, click Paste or press CTRL-V.
The contents of selected data will be pasted from the clipboard using the ASCII
data format. The function allows the transferring of data from other software
applications (for example: Excel) into the wells.
First, the relevant data has to be selected with the mouse in the other software
application. Then the selected data has to be copied and is transferred to the
7. Evaluate Results Wizard
116 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
clipboard. The rows have to be separated by linefeed, the columns by tab stops.
This is automatically done in Excel when selecting multiple cells.
The Paste function pastes the copied data in ASCII format from the clipboard
into the wells. Data is always inserted starting at position A1. If the data is non
numerical the value is set to 0.
In case of an unfinished kinetic with defined interval, a question is displayed
asking whether the currently selected data should overwrite the original data or
append the data. The time interval is taken from the measurement parameters.
Insert Sample ID List
For detailed information see 6.5 Start Measurement - Insert Sample ID List.
Recalculate with Another Method
A recalculation based on the settings of a newly selected method will be
performed.
If an error occurs during recalculation, the procedure will be stopped.
Click this option to open the File Open dialog box. In an additional Remarks
field, a text description of the file - if entered - will be displayed (available only in
magellan Tracker). The method must be selected by either double-clicking the
method file or by selecting the method file and clicking the Open button.
After selecting the method, the Calculating... dialog box is displayed. This dialog
box is for display only and contains no elements for editing. It closes after the
calculation is finished.
7.4.4 Toolbar Menu: Instrument
For detailed information on Movements and Temperature Control see chapter
3.1 Instrument Options.
Start Measurement
Using this option, the measurement run can be started again with the currently
loaded method and current data will be overwritten if YES is selected in the
magellan dialog box.
In case of an incomplete kinetic run, cycles can be added (not available for
Infinite Series instruments).
For detailed information see 6.5 Start Measurement with a Predefined or
Favorite Method.
7.4.5 Plate Layout Window
The data, which is to be displayed within a well when opening a workspace file,
can be set when defining the method (Automated data handling → view
results after measurement → More…).
In each single well, three lines are visible; the following data is displayed as
default:
1
st
line: layout
2
nd
line: replicate info
3
rd
line: in the third line, according to the data selected, the conventions
described in the following chapter are used (cf. 7.4.6 Special Characters).
7. Evaluate Results Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 117
7.4.6 Special Characters
“None”
No data is displayed.
“~” tilde
A tilde is appended for the manipulated value of a
well (simulated, edited); for example: 0.354~
“( )” parenthesis
Parenthesis are applied for the masked value of a
well; for example: (0.354)
“!” exclamation mark
An exclamation mark is appended for the eliminated
value of a well; for example: !0.354
“#” hash
Concentration values are marked with a ‘#’ when the
calculated concentration lies outside of the range of
the standard curve that means the concentration
value has been extrapolated. For example:
#13.75
“ * ” asterisk
An asterisk marks values that have been measured
using the “Use gain regulation” option, which corrects
(=lowers) the gain.
Corresponding error
message is displayed
The average value of a well is unusable (for example:
lamp low, divide by zero, negative logarithm).
No color,
third line is empty
No formula is applied to the well or
Replicate well if “average s” or “v calculation” or
No cutoff result.
Data of first replicate is
masked or eliminated
Average value is derived without using the masked
data, but the average value is displayed in the well of
the first replicate
“< MIN”
The calculated concentration lies beneath the lowest
standard.
“MltPt”
Multiple points; a unique concentration cannot be
calculated.
“> MAX”
The calculated concentration lies above the highest
standard.
“NoCalc”
Input data is not found or calculation error;
calculation is not possible
Shortcuts
When viewing transformed data, press CTRL-SHIFT to display the defined
formula in the second line as long as the key is pressed.
7.4.7 Control Bar: Instrument Data
The user can select raw data, spectrum data, etc. and their statistics according
to the performed measurement.
7.4.8 Control Bar: Reduced Data
The user can select reduced data, e.g. difference data according to the
performed measurement.
7.4.9 Control Bar: Transformed Data
The user can select the required transformation to display the calculated results
including their statistics, colored display, etc.
7. Evaluate Results Wizard
118 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
7.4.10 Control Bar: Kinetic Parameters
The user can view the kinetic evaluation parameters such as Mean/Max slope,
Time Onset, etc. according to the measurement definition.
Note
Unusable data (e.g. overflow values) are ignored for kinetic data
calculation.
Define Kinetic Data Reduction Well Specifically
Select Edit kinetic settings… from the right mouse context menu when a well is
selected. The Kinetic Data Reduction dialog is displayed (see chapter
4.3.6 Kinetic: Kinetic Data Reduction for further details).
For the selected well, particular parameters can be defined which can also be
copied to other well(s) (select Copy kinetic settings from the right mouse
context menu, click in the well(s) where the settings have to be copied to and
select Paste kinetic settings…).
Changing the Kinetic Data Reduction settings in the Method tab will overwrite the
well specific definitions.
Graph: Enzyme Kinetics Dialog
The Enzyme Kinetics Graph dialog box enables the user to display the enzyme
kinetics graph.
Context-Sensitive Menu of Enzyme Kinetics Graph
By right-clicking on the graph, a context-sensitive menu is displayed.
Crosshair cursor
A crosshair cursor is displayed in order to assist in
placing the cursor on particular points on the graph.
Copy to Clipboard
Copies the graph into the clipboard as a bitmap; the
bitmap can be transferred to any Windows application by
using the paste function.
Save as bitmap
Saves the graph as a bitmap file.
Print…
Prints the graph.
Printer setup…
Displays the Printer Setup dialog box, in which the
printer settings can be defined.
Zoom to 100%
Sets the graph display back to 100% if the zoom factor
has been changed by selecting rectangular regions of the
graph.
Enzyme Kinetics
Data…
Opens the Enzyme Kinetics Data dialog box. The
Enzyme Kinetics Data dialog box displays the result of
the defined enzyme kinetics analysis.
Properties…
Select this command to change the graph display
properties. The graph title, the axis styles, the curve style
etc. can be customized.
Help…
Opens the magellan help dialog box.
7.4.11 Control Bar: Concentrations
Select single concentration, mean or average single concentration to view the
results, calculated according to the standard curve:
• Single conc. (Unit)
Concentration of individual replicate.
7. Evaluate Results Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 119
• Mean conc. (Unit)
The mean value of replicates is used for calculation of concentration. If
replicates with different dilutions are defined, the mean concentration will not
be available.
• Average single conc. (Unit)
For each replicate the concentration is calculated. Then the concentrations
are averaged.
• Additional concentrations (single, mean and average concentration) if
available.
• Graph: Standard Curve
Click this option to open the Graph: Standard Curve dialog box
• Intercepts
• Values for concentration transformations if defined
• IC 50, r-IC 50, Graph: dilution series
Graph: Standard Curve Dialog
Open this dialog via the control bar or by clicking Curve on the toolbar to display
and edit the Standard Curve.
This dialog box has its own menu with options to save the standard curve,
change the analysis type or compare a number of curves. The graph can be
exported as a bitmap, which can then be incorporated into documents of other
software applications.
The Graph: Standard Curve dialog box contains the following elements:
File menu
The File menu contains the following commands:
• New is selected to create a new standard curve, the X and Y values can be
defined in a dialog box.
Enter measured values (Y Value) and concentration (X Value). If the Exclude
option is selected, the corresponding point will not be incorporated into the
calculation of the graph.
On completion, click the OK button.
• Open is selected to open a previously saved standard curve.
A standard curve, saved in the file format .std can be opened. On execution
of this command, the graph will be displayed together with the already
displayed standard curves.
• Close
If a number of curves are open, individual curves can be closed using this
option.
The relevant curve must be selected from the available list and closed by
clicking the OK button.
• Save/Save as is selected to save a standard curve for further evaluations.
A standard curve can be saved as a .std file. The file can be included in the
method by switching to the Data tab. If the user has selected Save and the
curve had previously been saved, it will simply be stored without displaying
any prompts. If this is not the case, the user will be invited to enter a name for
the new curve.
• Export is selected to export a standard curve as a bitmap file.
• Print… is selected to print the standard curve. This command will print the
current graph.
• Printer Setup…
Selecting this option displays the Printer Setup dialog box.
7. Evaluate Results Wizard
120 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
• Exit is selected to exit the standard curve dialog box.
If any modifications have been made, for example a change of interpolation
process, a new calculation will be performed.
Note
Standard curves added by New or Open are for comparison only. After
closing the Standard Curve dialog box, the curves will be removed.
EXPERT’S KNOW HOW
A saved standard curve file can be used in methods, which do not have
standards in the layout, to calculate sample concentrations. See
4.3.8 Concentrations: Standard Curve, Standards from external file.
Edit menu
The Edit menu contains the following commands:
• Select Copy to copy the graph to the clipboard as a bitmap, which can be
transferred to any Windows application by using the copy/paste function.
• Select Properties to modify the analysis type, axes, title, etc.
• Select Standard Curve to open the standard curve dialog box. In this dialog
box, standard points may be excluded or included.
Upon selecting the relevant curve from the available list and clicking the OK
button, all of the base points will be displayed in the appearing window.
Activate or exclude a point by clicking on the Exclude option. Only those
points that have not been marked as excluded will be used when calculating
the standard curve.
Only base points that have been obtained from raw data, have been manually
entered, or have been additionally loaded can be modified. Base points
obtained from transformation, for example, can only be excluded.
• Conc. Range: The Concentration Range dialog box is displayed. Choose
between Display all and Display range. If Display range is selected and the
Min. and Max. limits are defined, only concentration values in the specified
range are displayed in the plate layout window.
View menu
The View menu contains the following commands:
• Select Audit trail to display the audit trail of an external standard curve. This
option is only available for magellan Tracker.
• Select Statistics to display the statistics of the obtained values.
In order to assess whether any drift or changes have occurred with the reader
over a period of time, it is possible to compare a series of standard curves by
means of statistics values.
If a number of curves are loaded, the average, the standard deviation and the
variation coefficient will be calculated for each of them.
• Intercepts… opens the Intercepts dialog box. The Intercepts dialog box
displays the result of the defined intercept values.
• Average Standard Curve displays the standard curve averaged over the
performed experimental groups.
This option can only be activated if a number of curves are present in the
window. An average curve will be generated and displayed using the
collective curve data.
7. Evaluate Results Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 121
Help menu
Select Help to open the magellan help dialog box.
Click on points
Clicking on points will mask/unmask them within the standard curve. After a
point is masked the line of the graph is automatically adjusted accordingly and
the point is represented as a transparent symbol instead of a solid symbol.
Hint: This can be undone by pressing CTRL+Z.
X, Y cursor tool-tip
When the cursor is not moved for a short moment, a tool-tip text appears
displaying the X and Y coordinates of the current cursor position.
EXPERT’S KNOW HOW
If more than six standard curves are displayed in the graph, only a small legend
on the right side shows the label of the graph. To view the fit functions
respectively the curve fit parameters, select Standard Curve Data from the
context-sensitive menu (see below).
Context-Sensitive Menu of a Standard Curve Graph
By right-clicking on the graph, a context-sensitive menu is displayed.
Crosshair cursor
A crosshair cursor is displayed in order to assist in
placing the cursor on particular points on the graph.
Single points
View replicate values instead of mean values.
Copy to Clipboard
Copies the graph to the clipboard as a bitmap, which can
be transferred to any Windows application by using the
paste function.
Save as Bitmap
Saves the graph as a bitmap file.
Print…
Prints the graph.
Printer Setup…
Displays the Printer Setup dialog box.
Undo changes
Cancels recent actions.
Zoom to 100%
Sets the graph display back to 100% if the zoom factor
has been changed by selecting rectangular regions of the
graph.
Standard Curve
Data
Views the curve fit parameters of the displayed standard
curve(s).
Intercepts…
Opens the Intercepts dialog box, which displays the
result of the defined intercept values.
Properties…
Changes the graph display properties. The graph title, the
axis styles, the curve style etc. can be customized.
Help…
Opens the standard magellan help dialog box.
Graph: Dilution Series Dialog
The Graph: Dilution Series dialog box displays the dilution graph with the
specified intercept.
Context-Sensitive Menu of Dilution Series Graph
By right-clicking the graph, a context-sensitive menu is displayed.
7. Evaluate Results Wizard
122 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Crosshair cursor
A crosshair cursor is displayed in order to assist in
placing the cursor on special points on the graph.
Copy to Clipboard
Copies the complete graph into the clipboard as a
bitmap; the bitmap can be transferred to any Windows
application by using the paste function.
Save as bitmap
Saves the graph as a bitmap file.
Print…
Opens the Print dialog box from which the graph can
be printed.
Printer Setup…
Opens the Printer Setup dialog box, in which the
printer settings can be defined.
Zoom to 100%
Sets the graph display back to the 100% if the zoom
factor has been changed by selecting rectangular
regions of the graph.
Dilution Series
Data
Displays the intercept values and correlation
coefficients.
Properties…
Select this command to change the graph display
properties. The graph title, the axis styles, the curve
style etc. can be customized.
Help…
Opens the standard magellan help dialog box.
7.4.12 Control Bar: Qualitative Results
The cutoff definition shows an overview of the currently used cutoff ranges and
the used cutoff limits.
In the data information window on the bottom of the screen, the list of cutoff
definitions is displayed (experimental groups, input data, cutoff ranges, etc.).
The user can view the cutoff results.
• Cutoff definition
Ranges and limits of the ranges
• Cutoff results
Cutoff result for each well
• Cutoff statistic
Statistics of the number of hits for each range
7.4.13 Control Bar: Sample IDs
The user can view the sample ID list data.
7.4.14 Control Bar: Method Layout
The user can view the method layout, i.e. well positions, layout, replicate info,
measurement parameters, etc.
7.4.15 Control Bar: QC Validation
The list of validations contains the experimental groups, the input data for each
validation group, the validation formulas, and their results (TRUE or FALSE).
If the result is TRUE, it indicates that the validation criteria were met for this
specific plate, whereas FALSE represents an invalid result for the whole plate.
7.4.16 Control Bar: Miscellaneous
The error protocol logs all errors that occur during the run of a method. Errors
can occur during a measurement or during the calculation. Review the error
protocol before using data and results.
7. Evaluate Results Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 123
7.4.17 Color Scale Box
If values contained within the analysis plate are presented in different colors, the
Color scale dialog box is displayed. The colors allow for a fast overview of the
measurement results of the individual wells. The colors, as they are used,
depend on the settings defined in the color scheme.
7.4.18 Context-Sensitive Menu of a Well
By right-clicking on a well on the plate layout – when having selected the tab
Edit Method –, a context-sensitive menu is displayed.
Summary Dialog
The Summary dialog box provides an overview of all defined parameters of a
selected well.
Information tree
The information tree gives an overview of all defined well-
based parameters of the selected well. The tree is filled
according to the available information, e.g. if sample ID
list information is available the sample ID, the pipetting
status, etc. are displayed. If raw data is available,
additional information can be displayed depending on the
measurement settings and the connected instruments, for
example for kinetic measurements the time points are
displayed.
Left, right, up and
down buttons
The direction buttons can be used to select another well
on the plate while leaving the dialog box open.
Expand All /
Shrink All
Click this button to display the information tree expanded
to the highest level or to shrink to the first level.
OK
Closes the Summary dialog box.
Details Dialog
The Details dialog box displays the multiple reads per well results of one well.
File menu
Save & Exit is selected to save all changes and close the
dialog box.
Edit menu
The Edit menu contains the following commands:
• Click Copy to copy the single values into the
clipboard, which then can be transferred to any
Windows application by using the paste function.
• Select Recalculate to force the recalculation of the
statistic data at the bottom of the dialog. This option is
disabled if Automatic Recalculation is set.
• If Automatic Recalculation is set, the statistic data is
calculated after every mask/unmask action.
View menu
The View menu contains the following commands:
• Values can be selected to display the reads as
values.
• Use this option to view multiple reads per well
coarsely and quickly. Graphic can be selected to
display the read values as colors. Brightness uses
one color with different brightness to display the
values. Pseudo Colors uses different colors to
display the values. A color bar with a slide control is
displayed to change the intensity.
7. Evaluate Results Wizard
124 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Help menu
Click Help to open the magellan help dialog box.
Click on points
Clicking reads will mask/unmask them. After a read is
masked, the value is put in brackets. If the color display is
enabled, the read is displayed in white with a black
circular border.
Edit Dialog
Use this command to edit the measured raw data of a selected well.
Edit raw data text
field
A new value for the selected well can be entered. Data is
then shown with the symbol ~ (refer to chapter
7.4.6 Special Characters).
Reset button
Resets the well to its original value.
Mask check box
Excludes the value of the well from the calculation. Data
is then shown in brackets. Select the Mask check box
again to include the value again.
Left, right, up and
down buttons
The direction buttons are used to select another well on
the plate while leaving the dialog box open.
OK
Closes the Edit dialog box.
Graph: Multilabel Dialog
The Graph: Multilabel dialog box displays the data of the selected wells. The
raw data versus well IDs is displayed.
Context-Sensitive Menu of Multilabel Graph
By right-clicking the graph, a context-sensitive menu is displayed.
Crosshair cursor
A crosshair cursor is displayed in order to assist in
placing the cursor on particular points on the graph.
Copy to Clipboard
Copies the graph to the clipboard as a bitmap, which can
be transferred to any Windows application by using the
paste function.
Save as bitmap
Saves the graph as a bitmap file.
Print…
Opens the Print… dialog box from which the graph can
be printed.
Printer setup..
Opens the Printer Setup dialog box in which the printer
settings can be defined.
Zoom to 100%
Sets the graph display back to 100% if the zoom factor
has been changed by selecting rectangular regions of the
graph.
Properties…
Select this command to change the graph display
properties. The graph title, the axis styles, the curve style
etc. can be customized.
Help…
This button opens the magellan help dialog box.
Graph: Kinetics Dialog
The Graph: Kinetics dialog box displays the graphs of kinetic measurements of
one or more selected wells. The legend contains the calculated kinetic
parameters.
7. Evaluate Results Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 125
Click on points to mask/ unmask them within the kinetic graph. After a point is
masked the line of the graph is automatically adjusted accordingly and the point
is represented as a transparent symbol instead of a filled colored symbol.
Context-Sensitive Menu of Kinetics Graph
By right-clicking on the graph, a context-sensitive menu is displayed.
Crosshair Cursor
A crosshair cursor is displayed in order to assist in
placing the cursor on particular points on the graph.
Copy to Clipboard
Copies the graph to the clipboard as a bitmap, which
can be transferred to any Windows application by using
the paste function.
Save as bitmap
Saves the graph as a bitmap.
Print…
Opens the Print… dialog box from which the graph can
be printed.
Printer Setup…
Opens the Printer Setup dialog box in which the printer
settings can be defined.
Zoom to 100%
Sets the graph display back to 100% if the zoom factor
has been changed by selecting rectangular regions of
the graph.
Show Kinetic
Reduced Data
Calculated kinetic data (slopes, onsets, minima,
maxima) can be visualized in the graph of the kinetic
curve(s). Slopes are visualized as curves; onsets,
minima and maxima as intercept points. The display
can be enabled/disabled via the context menu item
Show Kinetic Reduced Data in the kinetic graph
dialog. The current display state is stored and will be
reused for further displays.
Temperature curve
This option shows/hides a curve visualizing the
temperature progression during kinetic measurements
(if available).
7. Evaluate Results Wizard
126 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Kinetic
parameters…
Opens the Kinetic parameters dialog box and offers
the ability to modify the kinetic settings for the selected
well(s).
Kinetic Data…
Select this menu item to show a table of all calculated
kinetic data of the selected well(s).
Y-Axis scaling
A range for the Y-axis can be selected.
Properties…
Select this button to change the graph display
properties. The graph title, the axis styles, the curve
style etc. can be customized.
Help
Opens the magellan help dialog box.
EXPERT’S KNOW HOW
Setting different kinetic parameters for different wells is possible either by using
the context sensitive menu for a well in the plate layout window or by using the
context sensitive menu in the kinetic graph dialog. Editing the kinetic parameters
in the Edit method tab, the kinetic parameters are set identical for all wells.
Graph: Spectra Dialog
The Graph: Spectra dialog box displays the spectrum of a scan measurement.
Context-Sensitive Menu of 2D Spectra Graph
By right-clicking on the graph, a context-sensitive menu is displayed.
Crosshair cursor
A crosshair cursor is displayed in order to assist in
placing the cursor on particular points on the graph.
Copy to Clipboard
Copies the graph to the clipboard as a bitmap, which
can be transferred to any Windows application by
using the paste function.
Save as Bitmap
Saves the graph as a bitmap.
Save as JCAMP-DX
Select this command to save the graph as a JCAMP-
DX 4.24 file.
Save as ASCII
Select this button to save the graph as a tab
separated ASCII file.
Print…
Opens the Print… dialog box from which the graph
can be printed.
Printer Setup…
Opens the Printer Setup dialog box in which the
printer settings can be defined.
Zoom to 100%
Sets the graph display back to 100% if the zoom
factor has been changed by selecting rectangular
regions of the graph.
Spectra Data
Reduction…
Select this command to change the Spectra Data
Reduction parameters settings.
Spectra Reduced
Data…
Select this command to display a list of reduced
spectra data.
Note! This command is enabled only when reduced
spectra data of type value is available.
Data as Table
Opens a dialog box showing the spectrum as table.
This allows copying the data to Excel.
7. Evaluate Results Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 127
Spectrum masked
The spectrum and the reduced data are displayed as
masked. This prevents further calculation of this well.
Option is available only when raw spectrum is
displayed.
Show Prim.
Spectrum
The selected spectrum and the raw spectrum are
displayed together.
Option is available only when reduced spectrum is
displayed.
Properties…
Select this command to change the graph display
properties. The graph title, the axis styles, the curve
style etc. can be customized.
Help…
Opens the magellan help dialog box.
Note
To export scan results, go to the context-sensitive menu by right-
clicking on the spectra graph. Select Data as Table in the dialog box and
copy the data to Excel or save them as ASCII file.
7. Evaluate Results Wizard
128 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
7.5 Edit Method Tab
Click this tab to change to the currently used method and its settings. Every
modification of the method results in a re-calculation of all data when changing
back to the Evaluate Results tab. These changes can be saved in the workspace,
however, will not be applied to the originally inserted method file itself.
See chapter 4 Create/Edit a Method Wizard for further information
The Edit method tab is displayed only if the currently working user has the
appropriate rights (chapter 9.6 User Rights).
7.6 Saving the Evaluated Results
Click Next on the Results dialog box to reach the Save in dialog box:
Save in
group box
Filename text field: a default name for the file will appear, but
can be changed if desired.
File remarks text field: enter remarks if necessary.
Audit trail
comment
group box
Audit trail comment text field: enter comments to the audit
trail as necessary (only available for magellan Tracker).
Save…
button:
Saves the workspace file
Export…
Click this button to open the Export dialog
Audit Trail
button:
Use to view the Audit Trail of the file (only available for
magellan Tracker). Refer to chapter 4.4 Saving the Method –
Audit trail for further information.
Signatures
button:
Use to view the signatures attached to this file (only available
for magellan Tracker). Refer to chapter 4.4 Saving the Method
for further information.
Sign this
workspace
now
Select Sign this workspace now to open the Attach
Signature wizard (only available for magellan Tracker).
Click the FINISH button to close the Evaluate Results wizard. In case of
unsaved changes, the user is asked to perform the saving.
Click the Save button for saving the data without closing the wizard.
8. Attach Signature Wizard
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 129
8. Attach Signature Wizard
8.1 Introduction
Several signatures can be applied to one record and are always included in the
printed report. Signed records can only be modified by users with the appropriate
rights. It is possible to fully control the use of methods by allowing users to run
only signed methods. Only Method and Workspace files can be signed.
Note
This wizard is only available with magellan Tracker.
Click Attach signature to start the Attach signature wizard.
After the welcome dialog box, the Select a File dialog box appears. Select a
Method or Workspace file for signing.
Show
combo box
In the Show combo box the displayed list of files can
be modified according to the selection. Possible
selections are:
• All files
• Unsigned files
• Signed files
8.2 Sign a File
Click Next and the Sign window appears:
8. Attach Signature Wizard
130 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Review
Can only be signed by a user with the appropriate rights.
Approval
Can only be applied by a user with the appropriate rights for
records with an already existing review signature. Review and
approval cannot be signed by the same user. No changes may
be made to the file between review and approval.
Custom
Enter a custom signature meaning in the text field.
The default user settings only allow administrators to attach signatures to
reviews and approvals and to modify signed files.
Comments can be added in the Comment text box.
In the User Name text field, the user name of the currently logged in user must
be entered. In the Password text field, the password of the currently logged in
user must be entered.
Click Finish to confirm the entered information and sign the record.
Note
Depending on the standard operating procedures of the company using
this software, this signature may be viewed as legally binding. Therefore
it is very important that the users keep their passwords secret.
9. Miscellaneous Icon
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 131
9. Miscellaneous Icon
Click the miscellaneous icon in the wizard window and select between the
following actions/ definitions:
9.1 Instrument Control
See chapter 3 Instrument Control & Settings.
9.2 File Handling
9.2.1 Archive Files
The Archive Files group box gives an overview and complete control of file
backup. It lists all the files (workspaces, methods, sample ID lists or temporary
files) saved by magellan.
9. Miscellaneous Icon
132 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
The files for backup have to be selected from the File Name list.
Click Archive to move all selected files to the specified backup directory in the
appropriate subfolders.
When files have the attribute read-only, a warning box appears before the files
are deleted.
The Archive Files group box contains the following elements:
Archive path
Define the archive path. Click the browse button to change
the path.
File Name
list
• Lists all files saved by magellan filtered by the options
entered via the Filter button.
Archive
button
Click Archive to move all files selected in the File Name list to
the backup directory (cut-and-paste function).
Select All
button
Click Select All to select all files displayed in the File Name
list.
Refresh
button
Click the Refresh button to cancel the current Filter option and
to refresh the file list.
Filter
button
This button is used to display only specific files, or files with a
certain string in their file names:
• A question mark ? can be applied as a wildcard for one
single character.
• An asterisk * can be applied as a wildcard for no or many
characters.
9. Miscellaneous Icon
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 133
Automatic Archiving
The automatic archiving function copies workspace, method and sample files,
which are either automatically or manually saved by the user, to a user-defined
directory.
The Automatic Archiving option is only available in the magellan Tracker
version and can only be enabled by users with Modify general options rights.
Automatic
archiving
group box
• Enable archiving check box: select this check box to
activate automatic archiving.
• Click the file browser button (“…”) to browse for the
archiving directory.
Note
It may happen that a selected archive directory becomes invalid, e.g. a
network drive. In such a case magellan will not explicitly warn the user
but will make an entry in the System Audit Trail’s log file.
Note
Please note that files are saved in the archiving directory only from the
moment of activating the Auto Archive function. Files which have been
saved before activating the Auto Archive function are not saved in the
archiving directory.
9. Miscellaneous Icon
134 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
9.2.2 Import Raw Data
By using the ASCII File Import function, the user can process ASCII data files in
magellan which already contain measurement data and additional
transformations. Some data format definitions must be performed in advance to
guarantee correct data retrieval. For example, the individual data must be
separated from the data list by specified separators.
Further options which must be specified are: Plate format, number of
measurements, measurement interval, and type of data order, orientation and
physical unit of the values.
Data import fails if the ASCII file does not contain as many entries as specified
by the plate format.
Once the required options have been defined, select the desired file from the
files selection field and retrieve the file data by clicking the Open button.
The Open dialog box is a standard Windows ‘open file’ dialog box with file
navigation elements, a text field for entering a file name and a drop down list for
the selection of a file type (*.asc).
Additionally, the Open dialog box contains the following elements for setting
ASCII-Options:
Format
option button
It defines the expected data format Table or Matrix
Separator
group box
It defines which character is used for the separation of
the data fields of the list or matrix:
• Tabulator if Tabulator is selected.
• Any other character entered in the Other text-field.
Orientation
option button
It defines the orientation of the data, i.e. either
horizontal or vertical.
Measurement Parameters
Info
The box shows the following parameters:
• Plate format
• Data unit
• Number of measurements
• Measurement interval
Measurement
Parameters button
Select the measurement type, the plate type, kinetic
cycle number and interval.
9.2.3 Convert To
The Convert Documents – Convert to dialog box enables the user to convert
magellan files from the current magellan version to files for previous magellan
versions.
Note
This option is available only when the current user has local
administrator rights for the Windows system.
CAUTION
AFTER CONVERSION, METHODS MUST BE VALIDATED, BECAUSE THE
CONTENT OF THE CONVERTED FILES MAY DIFFER SLIGHTLY FROM
THE ORIGINAL FILE (E.G. CONTENTS OF PRINTED REPORT, ETC.)
9. Miscellaneous Icon
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 135
The Convert Documents dialog box contains the following elements:
Document type
group box
Select the document type for conversion
Select all button
Click this button to select all displayed files in the file list
Filename list
All files available for conversion are displayed. Click a file
to select it for conversion. By holding the Shift-key,
multiple file selections are possible.
Source path edit
field
The Source path edit field contains the path where the
files to be converted are stored. Click the … button on the
right of the text field to change the path.
Destination path
edit field
The Destination path edit field contains the path where
the converted files are stored. Click the … button on the
right of the text field to change the path.
Convert
document(s)
button
Click this button to start conversion.
Version
drop down menu
Select from the drop-down menu the version of magellan
the files shall be converted to.
Progress bar
This bar shows the progress of the conversion.
WARNING
THE FILES MAY CONTAIN FEATURES THAT ARE NOT COMPATIBLE
WITH THE SELECTED FORMAT. THESE FEATURES ARE THEN
UNAVAILABLE.
9.2.4 Convert From
The Convert Documents – Convert from dialog box allows to convert
magellan files from previous versions to the current file format. Standard
magellan files can also be converted to magellan Tracker files.
Note
Files for conversion are displayed only if magellan is connected with the
instrument (measurement or demo mode) for which the files were
generated.
Note
Files from magellan versions earlier than 4.0 must be converted in order to
be used.
Note
Files from magellan Standard must be converted in order to be used with
magellan Tracker.
9. Miscellaneous Icon
136 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
CAUTION
AFTER CONVERSION, METHODS MUST BE VALIDATED, BECAUSE THE
CONTENT OF THE CONVERTED FILES MAY DIFFER SLIGHTLY FROM THE
ORIGINAL FILE (E.G. CONTENTS OF PRINTED REPORT, ETC.)
The Convert Documents dialog box contains two tabs.
The magellan 2.x/magellan 3.x tab contains the following elements:
Document type
group box
Select the document type for conversion, e.g. a method.
Customize new
method specific
options
group box
Several global options – in magellan versions lower than
V4.0 – are now method specific. In order to set these
options correctly in the method and workspace files, use
one of the export buttons or the Workspace name...
button.
Select all button
Click this button to select all displayed files in the file list
File name
list
All files available for conversion are displayed. Click a file
to select it for conversion. By holding the Shift-key,
multiple file selections are possible.
Note! Only workspaces and methods created with the
currently connected instrument are displayed.
Source path
edit field
The Source path edit field contains the path where the
files to be converted are stored. Click the … button on the
right of the text field to change the path.
Destination path
edit field
The Destination path edit field contains the path where
the converted files are stored. Click the … button on the
right of the text field to change the path.
magellan Tracker: this path cannot be modified.
Convert
document(s) button
Click this button to start conversion.
Progress bar
This bar shows the progress of the conversion.
WARNING
TESTS DO NOT CONTAIN MEASUREMENT PARAMETERS. WHEN
CONVERTING A TEST TO A METHOD THE MEASUREMENT
PARAMETERS HAVE TO BE DEFINED. MAKE SURE THE
MEASUREMENT PARAMTERS FIT TO THE SELECTED TEST.
The magellan 4.x / 5.x tab—available only with magellan Tracker—contains the
same window elements as the previously described tab, except that the following
options are not necessary:
• Document type test: Tests are not available with magellan 4.x / 5.x.
Customize new method specific options: These options are already customized
in magellan 4.x / 5.x files.
9. Miscellaneous Icon
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 137
9.2.5 Save Log Files
All log files can be saved as zip archive by clicking the Save Logfiles… button.
The zip archive can now be named and saved in a defined directory. In case of
any measurement or status error during performance of magellan, this archive
contains well data, status (e.g. overflow, lamp low) or calculation error(s) and can
be easily sent to your local helpdesk for support request.
9.3 Options
Several selections and adjustments which are valid throughout the complete
menus and wizards of magellan are defined in the Options dialog box. If
magellan user administration is activated, several settings are user dependent.
The Options dialog box is divided into individual tabs:
• Paths tab
• Copy tab
• Plate View tab
• Miscellaneous tab
The requested options have to be entered in the corresponding tabs. Click OK to
save the changes and to close the dialog box.
User dependent options (every user can modify the options for his convenience)
are:
• Default paths (only in magellan Standard)
• Copy to clipboard and Excel options
• Plate view
• Skip welcome page
• Start with wizard list or favorites page
• Move plate in after startup
The following user dependent options cannot be set in the options dialog box:
• Selected Printer
• Printout orientation.
• Printout paper size and source.
• Printout font and color.
• Default identifier types.
• Jumping direction for sample ID input.
• Import raw data settings.
• Default for Export options, Export to ASCII file, Export to Excel, and
Workspace Name.
• Graph dialog box size
The following options can only be modified by a user with the appropriate right.
These options are then valid for all users:
• Language
• Demo mode allowed
• Suppress ‘not monotone’ warning for standard curve
• Favorites
• Accepted HUIDs
9. Miscellaneous Icon
138 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Note
In magellan Standard the data path can be set by the user,
in magellan Tracker the data path is a general setting, valid for all users.
9.3.1 Default Data Paths
This tab defines the default paths the different file types used in magellan are to
be saved in. These predefined paths are set upon the software installation of
magellan and can be changed in the corresponding data fields of the Paths tab.
The Paths tab contains the following elements:
Default paths
text fields
A text field for each of the following file types is
displayed, containing the corresponding default
paths:
• Workspace
• Method
• Sample ID list
• Export: for measurement data exported to ASCII
files.
• Standard curve: The path for standard curves is
always the same as the path for workspaces.
• Bitmaps: for bitmaps created from graph dialog
boxes.
buttons
Click the … buttons next to the text fields, to open a
standard Window dialog box, where a different path
for the generated files can be selected.
9. Miscellaneous Icon
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 139
Change default data
path button
Only available in magellan Tracker. Click this button
to change the default data path for saving
workspaces, methods, sample ID lists and standard
curves files. magellan Administrator and System
Administrator rights are necessary to modify default
data paths.
WARNING
THE SOFTWARE MAY NOT BE ABLE TO ASSIGN THE CORRECT
FILE SYSTEM RIGHTS FOR A USER-DEFINED DEFAULT DATA
PATH! THIS MUST BE DONE MANUALLY BY THE SYSTEM
ADMINISTRATOR. DELETING OR MODIFYING FILES IN THE
DEFAULT DIRECTORIES MUST NOT BE ALLOWED.
Note
In magellan Tracker, only the Export and the Bitmap paths can be
modified.
9.3.2 Copy/Export Options
In a workspace document the Edit – Copy and Edit – Copy to Excel commands
allow the user to export measurement data to the clipboard or directly into an
Excel worksheet. In the Copy tab is specified in which way the content of a plate
is handled in case of a data transfer.
The Copy tab contains the following elements:
9. Miscellaneous Icon
140 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Matrix format
group box
The user also has the following opportunities to define
how he would like the data to be displayed.
• Rows in horizontal order option button
Rows of data from the microplate will be copied in
horizontal order.
• Rows in vertical order option button
Rows of data from the microplate will be copied in
vertical order. This results in a transposed matrix.
• If the Add row/column labels check box is selected,
the row and column information like in XFluor is added
when copying data.
Copy to clipboard
options
group box
A format for the decimal point of numbers must be
selected for the transferred data:
• Point (x.xxx) option button
Example: 7.893
• Comma (x,xxx) option button
Example: 7,893
Copy to Excel
options
group box
The option buttons enable to define where to position the
transferred data within Excel.
• New workbook option button
Transferred data will be stored in the first worksheet of
a new workbook. A new file will always be created, no
matter if Excel is started or not.
• New worksheet option button
Transferred data will be put into a new worksheet
within an open, active Excel workbook.
If Excel is not open when selecting this option, it will
be opened and a new workbook will be created, the
requested data is inserted into the first worksheet.
• Insert into worksheet at cell option button and cell
coordinates text field
Transferred data will be placed into the cell indicated
(default is cell A1) of an open, active Excel worksheet.
If Excel is not open when selecting this option, it will
be opened and a new workbook will be created, the
requested data is inserted into the first worksheet.
• Append to current worksheet option button
This option will simply append the data to the current
worksheet.
If Excel is not open when selecting this option, it will
be opened and a new workbook will be created, the
requested data is inserted into the first worksheet.
9.3.3 Plate View Settings
In the Plate View tab, the look of the plate view can be customized. The colors
can be changed for the different regions by selecting the desired color from a
drop-down list. The selection mode for marking wells can also be defined here.
The font size can be adjusted as well.
9. Miscellaneous Icon
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 141
The Plate View tab contains the following elements:
Background
button
The background color of the Pate view window can be
selected.
Plate bottom
button
The frame color of the displayed plate can be selected.
Plate surface
button
The surface color of the displayed plate can be selected.
Font height
drop down list
The font height for the text within the wells can be
selected:
• Small
• Medium
• Large
Light shadow
button
The light-shadow color of the plate frame can be selected.
Dark shadow
button
The dark-shadow color of the plate frame can be selected.
Selection mode
option buttons
Here the selection mode for marking wells with the mouse
is established:
• Union allows selecting wells only when the mouse has
marked the complete area of the well.
• Intersect allows for the selection of wells when only a
part of the well has been marked with the mouse.
9. Miscellaneous Icon
142 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
9.3.4 Miscellaneous
The Miscellaneous tab contains the following elements:
Wizard group box
When selecting the Skip welcome page check box, the
welcome page of the wizard is not displayed when
opening a wizard. The wizard starts at the second of its
windows.
Start at startup
group box
Selecting the Favorites dialog box check box defines that
instead of the Wizard List the Favorite dialog will show up
after the start of the magellan software.
Group box
• Demo mode allowed check box: Select this option in
order to allow connecting to a simulated instrument.
This option is helpful if already measured data shall be
evaluated. Then, no instrument is needed.
• Move plate in after startup check box: If the checkbox
is selected and an instrument is connected, the plate
carrier is moved in automatically after startup.
• Suppress ‘not monotone’ warning check box: Select
this option to suppress the ‘not monotone’ warning.
This option is useful if in a standard curve several
points are taken in a flat area and it is very likely that
monotony is not given (i.e. the flat part of a logarithmic
curve or other curve where a limit is approached).
Note! This option is disabled in magellan Tracker.
9. Miscellaneous Icon
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 143
Set next
counter value
group box
Two options are offered:
• Total counter spin control enables to set the counter
to any value.
Displays the number which will appear in the name of
the next workspace file created.
• Counter with daily reset spin control enables to set
the counter to any value.
Displays the current number of workspace files that
have been created during one day.
Language
group box
The text field displays the applied language. A different
language can be selected from the drop-down list.
See Set below.
Set
button
Select a different language and click the Set button to
restart the program with the selected language
Change password
button
Click this button to open a dialog box, where the user can
change his password (only available with magellan User
Administration activated).
Add HUIDs
button
A list of additional HUIDs can be defined which allows the
user to open files created on another computer (only
available in magellan Tracker).
Automatic
archiving
Select this function and specify a user-defined directory to
copy all workspace, method and sample ID files which are
either automatically or manually saved by the user to a
user-defined archiving directory.
Options and
default settings
audit trail… button
Click this button to show the audit trail for options and
default settings. The audit trail can be saved to an ASCII
file (only available in magellan Tracker).
Click Save as file to save this information as a .log or .txt
file. The text can also be copied to a word processing
program for printing.
9. Miscellaneous Icon
144 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
9.4 User Administration (magellan Tracker)
There are three types of administrators mentioned in this publication:
System Administrator is responsible for any changes made to the computer’s
operating system.
The Administrator is responsible for user rights in the magellan software.
magellan Administrator has access to all features of the magellan software but
cannot change user rights.
magellan offers password protection to prevent misuse of the software and to
restrict access to parts of the software based on user rights.
CAUTION
TO PREVENT THE MISUSE OF USER RIGHTS AND FALSIFICATION OF
DATA, IT IS RECOMMENDED THAT THE USER ADMINISTRATOR DOES
NOT HAVE MAGELLAN RIGHTS (I.E. DOES NOT BELONG TO A
MAGELLAN USER GROUP).
IDEALLY, THE USER ADMINISTRATOR SHOULD BELONG TO THE IT
DEPARTMENT.
Select miscellaneous in the wizard window and click the User
administration icon . The Manage Users and Roles dialog box is
displayed:
Users and roles can be added and modified; user rights can be defined. The
Manage Users and Roles dialog box contains the following elements:
Roles
The Roles list shows all existing user groups (user
levels).
Add Role
A new group with corresponding rights can be created.
Modify Role
Rights of an existing group can be modified
Users
The user list shows all existing users and which group
they are member of.
Add User
A new user can be created.
9. Miscellaneous Icon
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 145
Modify User
Full name, user level (group) or password of an existing
user can be changed.
Lock User
A user account can be enabled / disabled. The button is
visible only if a user name is selected.
Audit Trail
All modifications of the user administration database (e.g.
creation of groups/users, change of rights, change of
options, …) are recorded in the user management audit
trail written by the user management server.
Options
General login, password or email options can be
modified
Summary
A detailed description of all existing users and user
groups as plain text
9.4.1 Add/Modify User (magellan Tracker)
Click Add User in the Manage Users and Roles dialog box and the Create
User dialog box appears:
The Create User dialog box contains the following elements:
User Name
A unique user name has to be entered when a new user is
created. This name cannot be modified afterwards.
Full Name
Enter the full name of the user. This can be changed later.
Password
Enter the initial password. The password must be changed at
the next login.
9. Miscellaneous Icon
146 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Click OK and the Modify User dialog box appears:
The Modify User dialog box contains the following elements:
Full Name
Enter the full name of the user
Roles
Select from one of the existing user groups. The rights
associated with that group are assigned to the user.
Change picture
User’s picture can be added or changed.
Delete picture
Delete the user’s picture.
Change
Password
A new user’s password can be defined. Note that the
administrator needs not to provide the old password.
To modify a user, click Modify User in the Manage Users and Roles dialog box.
In the Modify User dialog box proceed as described above.
9. Miscellaneous Icon
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 147
9.4.2 Add/Modify Role
Click Add Role in the Manage Users and Roles dialog box and the Create New
Role dialog box appears. Define a unique Role Name. Note that this name
cannot be modified afterwards. Close the Add Role dialog box by clicking OK.
Open the Modify Role dialog box:
The Modify Role dialog box contains the following elements:
Role Name
The role name is defined in the Add Role dialog box.
Application
Tecan software component, i.e. Magellan.
Rights
The role represents a specific user level and corresponding user
rights can be selected.
9. Miscellaneous Icon
148 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
9.4.3 User Administration Audit Trail
Click Audit Trail in the Manage Users and Roles dialog box and the Audit
Trail dialog box appears:
All modifications of the user administration database are recorded in the user
management audit trail written by the user management server.
To view a log file select it from the list (select checkbox) and click the Print
button. The file is opened via pdf viewer and can then be printed. The green
hook marks files with a correct checksum, the red cross marks files with an
incorrect checksum.
Note
Please note that the current log file always has a red cross because the
file is still being altered as long as the software is open.
User Rights
There are three different security levels of user rights, the highest level of which
is Magellan Administrator, who has access to all program functions. The
Application Specialist and Operator levels are increasingly limited.
magellan Standard: The default rights are assigned as stated below.
magellan Tracker: Each right can be assigned or withdrawn by an Administrator
and by default are assigned as stated below. The default set of rights is based
on a typical laboratory environment.
CAUTION
ADMINISTRATORS HAVE THE RESPONSIBILITY TO MAKE SURE THAT
THE SETTINGS (AND ANY MODIFICATIONS) MATCH THE LABORATORY
ENVIRONMENT DEFINED BY THE USER SOPS (STANDARD OPERATING
PROCEDURES) AND COMPLY WITH APPLICABLE LAWS.
9. Miscellaneous Icon
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 149
Note
For clinical diagnostic applications, the operating authority must
validate all methods to ensure the safety of the results. A method is
considered validated when signed by the operating authority. The
operating authority is fully responsible for any results obtained.
9.4.4 User Administration Options
Click Options in the Manage Users and Roles dialog box and the Edit Options
dialog box appears.
Login Options
Lock
application
Lock of application after a specified time (1 min – 36500 h). To
unlock the application the user has to reenter the password.
Unsuccessful
logins
After a number of consecutive unsuccessful logins (1 – 100),
the user account is locked and optionally an alert email is sent
to the system administrator.
If the user account of a user administrator has been locked due
to unsuccessful logins, this account remains locked for an idle
time of 45 minutes. After this waiting time the account is
unlocked and can be used again.
CAUTION
IF THE USER ADMINISTRATOR PASSWORD IS FORGOTTEN, USER
ADMINISTRATION SETTINGS CANNOT BE CHANGED. IN THAT CASE
PLEASE UNINSTALL MAGELLAN FIRST AND PERFORM A NEW
INSTALLATION AFTERWARDS (SEE CHAPTER 1.5 SOFTWARE
INSTALLATION PROCEDURE).
Note
When uninstalling magellan, NO existing magellan files will get lost. All
previous files can be found in a backup folder generated during the new
installation procedure.
9. Miscellaneous Icon
150 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Password Options
Passwords have to contain a specific minimum number of characters.
Passwords can be defined to contain non-alphanumeric characters and/or
numeric digits. Password cannot be reused.
Minimum password length:
Specify the required number of characters.
Minimum required number of non-alphanumeric characters:
Specify the required number of non-alphanumeric characters.
Minimum required number of numeric digits:
Specify the required number of numeric digits.
Minimum number of password changes before re-use:
Specify the number of password changes.
Password expires after the specified number if of days:
User passwords expire after a configurable number of days. The user must then
choose another password. Specify the required number of days (range: 1 to
36500 days).
Allow empty password:
Select this checkbox if it is allowed to have an empty password for a user except
for the administrator.
9. Miscellaneous Icon
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 151
Email Options
An
administrator can be notified in case of potential security attacks (a user account
has been locked because a number of unsuccessful logins).
An email can be sent to the entered email address:
• SMTP server: the IP address of the SMTP server has to be entered (f.e.
SEUATEXCH01.eu.tecan.net)
Click Test Mail to send a test mail to verify that the settings are correct.
Note
The notification via e-mail requires an SMTP server without
authentication.
9.4.5 User Administration Summary
A detailed description of all existing users and user groups as plain text can be
obtained by clicking Summary in the Manage Users and Roles dialog box.
The text can be copied to a word processing program for printing.
9. Miscellaneous Icon
152 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
9.5 User Administration (magellan Standard)
The magellan software offers protection against misuse of the software or
access to the software from unauthorized users by providing a password
protection facility.
User profiles can be defined at three different security levels. The highest level of
security within the software is that of the magellan Administrator. This level
gives access to all of the program’s functions and data editing facilities. For
Application Specialist and Operator level, options are increasingly restricted.
Only the User Administrator has the ability to enable or disable the software’s
password protection, define new users or delete old users. If the users are
logged in under their user name, the system will only give access to options
according to their user rights definition.
The User administration dialog box contains the following elements:
Login
button
The Login dialog box is displayed. A user can log in with
his user name.
User list
• All currently setup users with their User name and
Rights are displayed within this list.
Any user to be edited or deleted can be selected here.
Add User
button
The Add User button opens the User Rights dialog box,
in which a password, name, and user ID can be entered
to define a new user.
Modify
button
The Modify button opens the User Rights dialog box for
modifying the selected user in the user list.
Disable
button
The Disable button will disable the selected user in the
current user list.
Password
protection (on/off)
check box
This check box enables to switch on/off the software’s
password protection facility. If enabled, the Login dialog
box will be displayed upon starting magellan.
9. Miscellaneous Icon
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 153
9.5.1 Add/Modify User (magellan Standard)
This dialog allows adding or editing of users and assigning them to a User group.
For the rights of different user groups see chapter 9.6 User Rights .
The User Rights dialog box contains the following elements:
User name
text field
Enter the full name of the user – as it shall be displayed
UserID
text field
Define the user ID that the user has to enter for login
User rights
option buttons
Define the level of access to the software’s facilities
available for the user:
• Operator
• Application Specialist
• Administrator
Password
text field
Define the user password (at least 5 characters)
Confirm password
text field
Re-enter the password. For security concerns, in this field,
the password characters are displayed as symbol.
Click the OK button to save and close the dialog box.
Click the Cancel button to close the dialog box without saving the entered
settings.
Note
If no users have been defined at all and the user administration shall be
used, an administrator has to be defined first. Therefore, upon clicking
the Login button, a short message is displayed. After that, the User
Rights dialog box is displayed for entering the user information of the
administrator (see chapter 2.3 Starting magellan/ Login).
9.5.2 Login
This button is only enabled if user administration is activated but Password
protection was not selected. Therefore, at startup the Login dialog was not
displayed. In order to activate the password protected user administration, click
the Login button.
9.5.3 Change User
To change the active user, click the Change user icon in the wizard
window. The Login dialog box is displayed.
9. Miscellaneous Icon
154 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
9.6 User Rights
There are three different security levels of user rights, the highest level of which
is Administrator, who has access to all program functions. The
Application Specialist and Operator levels are increasingly limited.
magellan Standard: The default rights are assigned as stated below.
magellan Tracker: Each right can be assigned or withdrawn by a
User Administrator and by default are assigned as stated below. The default set
of rights is based on a typical laboratory environment.
CAUTION
USER ADMINISTRATORS HAVE THE RESPONSIBILITY TO MAKE SURE
THAT THE SETTINGS (AND ANY MODIFICATIONS) MATCH THE
LABORATORY ENVIRONMENT DEFINED BY THE USER SOPS
(STANDARD OPERATING PROCEDURES) AND COMPLY WITH
APPLICABLE LAWS.
Note
For clinical diagnostic applications, the operating authority must
validate all methods to ensure the safety of the results. A method is
considered validated when signed by the operating authority. The
operating authority is fully responsible for any results obtained.
The user rights are summarized in the table below and valid for both magellan
versions, i.e. magellan Tracker and magellan Standard, unless otherwise
stated:
User Rights
magellan
Administrator
magellan
Application
Specialist
magellan
Operator
Sample ID List
Create sample ID lists
Create a new sample ID list or save an
existing one with a new name.
Yes
Yes
Yes
Edit sample ID lists
Edit an existing sample ID list and save it with
the same name.
Yes
Yes
No
Sign sample ID lists*
Sign an existing sample ID list for
review/approval.
Reserved for future use.
Modify signed sample ID lists*
Edit or change sample IDs in a signed sample
ID list.
Reserved for future use.
Method
Create methods
Create a new method or save an existing one
with a new name.
Yes
Yes
No
9. Miscellaneous Icon
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 155
User Rights
magellan
Administrator
magellan
Application
Specialist
magellan
Operator
Edit methods
Edit an existing method and save it with the
same name.
Yes
Yes
No
Sign methods*
Sign an existing method for review/approval.
Note: The right Sign methods alone is not
enough to sign method files. You also need
the right Edit methods.
Additionally, the Modify signed methods
right is also needed to add the Approval
signature to files that already have a Review
signature.
Yes
No
No
Modify signed methods*
Edit a signed method and save it with the
same name.
Yes
No
No
Run unsigned methods*
With this right alone only approved methods
can be used.
Note: This right can be used in combination
with the right Run not approved methods to
allow the user to run all methods.
Yes
Yes
No
Setup favorites
Add/Remove methods from the favorite list.
Yes
No
No
Define multilabel measurement
Define methods using multilabel
measurements.
Yes
Yes
No
Define kinetic transformations
Define methods using kinetic transformations.
Yes
Yes
No
Define concentration transformations
Define methods using concentration
transformations.
Yes
Yes
No
Define alias
Define methods using aliases for identifiers.
Yes
Yes
No
Workspace
Create workspaces
Perform a measurement and save the
workspace with a new name – or – save an
existing workspace with a new name.
Yes
Yes
Yes
Edit workspaces
Edit an existing workspace and save it with
the same name.
Yes
Yes
No
9. Miscellaneous Icon
156 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
User Rights
magellan
Administrator
magellan
Application
Specialist
magellan
Operator
Sign workspaces*
Sign an existing workspace for
review/approval.
Note: The right Sign workspaces alone is not
enough to sign workspace files. You also
need the right Edit workspaces.
Additionally, the Edit signed workspaces
right is also needed to add the Approval
signature to files that already have a Review
signature.
Yes
No
No
Edit signed workspaces*
Edit a signed workspace and save it with the
same name.
Yes
No
No
Continue evaluation when error
Continue calculation after errors have
occurred
Yes
Yes
No
1
/Yes
2
Modify raw data (samples)
Edit or mask measurement data of samples.
Yes
No
No
Modify raw data (standards)
Edit or mask measurement data of standards,
controls, blanks.
Yes
No
No
Import raw data
Import raw data from ASCII file in an existing
workspace.
Yes
No
No
Modify evaluation
Change evaluation (method) settings in an
existing workspace.
Yes
Yes
No
Reevaluate with another method
Reevaluate an existing workspace with
another method.
Yes
Yes
No
Modify layout
Change measurement parameters,
concentration, and layout before starting a
measurement.
Yes
Yes
No
Standard curve
Create standard curve files
Create a new standard curve and save it with
a new name.
Yes
Yes
No
Edit standard curve files
Edit an existing standard curve and save it
with the same name
Yes
Yes
No
Sign standard curve files*
Sign an existing standard curve for
review/approval.
Reserved for future use.
9. Miscellaneous Icon
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 157
User Rights
magellan
Administrator
magellan
Application
Specialist
magellan
Operator
Modify signed standard curve files*
Edit and change settings in a signed standard
curve file.
Reserved for future use.
General
Archive files
Move files to an archive location
Yes
No
No
Set default paths**
Set individual paths for saving workspace,
method, sample ID list, export and bitmap
files.
Yes
Yes
Yes
Define filter slides
Change the filter definition of the instrument
Yes
No
No
Modify general options
Select language, suppress not monotone
warning, allow demo mode.
Yes
No
No
Print unsigned workspaces*
The results of an unsigned workspace can be
printed.
Yes
Yes
Yes
Run not approved methods*
This right alone allows the user to run already
reviewed, but still not approved methods and
approved methods.
Note: This right can be used in combination
with the right Run unsigned methods to
allow the user to run all methods.
Yes
Yes
No
Edit reviewed method*
Reviewed (but not approved) methods can be
edited.
Yes
No
No
Edit reviewed workspace*
Reviewed (but not approved) workspaces can
be edited.
Yes
No
No
Reader Server
Save plate definition files
Create or edit plate definition files.
Yes
No
1
/Yes
2
No
Save spin profile
Create or edit spin profile files.
Yes
No
No
* user rights available in magellan Tracker only
** user rights available in magellan Standard only
1
magellan Tracker
2
magellan Standard
9. Miscellaneous Icon
158 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
9.7 About magellan
Select About magellan to display the copyright information and software
disclaimer:
In the About magellan dialog box, information about the currently installed
version of the magellan software, the version numbers of the components (tab
components), UDI information and the program license of the user are
displayed (tab license).
Register Wizard
For further details on the Register magellan Wizard see chapter
2.4.4 Registration Wizard.
10. Additional Features for magellan Tracker
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 159
10. Additional Features for magellan
Tracker
10.1 User Administration
In magellan Tracker a user administration is obligatory. Refer to chapter
9.4 User Administration (magellan Tracker) for further details.
10.1.1 Audit Trail
To become compliant with the FDA Regulation 21 CFR part 11 every step done
in magellan Tracker is documented. In the Audit Trail all modifications
concerning the following data are listed:
• a method file
• a workspace file
• a Sample ID list
• a standard curve file
• the user administration database or
• options and default settings.
Each entry consists of the user (name and full name), date and time of change,
whether the file was created or modified, and any audit trail comments.
Audit Trail of Methods, Workspaces, Sample ID lists
You can view the Audit trail using the Audit trail button at the save page of the
wizards.
Audit Trail of a Standard Curve
Standard curves can be saved and afterwards be used for evaluation of data
from another workspace. For the feature to load a standard curve from external
file refer to chapter 4.3.8 Concentrations: Standard Curve of the Create/Edit a
Method Wizard. For opening a previously saved standard curve in the standard
curve graph refer to chapter 7.4.11 Control Bar: Concentrations.
To view the audit trail of the loaded standard curve, select Audit trail from the
View menu in Standard Curve Graph dialog box.
Audit Trail of the User Administration Database
To view the Audit trail of the User Administration Database, select
Miscellaneous icon in the Wizard List starting page and click User
Administration.
Audit Trail of Options and Default Settings
To view the Audit trail of all options and default settings select miscellaneous
icon in the Wizard List starting page and click Options. In the Miscellaneous
tab the Audit trail button can then be selected.
10. Additional Features for magellan Tracker
160 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
10.2 File Handling
The measured data is always saved directly after the measurement.
Note for magellan Tracker only:
In order to guarantee that no manipulation (deleting) of data is possible
magellan users should not be Windows administrators.
10.2.1 Saving a File
A file, created and saved in magellan Tracker, is indicated with a “#” sign in its
file name. The added “#” sign can only be seen in the appropriate subdirectory of
magellan.
Example
method#1.mth
workspace#1.wsp
sampleIDlist#1.smp
10.2.2 Changing a Method or Workspace File
Every time a method or workspace file is modified and saved, the number behind
the “#” in the file name is automatically increased (e.g.: first version of a
workspace: name#1.wsp; edit and save the new version to get name#2.wsp;
After the next change name#3.wsp is created…). All versions of a file are listed
in the appropriated subdirectories of magellan.
Note
When transferring Tracker files, it is necessary to transfer all versions of
the file.
10.2.3 Opening a File
Only the last saved version of a file is available in the wizards of create/edit a
method, create/edit a sample ID list, evaluate results and start measurement.
To view a previous version of a file, open the Audit trail in the saving page of
the file, select the preferred version of the file by clicking once on the number
and click Save previous version as… button. Rename the file and add some
file remarks or Audit trail comments and open the file with the Create/Edit a
Method wizard.
Note
If you want to compare a method with its previous versions a printout
must be made, because two print preview windows cannot be opened
simultaneously.
10.2.4 Opening a File Created on Another PC – Add HUIDs
In the licensing process of magellan, three numbers are involved:
• Serial number of the software
• HUID (Hardware Unit Identification Number) and
• License number (refer to chapter 2.4.3 Licensing magellan).
The HUID of a Personal Computer is configured during magellan registration
and all files created and saved on this PC are linked to this special HUID.
10. Additional Features for magellan Tracker
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 161
If there is the need to work with magellan Tracker files, which were created on
another PC, the HUID of this other PC must be accepted.
When a user with the right to Modify general options tries to open a document
(sample ID list, method, workspace) from another PC, i.e. with a different HUID
number, the user is automatically asked to add that number to the list of known
HUID numbers. If the button Accept HUID is clicked, the HUID number will be
added to the list and the document will be opened without further interactions.
Hence this HUID number is always accepted.
To view the list of accepted HUID numbers of other PCs click Miscellaneous
icon in the wizard list starting page → Options → Miscellaneous tab. Click the
Add HUID button and the dialog box with the other PCs HUID numbers is
displayed.
10.3 System Audit Trail
The system audit trail is only available in the magellan Tracker version. The
system audit trail function writes several magellan events into a log file (see
table below). A new log file is created once per week and is stored under
Windows 10: C:\Users\Public\Documents\Tecan\LogFiles\SystemAuditTrail
A checksum, computed over the entire log file, is used to guarantee log file
consistency and to protect the files against intentional and accidental changes.
Log file consistency is always checked at start up. Invalid files will be
immediately closed, marked as invalid by appending “.invalid” to the log file’s
name, and a new one will be created in its place.
Old or invalid logfiles are moved to the Archive folder, where they are protected
against deletion.
Magellan Events to be Tracked
Event
Event Type
Description
Magellan Start
StartUp
Magellan was started.
Magellan Exit
Exit
Magellan was closed.
Successful User
LogOn
Login
A user logged in successfully.
Failed User LogOn
FailedLogin
Login failed, due to wrong username
or password.
User LogOff
Logout
A user logged out.
New Workspace
New
A new workspace was created.
Load Workspace
Load
An existing workspace file was
loaded into Magellan.
Save Workspace
Save
A workspace was saved.
10. Additional Features for magellan Tracker
162 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Event
Event Type
Description
New Method
New
A new method was created.
Load Method
Load
An existing method file was loaded
into Magellan.
Save Method
Save
A method was saved.
New Sample ID List
New
A new sample ID list was created.
Load Sample ID List
Load
An existing sample ID list was
loaded.
Save Sample ID List
Save
A sample ID list was saved.
Start Measurement
Measure
A new measurement was started.
Attach Signature
Signature
A workspace or method file was
signed.
Export Results
ExportASCII
ExportExcel
ExportASTM
ExportSampleTra
cking
Results were exported.
Prints Results
Print
Results were printed.
Automatic Archive
ArchiveFailed
The archiving of a workspace,
method or sample ID list file failed.
CRC Failure
CRCFailed
Checksum of the previous log file
was invalid.
11. Calculations
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 163
11. Calculations
11.1 Evaluate Results – Calculation Procedure
Depending on the settings the calculation follows the procedure below:
1. Precalculation
1.1 Spectra calculation
2. Check if data and evaluation settings fit together
3. Raw data statistic calculation
4. Transformation calculation
5. Kinetic parameter calculation
6. Kinetic transformation calculation
7. Concentration calculation
8. Concentration transformation calculation
9. Cutoff range determination
10. QC Validation
11. Statistic calculation
The procedure is repeated if
• QC Validation eliminated values using the eliminate functions.
• Interpolation parameters in the transformations are required.
Equal values for transformations in kinetic and multilabel measurements will be
suppressed.
For calculations with different dilutions the Mean concentrations will be discarded.
In case the evaluation procedure is aborted through errors, results calculated
until that point can be displayed.
In case some values are found to be FALSE, the following Occurred Errors
dialog box will appear:
Message text field
The error message and a short explanation is displayed in
a text field.
Save as file button
Click the Save as file button and the error protocol can be
stored in an ASCII file.
In case the curve fit failed, depending on the user right, a question is displayed,
where the user can decide to change the Analysis Type settings. After changes
the evaluation procedure will be started from beginning.
In case the validation failed, depending on the user right, an error message box
is displayed or a question message box is displayed, where the user can decide
to continue the calculation anyway. If the calculation is aborted, cutoff results
cannot be accessed. However, on a printout a validation failed message will be
included.
11. Calculations
164 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
In case values or settings have been changed, a message box will appear.
Message
The instrument values have been changed. Do you want to
re-start the result calculation?
Yes button
Click the Yes button to re-calculate the evaluation values.
No button
Click the No button to close the message. No re-
calculation will be performed.
11.1.1 Statistics
If a statistical value is calculated over e.g. the n replicates with values
n
xx ...
1
of
a sample following formulas are used:
Name
Formula
mean value,
average value
=
=
n
i
i
x
n
x
1
1
standard deviation
=
−
−
=
n
i
i
xx
n
s
1
2
)(
1
1
and s=0 for n=1
variation coefficient
in percent
x
s
v 100=
For more information refer to chapter 11.3.5 Statistical Functions.
11.2 Spectra Data Reduction
Spectra data contains much more information than single wavelength
measurements. Typical information extracted from spectra are intensities at
specified wavelengths or at found peaks. During calculation it is also possible to
calculate spectral blank reduction and ratio calculation.
11.2.1 Mathematical Description
Blank reduction is performed by subtracting the blank spectrum from the
sample spectrum.
Smoothing is done with the Savitzky-Golay algorithm. The filter coefficients are
calculated by a polynomial with degree 2. The smooth factor is treated as
number of points:
−=
+
=
R
L
n
nn
nini
fcg
where n
R
-n
L
+1=number of points
The smoothing window is symmetrical, e.g. for a smooth factor of 5, n
L
=-2, n
R
=2.
For the lower and upper border of the spectrum, the window is asymmetrical,
thus n
L
=0, n
R
=4 or n
L
=-4, n
R
=0 respectively.
Before smoothing, all overflow values are removed from the spectrum.
Wavelength pick
• Pick wavelength – Retrieves the intensity of the selected wavelength
• Calculate ratio – Calculates the ratio by dividing the intensities at the
selected wavelengths
11. Calculations
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 165
• Area – Calculates the are under the spectrum within the selected wavelength
range
• Custom – Reduces the spectrum using a user defined formula
Normalize
Reduces the spectrum into a range from 0 to 1.
Peak find
The spectrum is differentiated, and all null points of the result are treated as
potential peaks. The corresponding peaks are sorted by value and all invalid
peaks are removed (e.g. overflows, local minima, values below the defined
threshold). The highest value of the remaining items is selected as peak.
In practice this is often the maximum value of the spectrum.
Custom formulas
Ability to define various data reductions for the spectra (refer to chapter
11.3.8 Spectra Functions).
WARNING
SINGLE OUTLIERS CAUSED BY NOISE WILL ALSO BE DETECTED AS
PEAK! THEREFORE, IT IS HIGHLY RECOMMENDED TO SMOOTH THE
SPECTRUM BEFORE USING PEAK FIND!
11.3 How to Write a Formula
11.3.1 Introduction
A variety of formulas are necessary for the calculations, the cutoff requirements
and the validation. These formulas resemble the syntax of BASIC commands.
All values are calculated in double precision although they are displayed
depending on the desired number format.
11.3.2 Formula Variables
All of the previously defined abbreviations for the identifiers contained within the
analysis plate can be employed as variables in calculations.
For example:
PC1, SM1_1, BL1…Average values
PC1_1, SM1_1_1, BL1_1…Individual values, individual replicates
Note
The program differentiates between lower- and upper-case letters when
dealing with these labels.
It is also possible to work with the well coordinates.
For example: A2, B3, H12
Note
Well coordinates must always be written using upper case letters.
11. Calculations
166 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Note
The symbol x refers to the current value within a well. For example: x-
BL1…subtracts the empty value (blank) from the current value.
Note
The different cycles for kinetic measurements can be accessed by
indices [ ], where “0” indicates the first cycle.
For example:
SM1_1[0]… Average value of sample 1 of the first cycle
x[1]… value of current well of the second cycle
x[i] … value of the current well and the current cycle
Serial Kinetic Subtraction – Calculation of Difference between Kinetic Cycles
Calculations over kinetic data can be defined by using the iteration variable ‘i’ in
formulas. For instance, a numerical derivative of a kinetic curve can be
performed using the formula x[i]-x[i-1], which subtracts each kinetic cycle by the
previous. But use of that formula would automatically lead to an error for cycle
number 1. Therefore, set the formula if(i>0) then(x[i]-x[i-1]) else ignore() in the
transformation edit field to prevent the subtraction of the first cycle.
The use of constants in formulas is identical to all other variables, the only
difference being that a constant can contain characters (f.e. alpha, dilution).
There are two predefined accessors.
concX …
returns the concentration of the standard of the current well
dilX …
returns the dilution of the sample or control of the current well
Note
If more than one set of input data shall be used for calculations, select
the appropriate data from the available data drop down list, activated in
transformation edit fields of the Create/edit a method tab (refer to chapter
4.3.5 Transformed Data: Add New Transformation and chapter
7.4.9 Control Bar: Transformed Data).
Note
Using one of the mathematical functions described in the following
chapters, an “intellisense” help is activated to support correct writing of
special formulas.
Formula Operators
Operator
Description
+
Plus
-
Minus
*
Multiplication
/
Division
11. Calculations
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 167
Operator
Description
^
To the power of the exponent
The symbol used to represent the expression “to the power of” is
´^´. This character can be obtained by pressing the SHIFT key
together with the number 6 key (but not on the numerical keypad.)
Example: x^3
The value of the well will be increased to the power of three.
<
Less than
<=
Less than or equal to
>
Greater than
>=
Greater than or equal to
==
Equals
!=
Is not equal to
=
Assigned to
Note
The difference between equals (==) and assign to (=).
For example: If (x == 0.000), then x = 1.000 (If the current value of x is
equal to 0 then set the value of x to 1)
11.3.3 Formula Functions
The expressions “and” and “or” can be incorporated into the same equation
using logic functions. The result from a logical equation will be either TRUE or
FALSE and is therefore a Boolean value. The individual equations must be
enclosed in brackets.
Logical Expressions
and
In equations of this nature, the result will be TRUE if both expressions are found
to apply, otherwise a result of FALSE will be given. Example:
Where the value held by the well is 0.3
(x>0.0) and (x<1) = TRUE
(x>0.0) and (x<0.1) = FALSE
or
In equations of this nature, at least one of the expressions involved must be
found to apply in order that a result of TRUE can be given.
Example: where the value held by the well is 0.3
(x>0.0) or (x<0.1) = TRUE
(x>0.4) or (x<0.1) = FALSE
if(…) then(…) else(…)
The following expressions are used in the program and, as an example, can be
written in the following manner:
if (statement) then Term A else Term B
The statement:
11. Calculations
168 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
The statement must be either true or false and written in brackets. If the
statement is arrived at by means of logical operators (and/or), then the whole
expression must be written here and enclosed in brackets.
Terms A and B:
If the statement is true, Term A will apply and if the statement is false Term B will
apply.
It is not always necessary to include the else expression. If it is not present in the
equation, no response will be given in the event of a false result.
The “if(…) then(…) else(…)” expression can also be used with Boolean terms for
QC Validation.
Example:
Check whether the value of a well lies within a defined range. If the result is
yes, the well will be represented by the value 0.0, if the result is no, the value
1 will be used.
if (( x>-0.005) and (x<0.0)) then(0.0) else(1.0)
11.3.4 Basic Functions
abs(argument)
This function gives the absolute sum of the argument.
Therefore (-1*x) where x<0 and (x) where x>=0.
Example:
abs(-1) = 1
abs(1) = 1
exp(argument)
This function raises the Euler (e) value to the power of the argument.
Example: exp(1) = e
1
= 2.718
frac(argument)
This function separates out the fraction section of argument.
frac(): delivers the fraction section of a decimal value.
Example: frac(1.7) = 0.7
int(argument)
This function separates out the integer sections of argument.
int(): delivers the integer section of a decimal value.
Example: int (1.7) = 1
Log(argument)
log(arg1;arg2)
This function takes the logarithm of arg2 to the base of arg1.
Example:
The well holds a value of 100.
log(x;10)
The result here will be 0.5.
In(argument)
This function takes the natural logarithm of argument.
Example: ln(10) = 2,303
lg(argument)
This function takes the logarithm to base 10 of argument.
11. Calculations
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 169
Example: lg(10) = 1
round(argument)
This function rounds argument to an integer value.
Example:
To round 12.579 to two decimal places use the following formula:
round(12.579*100)/100
The result is 12.58.
sqr(argument)
This function raises argument to the power of 2
Example: sqr(3) = 9
sqrt(argument)
This function takes the square root of argument
Example: sqrt(9) = 3
11.3.5 Statistical Functions
Note
Use single and not average or mean data as input data for
transformations with statistical functions.
avg(argument) and mean(argument)
This function calculates the average value of argument. The argument must be
an identifier.
Example:
avg(SM1)
The average of all the samples in the first experimental group will be formed.
Furthermore, the replicates of a value can be averaged:
avg(ST1_1)
Averages all replicates of the first standard.
median(argument)
This function determines the median of argument. The argument must be an
identifier. The individual replicates are ordered in terms of size and the median
determined by taking the middle value in the order. If the number of values is an
even number, the average of the two middle values will be determined.
Example:
Median (NC1)
Assume NC1_1=0.1, NC1_2=0.05, NC1_3=0.04
The median value of these negative controls will be determined as follows.
The order of the values gives:
0.04 0.05 0.1
The median is therefore 0.05.
medianPlate()
The median of the whole plate can be determined using this function. The
individual values are ordered in terms of size and the median determined by
taking the middle value in the order. If the number of values is an even number,
the average of the two middle values will be determined.
11. Calculations
170 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Example:
medianPlate()
Assume BL1=1, NC1=2, PC1=3, SM1_1=4, SM1_2=5 and no other wells defined.
The median of the whole plate is 3.
max(argument) and min(argument)
This function calculates the minimum/maximum of argument. The argument must
be an identifier.
Example:
max(SM1)
The maximum of all the samples in the first experimental group will be formed.
min(ST1_1)
Determines the minimum of the individual replicates of the first standard.
maxAvg(argument) and minAvg(argument)
This function gives the maximum/minimum average value of argument. The
argument must be an identifier.
Example:
minAvg(SM1)
If a number of results are found for SM1, only the minimum average will be given.
PointwiseCV(argument)
The average point wise coefficient of variation (CV) is determined. The result can
be used to validate the standard curve. The argument must be an identifier.
Example:
PointwiseCV(ST1)
Assume
ST1_1_1=0.54 ST1_1_2=0.52 cv=2.668
ST1_2_1=0.72 ST1_2_2=0.77 cv=4.746
ST1_3_1=1.08 ST1_3_2=0.99 cv=6.148
The result of pointwiseCV is the average of the CV of ST1_1, ST1_2 and ST1_3
and is 4.5209.
Sum(argument)
This function calculates the sum of argument.
Example:
sum(SM1)
The sum of all the samples in the first experimental group will be formed.
sum(ST1_1)
Determines the sum of the replicates of the first standard.
stddev(argument)
This function calculates the standard deviation of argument. The argument must
be an identifier.
Example:
stddev(NC1)
The standard deviation of the negative control in the first experimental group will
be formed.
11. Calculations
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 171
11.3.6 Elimination Functions
The elimination functions will be employed in the validation. In this way the user
can make sure that the measurement values lie within a valid interval and delete
any rogue values.
Three differing elimination functions can be employed when defining the validity
intervals. The identifier that is to be influenced by the function is always the first
parameter required when defining the elimination criteria.
All three elimination functions produce a logical result. TRUE is given when there
are enough valid measurement values available and FALSE is given when less
than the requirement are valid.
Invalid measurement values will be labeled with an exclamation mark.
eliminate (arg1; arg2; arg3; arg4)
The validation interval will be defined using a defined value.
This function eliminates values that lie outside of the validation range defined in
arg2.
arg1: Identifier name (NC1,PC1).
arg2: Value used to represent the range, dependent upon arg4.
arg3: Number of valid, individual values that must be available in order that
an average can be generated. If too few values are available following the
elimination, a result of FALSE will be given.
Note
For arg3:
a value of “2” or higher has to be defined. “1” is not accepted.
arg4: Represents the selection of whether testing will use the range
average-arg2 to average+arg2 (argument of 1) or it will be checked whether
the individual values lie below average+arg2 (argument of 0). In this case
(argument of 0) there is no lower limit.
The elimination function here determines the average of arg1. The value with the
highest absolute deviation to the average value is then checked to ensure that it
lies within the range according to arg4. Is the value lying outside of this range it
will be viewed as being invalid. In this case the average calculation will begin
again, excluding the previously discovered invalid value, and continue in this
manner until no more rogue values can be found.
A result of TRUE will be delivered when enough valid individual values are
available.
Example:
eliminate(NC1;0.15;2;0)
The average value will be generated for the negative controls. It will then be
seen whether the individual negative controls lie above NC1+0.15. (There is no
lower limit). If this is the case, the rogue value(s) will be eliminated as described
above. If on completion, at least 2 individual values are valid, a result of TRUE
will be returned; otherwise a result of FALSE will be given.
eliminatePerc (arg1; arg2; arg3; arg4)
The validation interval will be defined using a percentage of the average value.
This function eliminates values as described for function eliminate. The validation
range is defined using a percentage (arg2) of the identifier.
Example:
eliminatePerc(NC1;10;2;1)
11. Calculations
172 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Individual values will be invalid if they deviate to an extent of more than 10%
below or above the average. On completion, a minimum of 2 individual values
must be valid in order that the negative controls are declared as being valid.
eliminateRange (arg1; arg2; arg3; arg4)
This function eliminates values that lie outside of the validation range defined by
arguments 2 and 3.
arg1: Identifier name (NC1,PC1)
arg2: Lower limit of the selected range
arg3: Upper limit of the selected range
arg4: The number of valid, individual values that must be to proceed. If too
few values are available following the elimination, a result of FALSE will be
given.
A result of TRUE will be delivered when enough valid individual values are
available.
Example:
eliminateRange(NC1; 0.0 ; 0.1 ; 2)
The individual values for the negative controls must fall within the range of 0.0
and 0.1 in order to be valid. To achieve a result of TRUE, at least 2 of the values
must be viewed as being valid.
eliminateCV (arg1; arg2; arg3)
This function eliminates replicates until the CV of the remaining replicates is
lower than the given CV (arg2). The replicates are eliminated step by step,
beginning with the value with the highest difference to the mean value.
arg1: Identifier name
arg2: Limit of accepted CV value
arg3: The number of valid, individual values that have to be left to deliver a
positive result. If too few values are available following the elimination, a
result of FALSE will be given.
A result of TRUE will be delivered when enough valid individual values are
available.
Example:
eliminateCV(NC1; 15; 3)
The calculated CV of the individual values of the negative control shall be below
15%. After the elimination, at least 3 replicates must be left to get TRUE as result.
countDeleted(arg1; arg2)
This function checks if there are enough valid values available and returns TRUE
or FALSE.
arg1: The identifier, whose quantity is to be checked.
arg2: The lowest number of replicates that must be available.
Example:
countDeleted(NC1; 2)
This function works in conjunction with the Eliminate functions in equations:
The Validation contains the following line:
if (NC1>0.5) then eliminateRange(NC1; 0; 0.5; 2)
If the average of the negative control lies above 0.5, then all replicates that lie
outside of the range should be omitted.
This elimination will be processed once. If values for elimination are found, a new
calculation will follow making sure that the average lies under 0.5 and a result of
TRUE will be given.
11. Calculations
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 173
At this point it is not yet certain that the necessary number of replicates is
available. This is then determined using the countDeleted function within an else
statement:
if (NC1>0.5) then eliminateRange(NC1; 0; 0.5; 2) else countDeleted(NC1; 2)
The equation process (of the second run following the elimination) uses the else
statement. The countDeleted function then checks, whether the given identifier in
arg1 is available in the quantity specified in arg2. If this is the case a result of
TRUE will be given, if not FALSE.
Step by step example eliminate respectively eliminatePerc
The only difference between eliminate and eliminatePerc is the way for
calculating the limits for the valid range (see above). The calculation sequence is
the same for both functions. For the step by step description, eliminate is used.
eliminate(NC1;0.15;2;0)
Individual values:
NC1_1 = 0.217
288.01=NC
NC1_2 = 0.439
NC1_3 = 0.208
Step 1: The individual values are sorted by their distance to the average.
|11_1| NCNC −
|0.217-0.288|
0.071
→
NC1_2 (0.439)
|12_1| NCNC −
|0.439-0.288|
0.151
NC1_3 (0.208)
|13_1| NCNC −
|0.208-0.288|
0.08
NC1_1 (0.217)
Step 2: Calculation of upper limit: 0.288+0.15 = 0.438
Step 3: first comparison:
0.439 > 0.438 and therefore out of the valid range → Step 4: value of NC1_2 is
eliminated and the average and the limit are recalculated.
Step 4: New avg = (0.217+0.208)/2 = 0.2125
New limit = 0.2125+0.15 = 0.3625
Step 5: second comparison:
0.208 <= 0.3625 → valid
0.217 <= 0.3625 → valid
Result:
The replicate NC1_2 doesn’t fit into the given range and therefore has been
eliminated.
Function returns TRUE because there are still two replicates left.
Note: In each calculation cycle (Step 1 to Step 4), only one replicate is deleted
(the replicate with the highest distance to the average). The cycle is repeated
until no replicate is deleted during the comparison step within the cycle.
11. Calculations
174 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
11.3.7 Other Functions
ignore()
This function omits the values of chosen wells so they will not be incorporated
into the calculations. Ignored values are displayed with a leading ‘!’ and handled
like eliminated values.
Example:
if(x<0.9*SM1_1) then ignore()
isInvalid()
This function gives a Boolean value, whether values within the well are valid or
not. Invalid values for example can be caused by overflow values of the reader.
Example:
if(isInvalid()) then x=3.0
If the well contains an invalid value, the value 3.0 will be assigned. In this way,
further calculations are possible, in spite of such values.
calcAlways(argument)
This function enables to calculate formulas on wells independent of the state of
the value. argument can be any valid formula. The formula will be calculated
even if the value is masked or invalid. This function can be used to calculate
results that do not depend on the value of the used well.
Example:
calcAlways(A)
The value of parameter A of the standard curve formula is returned.
concX
This function can be used in concentration transformations. The result of concX
is the original concentration of the well and can therefore only be used in wells
with standards as identifier.
Example:
x – concX gives the difference between the calculated and the original
concentration of the well.
11.3.8 Spectra Functions
smooth(numPts)
Smoothes with the given number of points.
minimum()
Delivers the minimum as data pair (wavelength, intensity).
maximum()
Delivers the maximum as data pair (wavelength, intensity).
normalize(wl)
Normalizes by using the intensity at the given wavelength.
11. Calculations
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 175
peak(threshold;wlStart;wlEnd;peakIndex:percLimit)
Delivers the peak as data set (intensity, wavelength, width, area). Peaks lower
than the threshold will not be found.
Peak search is done in the given wavelength range.
peakIndex = -1 → returns max. peak
peakIndex = -2 → returns min. peak
peakIndex = 0, 1, 2, … → returns peak at the given index
percLimit is a percentage used for calculating width and area.
numPeaks(threshold;wlStart;wlEnd)
Delivers the number of peaks found in the given wavelength range. Peaks lower
than the threshold will not be found.
derive(degree)
Calculates the derivate of the given degree. Valid degrees are 1 and 2; e.g.
derive(2).
intensity(function)
Delivers the intensity of either a data pair or a peak; e.g. intensity(minimum()).
wavelength(function)
Delivers the wavelength of either a data pair or a peak; e.g.
wavelength(maximum())
width(function)
Delivers the width of a peak; e.g. width(peak0.5;450;650;-1;50)).
area(function)
Delivers the area of a peak; e.g. area(peak0.5;450;650;-1;50)).
11.3.9 Examples
Transformations
Transformations modify the current value of the well. The result must always be
a numerical value.
Blank reduction:
x-BL1
The empty value (blank) will be deducted from the current value of the well.
Blanking of a kinetic run:
x-x[0]
The value of first point of the kinetic is used as blank and will be deduced from
the values of all kinetic cycles.
Note
The index “0” represents the first measurement of a kinetic run.
Ratio:
x/PC1 * 100
Calculates the ratio between a sample and a control in percentages.
DNA/Protein ratio:
‘Label1’!x/’Label2’!x
In order to calculate the DNA/protein ratio, a multilabel measurement must be
defined. The first measurement uses a wavelength of 260 nm, the second
measurement uses a wavelength of 280 nm.
11. Calculations
176 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Conditional result:
If (x<0.0) then 0 else x
If the value of the well is less than 0, it will be represented by 0, otherwise it
remains unchanged.
Cutoff
The cutoff dictates the limits to be applied when evaluating. The result must
always be a numerical value.
Label: POS
Limit: NC1*1.15
Label: ??
Limit: NC1*0.85
Label: -
The result is positive (POS) when the absorbance is more than 15% above the
average of the negative controls and negative (-) when it is more than 15%
below the average. A result is declared as open (??) if it lies between these two
values.
QC Validation
The validation serves to examine the validity of the test. The result must always
be a logical statement, TRUE or FALSE.
(BL1>-0.005) and (BL1<0.120)
If the average value of the empty value falls within the range of -0.005 to 0.12, a
result of TRUE will be declared.
eliminateRange(NC1;-0,005;0.12;2)
If a minimum of two negative controls fall within the range of -0.005 to 0.12, a
result of TRUE will be declared.
abs(PC1-NC1)>0.25
The distance between the averages of positive controls and the negative
controls must be greater than 0.25. If this is the case, a result of TRUE will be
declared.
11.4 Standard Curve Analysis Types
11.4.1 Definitions
Given n base points (x
1
, y
1
), …, (x
n
, y
n
), x
1
< …< x
n
Name
Formula
correlation coefficient
2
1
2
1
1
)()(
))((
yyxx
yyxx
r
n
i
i
n
i
i
i
n
i
i
−−
−−
=
==
=
average square deviation
=
−=
n
i
ii
xfy
n
d
1
2
))((
1
goodness of fit
dgoodness −=1
11. Calculations
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 177
11.4.2 Analysis Type Parameters
The analysis type parameter (e.g. the slope A and the intercept B for linear
regression) can be used in calculation. The available parameters are described
below. If there is more than one experimental group, the analysis type
parameters have a postfix of “B” for the second experimental group, “C” for the
third experimental group and so on. Example: The slope of a linear regression in
experimental group 3 can be accessed as “AC”.
11.4.3 Error Messages
If any of the values in the calculated concentrations lie outside of the range
stipulated by the standards, the entry >Max or <Min will be displayed within the
plate’s wells respectively. If the user would nevertheless like to incorporate these
values into the calculation, the Extrapolation option must be selected.
If the curve is not strictly monotone, an error message is generated.
If there are multiple solutions for a concentration calculation for a measured
value, the entry MultPt will be displayed within the plate’s wells.
11.4.4 Point to Point
Using this process, the adjacent base points will be joined by means of a straight
line.
A minimum of 2 base points is required for this calculation.
Extrapolation is not possible. There are no parameters for use as variables in the
transformations.
If no concentration can be calculated the entry NoCalc will be displayed within
the plate’s wells.
Mathematical Description
Interpolation function:
11.4.5 Linear Regression
A straight line will be formed, where the sum of the squared deviations of all
base points is a minimum.
A minimum of 2 base points is required for this calculation.
If necessary, extrapolation can also be implemented in this process. In an
evaluation with one experimental group, the slope and ordinate intercept serve
as the variables A and B in the transformations. Furthermore, the correlation
coefficient r may also be implemented.
In the Standard Curve dialog box following additional information is displayed:
Formula with coefficient values A (slope) and B (intercept)
Average square deviation d
Absolute value of the correlation coefficient r
Mathematical Description
Approximation function:
where A and B are determined by minimizing the error function
],[)(
],[:
1
1
1
1
+
+
+
−
−
−
+
→
iii
ii
ii
i
n
xxxifxx
xx
yy
yx
Rxxf
BxAx
Rxxf
n
+
→
],[:
1
11. Calculations
178 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
The solution is unique if
, which is true if (see general condition)
11.4.6 Non-Linear Regression
This approximation is designed especially for hyperbolical data. Ideally the
measured values for low concentrations are high and the measured values for
high concentrations are low and the region of interest is in the high concentration
range.
The parameter calculation supported by the linear regression x/y is used for y.
A linear regression is carried out using the transformed data.
The result is expressed as the slope k and the intercept d.
From this result A = 1/k and B = d/k can be determined.
A minimum of 2 base points is required for this calculation.
If necessary, extrapolation can also be implemented in this process. In an
evaluation with one experimental group, the coefficients A and B serve as
variables in the transformations. Furthermore, the correlation coefficient r may
also be implemented. The approximation is always applied to the unscaled base
point values.
In the Standard Curve dialog box following additional information is displayed:
Formula with coefficient values A and B
Average square deviation d
Absolute value of the correlation coefficient r
WARNING
THIS APPROXIMATION IS NOT CONTINUOUS AND THEREFORE
IMPROPER DATA CAN CAUSE HUGE DEVIATIONS BETWEEN THE
GIVEN BASE POINTS AND CALCULATED POINTS!
Mathematical Description
Approximation function:
where A and B are determined by solving the linear regression problem for the
transformed base points
Linear regression:
, minimizing
=
−=
n
i
ii
yxfBAerr
1
2
))((),(
n
x
x
rank
n
=
1
1
1
njixx
ji
,...,1, =
xB
xA
x
Rbxxf
n
+
→−−
}{],[:
1
),(),...,,(
1
1
1
n
n
n
y
x
x
y
x
x
dxkx
Rxxg
n
+
→
],[:
1
=
−=
n
i
i
i
i
y
x
xgdkerr
1
2
))((),(
11. Calculations
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 179
The parameters A and B are calculated from k and d by
k
A
1
=
and
k
d
B =
This function f is not continuous at –B.
11.4.7 Polynomial
2
nd
order: parabolic or quadratic
3
rd
order: cubic
The user can select between a polynomial of order 2 calculation or a polynomial
of order 3 calculation.
A minimum of 3 base points is required for a polynomial of order 2 calculation,
whereas a minimum of 4 is required for the polynomial of order 3 calculation.
If necessary, extrapolation can also be implemented in this process. The
parameters A = a
0
, B = a
1
and C = a
2
can be used in transformations with
polynomial of order 2. For polynomial of order 3, the variables A = a
0
, B = a
1
,
C = a
2
and D = a
3
can be implemented.
In the Standard Curve dialog box following additional information is displayed:
Formula with coefficient values A, B and C for polynomial of order 2 or formula
with coefficient values A, B, C and D for polynomial of order 2
Average square deviation
Mathematical Description
Approximation function:
, order = 2 or 3
(n>order)
where a
order
,…, a
0
are determined by minimizing the error function
The solution is unique if
, which is true if
11.4.8 Cubic Spline
The adjacent base points will be joined through the polynomial of order 3
calculation. The determination of the parameters is performed through the use of
the not-a-knot condition.
A minimum of 3 base points is required for this calculation.
Extrapolation is not possible. There are no parameters for use as variables in the
transformations.
Mathematical Description
Interpolation function features:
Piecewise polynomial of order 3.
Continuous second derivation at all base points.
=
→
order
i
i
i
n
xax
Rxxf
0
1
],[:
=
−=
n
i
ii
yxfaaerr
1
2
0order
))((),...,(
1
1
1
11
+=
order
xx
xx
rank
n
order
n
order
njixx
ji
,...,1, =
11. Calculations
180 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Minimizes the integral , which is a simplified term for the
deformation energy of a spline.
Not-a-knot condition: at x
2
and x
n-1
also the third derivation is continuous.
11.4.9 Akima
The Akima interpolation creates in some cases a smoother curve as the spline
interpolation.
A minimum of 3 base points is required for this calculation.
Extrapolation is not possible. There are no parameters for use as variables in the
transformations.
Mathematical Description
This interpolation method uses piecewise polynomials of order 3.
The piecewise interpolation polynomial itself and its first derivation are
continuous.
Method
The slopes m
i
at all base points are estimated from the neighbor points by a
special function:
are the slopes of the linear interpolator between point i and point
i-1, i=2,…,n
, i=3,…,n-2
Special cases:
Is q
i
= q
i+1
, set p’ ( x
i
) = q
i
= q
i+1
.
Is q
i-1
= q
i
and q
i+1
q
i+2
, so is y’
i
= q
i
(analog for q
i+1
= q
i+2
).
Is q
i-1
= q
i
and q
i+1
= q
i+2
, set .
For the indexes 1, 2, n-1, n the slopes cannot be estimated by this algorithm.
Now we have the following conditions for the 3
rd
order interpolation polynomial p
i
,
i=1, …, n-1
p
i
(x
i
) = y
i
p
i
(x
i+1
) = y
i+1
p
i
‘(x
i
) =m
i
p
i
‘(x
i+1
) =m
i+1
which are four conditions for each 3
rd
order interpolation polynomial p
i
.
11.4.10 LogitLog
LogitLog is designed for sigmoid standard curves. LogitLog will always produce
an S-shaped curve. The curve will asymptotically reach an upper and a lower
limit, which can be independently established as the minimum and maximum
limits. If the user has not established any limits here, the minimum and maximum
base point value will be used. The approximation is always applied to the
unscaled base point values.
A minimum of 4 base points is required for this calculation.
dx
dx
fd
n
x
x
2
2
2
1
1
1
−
−
−
−
=
ii
ii
i
xx
yy
q
||||
||||
112
1112
−++
−+++
−+−
−+−
=
iiii
iiiiii
i
qqqq
qqqqqq
m
2
1+
+
=
ii
i
qq
m
11. Calculations
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 181
If necessary, extrapolation can also be implemented in this process. The
parameters A, B, C and D can be employed as parameters in the
transformations.
In the Standard Curve dialog box following additional information is displayed:
Coefficient values A, B, C and D
Average square deviation d
Absolute value of the correlation coefficient r (correlation of data and fit)
Restrictions for the Process Application
LogitLog and Four Parameter approximation may only be employed when
working with standard curves that meet following requirements:
• Sigmoid process applied to the standard data in relation to the concentrations
• Symmetrically generated curve in relation to the IC-50 value
• In order to calculate the curve correctly it is necessary to have a concentration
value of zero and a value of infinite standard concentration (saturated value),
so that the asymptotes can be determined. If these two values are not present
within the standard curve, they can be defined manually using the More
standard curve parameters option (Min, Max). If no Min and Max values are
defined, magellan will base the process on the smallest and largest values
present respectively.
WARNING
IF THESE REQUIREMENTS ARE NOT MET, APPROXIMATION OF THIS
NATURE CANNOT BE CORRECTLY EMPLOYED.
Mathematical Description
The LogitLog regression is a function
for the description of sigmoid correlation of data.
The parameter can be interpreted as:
)
(
lim
0
x
f
A
x
→
=
)
(
lim
x
f
D
x
→
=
A, D are determined as the minimum respectively maximum (or vice versa if the
function is decreasing).
Then the linear regression problem is solved for transformed base points.
B
n
C
x
DA
Dx
Rxxf
+
−
+
→
1
],[:
1
2
)(
DA
Cf
+
=
−
−
−
−
−
=
=
AD
yD
AD
yD
Y
xX
1
ln
log
10
11. Calculations
182 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
, minimizing the error function
The parameters B, C are determined from k, d:
The parameters A,B,C,D, have appealing geometric interpretations.
A = response at a dose (x-value) of zero (keep in mind that x=0 does not appear
on logarithmic plots)
D = response at an infinitely high dose
C = is the point of symmetry on the curve (IC50); and below this point the curve
is a mirror image
B = is a measure of the steepness of the curve at the inflection point; in fact it is
(within a possible change of sign) the slope of the curve written in its Logit form
Notice that the curve is always decreasing (if A>D) or increasing (if A<D).
11.4.11 Four Parameters
Four parameter approximation needs to fulfill the same base point requirements
as LogitLog.
The resulting curve will be produced using the Nelder and Mead Downhill-
Simplex method. This method produces an increasingly more accurate
approximation of the result throughout the interval. The four-parameter method
requires considerably more time to be processed. As with LogitLog, an S-shaped
curve is produced.
A minimum of four base points is required for this calculation.
If necessary, extrapolation can also be implemented in this process. The
parameters A, B, C, and D can be employed as parameters in the
transformations. The approximation is always applied to the unscaled base point
values.
In the Standard Curve dialog box following additional information is displayed:
Coefficient values A, B, C and D
Average square deviation d
Absolute value of the correlation coefficient r (correlation of data and fit)
Restrictions for the Process Application
Refer to chapter 11.4 Standard Curve Analysis Types – LogitLog for further
information.
Mathematical Description
Approximation function:
Method
First a LogitLog approximation is calculated.
dxkx
RYXg
ii
+
→
],[:
=
−=
n
i
ii
Yxgdkerr
1
2
))((),(
B
b
eC
emB
=
−= )(log
10
B
n
C
x
DA
Dx
Rxxf
+
−
+
→
1
],[:
1
11. Calculations
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 183
The parameters A, B, C, D are optimized by the Downhill-Simplex algorithm, a
minimization algorithm that needs only function evaluations but no function
derivation.
The algorithm stops if an accuracy of 0.001 is reached (success) or the
maximum number of 10,000 iterations is exceeded (failure) before the given
accuracy is reached.
Bibliography
Nelder, J.A., and Mead, R. 1965, Computer Journal, vol. 7, pp 308-313
11.4.12 Four Parameters – Marquardt
The four-parameter approximation needs to fulfill the same base point
requirements as LogitLog.
The resulting curve will be produced using the Levenberg-Marquardt method.
This method produces an increasingly more accurate approximation of the result
throughout the interval. The four-parameter method requires considerably more
time to be processed. As with LogitLog, an S-shaped curve is produced.
A minimum of four base points is required for this calculation.
If necessary, extrapolation can also be implemented in this process. The
parameters A, B, C and D can be employed as parameters in the
transformations. The approximation is always applied to the unscaled base point
values.
In the Standard Curve dialog box following additional information is displayed:
• Coefficient values A, B, C and D
• Average square deviation d
• Absolute value of the correlation coefficient r (correlation of data and fit)
Restrictions for the Process Application
Refer to chapter 11.4 Standard Curve Analysis Types – LogitLog for further
information.
Mathematical Description
Approximation function:
Method
First a LogitLog approximation is calculated.
The parameters A, B, C, D are optimized by the Levenberg-Marquardt algorithm,
an iterative technique that finds a local minimum of a function that is expressed
as the sum of squares of nonlinear functions.
The algorithm stops if an accuracy of 1E-7 (FLT_EPSILON) is reached (success)
or the maximum number of 30,000 iterations is exceeded (failure) before the
given accuracy is reached.
11.4.13 Five Parameters – Marquardt
The five-parameter approximation basically needs to fulfill the same base point
requirements as LogitLog. The sigmoid curve may however be non-symmetric.
The resulting curve will be produced using the Levenberg-Marquardt method.
This method produces an increasingly more accurate approximation of the result
throughout the interval. The five-parameter method requires considerably more
time to be processed. As with LogitLog, an S-shaped curve is produced.
A minimum of five base points is required for this calculation.
B
n
C
x
DA
Dx
Rxxf
+
−
+
→
1
],[:
1
11. Calculations
184 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
If necessary, extrapolation can also be implemented in this process. The
parameters A, B, C, D, and E can be employed as parameters in the
transformations. The approximation is always applied to the unscaled base point
values.
In the Standard Curve dialog box following additional information is displayed:
• Coefficient values A, B, C, D, and E
• Average square deviation d
• Absolute value of the correlation coefficient r (correlation of data and fit)
Restrictions for the Process Application
Refer to chapter 11.4 Standard Curve Analysis Types – LogitLog for further
information.
Mathematical Description
Approximation function:
EB
n
C
x
DA
Dx
Rxxf
))(1(
,:
1
+
−
+
→
Method
The parameters A, B, C, D, E are optimized by the Levenberg-Marquardt
algorithm, an iterative technique that finds a local minimum of a function that is
expressed as the sum of squares of nonlinear functions.
The algorithm stops if an accuracy of 1E-7 (FLT_EPSILON) is reached (success)
or the maximum number of 30000 iterations is exceeded (failure) before the
given accuracy is reached.
11.4.14 Weighting for Four / Five Parameter Fit – Marquardt /
Polynomial Fit
Weighting influences the standard optimization algorithm.
The algorithm tries to optimize the weighted sum of least squares.
A weighting factor of one means no weighting.
Weighting factors greater than one mean that the specified point has higher
priority for the resulting fit.
Weighting factors smaller than one indicate that the point is taken less into
account.
WARNING
WEIGHTS SHOULD ONLY BE USED IF THERE IS SEVERE
STATISTICAL EVIDENCE, THAT GATHERED DATA AND ALGORITHM
ARE APPROPRIATE.
Mathematical Description
Average weighted square deviation
=
=
−=
n
i
iii
n
i
i
xfyk
k
d
1
2
1
))((
1
Automatic calculation of weights using variance:
The weights are automatically calculated with 1/SD
2
where SD is the standard
deviation of the replicates of the actual base point.
11. Calculations
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 185
This means that data with high standard deviation is less weighted than data with
low standard deviation.
WARNING
WEIGHTING USING VARIANCE IS DANGEROUS WHEN TOO FEW
REPLICATES ARE USED, BECAUSE THE STANDARD DEVIATION
CAN THEN HAVE A HIGH RANDOM PORTION WHICH
CONSIDERABLY INFLUENCES THE OPTIMIZATION ALGORITHM.
Automatic calculation of weights using relative weights:
The weights are automatically calculated with 1/Y
2
where Y is the mean value of
the actual base point. This means that the algorithm minimizes the relative
distances of the data to the curve.
11.5 Calculation of Dilution Series
11.5.1 Detection of Dilution Series
The following criteria have to be fulfilled to force magellan to detect a dilution
series on the layout:
• Sample(s) with a minimum of four replicates
• Usage of at least four different dilution factors for the single replicates of a
sample
magellan checks the whole layout and picks all found dilution series.
11.5.2 Curve Parameter Calculation
Curve parameters are calculated for every found dilution series using the Four
Parameters – Marquardt algorithm. In case of a failure the calculation is redone
using the Four Parameters algorithm. Please refer to chapter 11.4 Standard
Curve Analysis Types for more detailed information about the algorithms
mentioned above.
11.5.3 Calculation of IC Values
First the maximum intensity (I
max
) and the minimum intensity (I
min
) of every
dilution series is picked.
Calculation of IC-intensity
If the 0% value is set to intensity ‘Intensity 0’
max
*
0.100
I
ICx
I
IC
=
If the 0% value is set to ‘Min. intensity of dilution series’
0.100
*)(
minmax
min
ICxII
II
IC
−
+=
Calculation of dilution at ICx
Using the curve parameters calculated in step 12.6.2 and the calculated IC-
intensity the resulting dilution is calculated.
B
IC
IC
DI
IA
Cdilution
1
)(*
−
−
=
12. Application Example
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 187
12. Application Example
12.1 Step-by-Step Example: Quantitative ELISA
A step-by-step example (quantitative test) of how to create a method in
magellan is provided in this chapter. By following the instructions you will learn
how to define evaluations from a test kit description in magellan.
The method was created using a Sunrise in demo mode, but it is also possible to
define the methods with another Tecan instrument connected, if it is able to
measure absorbance.
12.1.1 Test Kit Description
In the manufacturer’s test kit description of a quantitative IgM – Antibody
detections – ELISA the following instructions are found: Plate Layout
1
2
3
4
5
6
7
8
9
10
11
12
A
BLK
C3
S1
B
NC
C4
S2
C
NC
C4
S2
D
C1
C5
S3
E
C1
C5
S3
F
C2
C6
…
G
C2
C6
…
H
C3
S1
BLK = Blank, NC = Negative control, C1 – C6 = Calibrators (Standards),
S1 – S… = Samples
Measurement and Evaluation
Read plate at a wavelength of 492nm, reference at 620nm.
Blank reader/plate on well A1.
Concentrations of the Calibrators (Standards):
Calibrator 1
5 UA/mL
Calibrator 2
10 UA/mL
Calibrator 3
20 UA/mL
Calibrator 4
40 UA/mL
Calibrator 5
80 UA/mL
Calibrator 6
160 UA/mL
After the blank correction the optical densities (OD492–OD620) are plotted
versus the concentration. The regression line that goes through these points is
the standard curve.
Interpretation of the test results:
IgM < 18 UA/mL
Negative
18 UA/mL <= IgM < 22 UA/mL
Intermediate
IgM >= 22 UA/mL
Positive
12. Application Example
188 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
The calculated IgM concentration of both negative controls must be under
8 UA/mL.
Data Handling
After the measurement, the data file (workspace) is stored automatically and a
report containing the measurement parameters, plate layout, blanked values,
standard curve, IgM-concentrations, cutoff definition, qualitative results of the
samples and validations is created.
Additionally, the layout and the qualitative results are be stored as ASCII file.
12.1.2 Create a Method
In the Wizard List dialog box, select Create/edit a method and click OK. Click
next on the Welcome page of the Create/edit a method wizard and the Select
a file dialog box appears. Select Create new.
Measurement Parameters
Click Next and the Measurement parameter dialog box appears.
Select Endpoint measurement and click the Measurement parameters button.
The following dialog box appears:
12. Application Example
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 189
On the General tab select Absorbance.
On the Wavelengths tab select 492nm as Measurement wavelength and 620nm
as Reference wavelength.
Click OK to return to the Measurement parameter dialog box.
Click Define evaluation and the Plate layout window is displayed.
Design Layout
Define the plate layout using the Well Assignment dialog box on the right side
of the screen.
In the Identifiers group box, select BL (Blank).
In the Experimental group box, the number 1 remains.
In the Replicates group box, select All.
12. Application Example
190 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Click well A1, which is then marked with a red border.
Click Fill selection and the well is labeled with the selected identifier type.
Note
A single well can also be filled by double-clicking it.
Now choose the following settings in the Well Assignment dialog box:
In the Identifiers group box, select NC (Negative Control).
In the Experimental group box, the number 1 remains.
All is selected in the Replicates group box.
Starting at well B1 click and drag the mouse to C1. The wells B1 to C1 are then
marked with a red border.
Click Fill selection and the wells are labeled with the selected identifier type.
Next, calibrators (standards) must be assigned to wells D1 to G2. Select the
following settings in the Well Assignment dialog box:
In the Identifiers group box, select ST (Standard).
In the Experimental group box, the number 1 remains.
In the Replicates group box, choose between Fix number and All:
Fix number
Only enabled for standards and samples where IDs can be used.
If this Fix number button is active a number can be entered in the corresponding
text field. This number defines how many replicates are intended for this method.
In the selected wells, the entered number of replicates for every ID is created.
Therefore, the number of selected wells must be a multiple of the entered
number of replicates.
All
All selected wells are defined as replicates. If an existing ID number for the
samples and standards is chosen, the selected wells are then added as
replicates to the existing replicates. With all other identifier types the selected
wells are added as replicates to the existing replicates.
Two arrow buttons define the direction of the replicate and ID number
sequence (horizontal or vertical).
In this example select Fix Number and 2.
12. Application Example
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 191
In the ID-Number box and in the Replicates group box select the vertical
arrows.
Then select the wells D1 to G2 and click Fill selection.
Note
Select the wells as follows: Starting at well D1 click and drag the mouse
over the required wells to H1. Then hold down the control (Ctrl) key and
drag the mouse over the required wells from A2 to G2.
The Plate Layout appears as follows:
Click Select all unused from the toolbar to select all empty wells on the plate.
Then hold down the control (Ctrl) key and click the well H12, so that it remains
blank and unmarked.
In the Well Assignment dialog box select SM (Sample) under Identifiers.
In the Experimental group box, the number 1 remains.
In the Replicates group box choose Fix number and 2.
In the ID-Number box leave 1 and in the Replicates group box select the
vertical arrows. Click then Fill selection. The layout definition procedure is
complete.
Transformations
In the control bar on the left of the window select the next option, Add new
transformation… from the Transformed data item, to define blank reduction.
A dialog box appears asking you if you want to define a blank reduction. Click
Yes.
12. Application Example
192 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Select Difference Data in the Input data box. By default the transformation is
named Transformation1 (see control bar). If you have confirmed the definition of
a blank reduction before, the software automatically names it Blank reduction.
In the Formula box automatically appears x-BL1 for this blank reduction, where
x refers to the current input data value in a well and BL1 is the mean value of the
blank wells of experimental group 1.
Now select the whole plate by clicking the sign in the upper left corner of
the microplate and click the green hook next to the formula window to assign the
transformations to the wells. For further details and explanations concerning the
definition and assignment of transformations, refer to chapter 4.3.5 Transformed
Data: Add New Transformation. The following window appears:
In each well the following information appears (example well A5):
SM1_9
Sample, experimental group number 1,
sample ID number 4.
2/2
Number of replicate is 2, total number of replicates is 2.
x-BL1 or 1.000
Assigned transformation x-BL1 (when Transformation is
selected) or Dilution Factor value of 1 (when Conc., Dil,.
Ref.-values is selected).
Concentration / Dilution / Reference Value Definition
In the control bar select Conc., Dil., Ref.-values from the Method layout item to
define the respective values as described in the test kit.
Calibrator 1
5 UA/mL
Calibrator 2
10 UA/mL
Calibrator 3
20 UA/mL
Calibrator 4
40 UA/mL
Calibrator 5
80 UA/mL
Calibrator 6
160 UA/mL
Make sure ST is selected in the Select Identifier list .
In the Identifier list, a list of the standards from the Exp. Group 1 appears. In the
corresponding Concentration box of ST1_1 type the number 5 and in the Unit
box, type UA/mL. In the corresponding Concentration box of ST1_2 type the
12. Application Example
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 193
number 10. The unit only needs to be defined once and is valid for all standards.
Type the values for the ST1_3 to ST1_6 in the same way.
The screen showing the plate layout and the concentration is displayed:
Standard Curve
In the control bar click Standard curve from the Concentrations item to define
the appropriate standard curve.
The following is in the test kit description:
After the blank correction, the optical densities (OD 492 – OD 620) are plotted
versus the concentration. The regression line that goes through these points is
the standard curve.
On the Data tab, select Blank reduction as input data.
12. Application Example
194 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
On the Analysis type tab, select Linear regression.
On the Axis tab, define the labeling and the scaling of the axis as shown below:
12. Application Example
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 195
On the Graph tab, define the graph title, curves, font and graph display.
12. Application Example
196 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Define Cutoffs
In the control bar select Cutoff definition from the Evaluate data item to define
the limits for the qualitative evaluation.
The test kit description contains the following instructions:
Interpretation of the test results:
IgM < 18 UA/mL
Negative
18 UA/mL <= IgM < 22 UA/mL
Intermediate
IgM >= 22 UA/mL
Positive
Use the following procedure to define the appropriate cutoffs:
In the Input data box, select Mean conc. (UA/mL).
The Cutoffs table represents a scale indicating the high and the low end for the
Limits and Labels. In Limits, type 22 as the first (higher) limit and 18 as the
second (lower) limit.
In Labels, enter the test interpretation (Positive, Intermediate and Negative)
into the individual boxes. Use the drop down color palette to assign a color:
Positive – Red
Intermediate – Blue
Negative – Green
The screen contains the following:
Click Cutoff results selection to select the identifier types for which the cutoff
results must be shown.
Define QC Validations
In the control bar, click QC Validations from the Evaluate data item. Validation
criteria for the test must be defined, so that the validity of the test results is
guaranteed.
In this example the following requirement must be fulfilled:
12. Application Example
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 197
The calculated IgM-concentration of both negative controls must be under
8 UA/mL.
In the Input box, select Single conc. (UA/mL).
In the first row, type NC1_1<8, or enter the formula using the available variables,
operators and functions.
Note
NC1_1 means Negative control of experimental group 1, replicate 1.
In the second row, type NC1_2<8.
The QC Validations dialog box is now displayed as follows:
Organize Printed Report
In the control bar, click Printed report from the Data handling item. The
following screen is displayed:
On the Data selection tab, all available report data is contained in the Available
data box. Using the Insert and Append buttons, data can be transferred into the
Selected data box. Data can also be transferred using drag-and-drop.
In the Print as box, choose between printing the data as a matrix or as a list with
a special orientation.
12. Application Example
198 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
In this example a report containing the measurement parameters, plate layout,
blanked values, standard curve, IgM-concentrations, cutoff definition, qualitative
results of the samples and validations should be created.
Before creating the report, the default Matrix Difference data must be removed
from the Selected data box. So only Measurement parameters remain in the
Selected data box.
Select Method layout/Layout in the Available data box and attach it as a
matrix to the report by clicking Append. Then insert Blank reduction, Mean
conc. (UA/mL) and Cutoff results into the matrix by selecting the
corresponding items and clicking Insert.
Append Graph: Standard curve, Cutoff definition and QC Validation criteria
to the selected data. The data setup part of the report definition procedure is
complete; the Printed Report dialog box looks like this:
On the Header and Footer tabs, define the layout of the header and the footer of
the report (see chapter 4.3.13 Data Handling: Printed Report for further details).
12. Application Example
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 199
Data Export
In the control bar, select Data export from the Data handling item. In this
example, the layout and cutoff results should be stored as ASCII file. Select
Layout and Cutoff results from the Available data window; click the → arrow to
insert them into the Selected data window. The screen displays the following
information:
Note
Exported data should always contain the Layout or Sample ID List.
Automated Data Handling
In the control bar, select Automated data handling from the Data handling
item.
Select export to ASCII file, and view results after measurements. In
magellan Tracker, save workspace is selected by default and cannot be
modified.
12. Application Example
200 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Save the Method
Click FINISH to open the Save as window. Enter the method filename and
complete any other field if appropriate.
Filename
text field
A filename must be entered. A default filename is
suggested automatically but can be changed.
File remarks
text field
Comments entered here will be saved and displayed
with the filename.
Audit trail
comment
text field
Comments entered here will be stored in the audit trail.
This option is only available with magellan Tracker.
Audit trail…
button
The Audit Trail dialog box appears. This option is only
available with magellan Tracker.
Organize Favorites…
button
The Organize Favorites dialog box appears.
(See chapter 6.4 Start Favorite – Organize Favorites).
Signatures…
button
The Signature dialog box appears. This option is only
available with magellan Tracker.
Method password
Enter a method password if you want to protect the
method to be saved (see chapter 4.4.1 Password
Protection of Methods).
Run this method
now check box
The method will be run immediately after having finished
the wizard.
Audit Trail
Click Audit Trail to view the Audit Trail dialog box:
12. Application Example
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 201
The audit trail shows a list of all modifications made to the method. Each entry
consists of the user (name and full name), date and time of change, whether the
file was created or modified, and any audit trail comments.
Click Print preview… to get a preview of the file. To compare a method with its
previous versions a printout must be made, because two print preview windows
cannot be opened simultaneously.
12.1.3 Run the Method
If Run this method now is selected in the Save as dialog box of the Create/edit
a method wizard, the Start Measurement Wizard/ Start Measurement dialog
box will appear after Save is clicked:
Click Start to start the measurement. A workspace will be created automatically,
which contains all previously entered information and will collect all
measurement values. While the measurement is being executed, a
measurement status dialog box appears indicating the progress of the
measurement.
After the measurement is completed, the Results dialog box appears, in which
all the results and calculations can be viewed.
12. Application Example
202 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
12.1.4 Evaluate the Result
Evaluate results enables you to view and evaluate raw data. The evaluation
parameters can be viewed and data can be re-evaluated.
This section guides you through the Evaluate Results wizard using the example
workspace file created by running the quantitative ELISA method.
Note
Example files automatically appear in the Method List in magellan
Standard. For magellan Tracker, these files are available in the default
data path and must be converted.
In the Wizard List dialog box, click Evaluate results.
Click Next on the Welcome page of the Evaluate Results wizard and the
Select a file dialog box appears.
Select the workspace Quantitative Elisa example_Sunrise.wsp from the file
list and click Make your selection. Calculations are executed and the following
plate layout window is displayed:
In each single well the calculated value is displayed. Depending on the selected
item in the control bar, the plate layout window changes correspondingly.
Parameters and settings can be changed using the items in the control bar. If the
method is to be modified, click on the Edit method tab.
Click in the well with the right mouse key and the context-sensitive menu
appears:
12. Application Example
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 203
Selecting Summary, the following window is displayed providing detailed
information of the definition and the settings of the chosen well:
Click Finish in the plate layout window and the Save as dialog box appears,
where you can enter a file name and remarks. Click the small Save button on the
left of the window to save the file; you can continue working on the method or
workspace. Click the Save button on the right side at the bottom of the screen to
save the file and to close the wizard. The program goes back to the wizard list.
12. Application Example
204 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
12.1.5 Summary of Definition of Quantitative ELISA in magellan
1. Subtract Blank value
Definitions in magellan
Click on Add new transformation in the control bar and a window appears,
asking if you want to define a Blank reduction. Click Yes and the Blank
reduction formula is assigned automatically to all wells.
2. Define Concentrations
Definitions in magellan (Control bar – Method layout/ Conc.-, Dil.-, Ref.-
values)
Selected identifier: ST
Unit: UA/ml
ST1_1 5 (ST1_1…..Standard 1 first experimental group)
ST1_2 10 (ST1_2…..Standard 2 first experimental group)
ST1_3 20 (ST1_3…..Standard 3 first experimental group)
ST1_4 40 (ST1_4…..Standard 4 first experimental group)
ST1_5 80 (ST1_5…..Standard 5 first experimental group)
ST1_6 160 (ST1_6…..Standard 6 first experimental group)
3. Define Standard Curve
Definitions in magellan (Control bar – Concentrations/ Standard curve)
Input data
blank reduction
Analysis type
linear regression
X-axis
linear
Y-axis
linear
4. Define Cutoffs
Definitions in magellan (Control bar – Evaluate data/ Cutoff definition)
• Input data: Mean conc. (UA/mL)
Limits
22
18
Positive>=22>intermediate>=18>negative
Non competitive test#
5. QC Validation
Definitions in magellan (Control bar – Evaluate data/ QC validation):
• Input data: Single conc. (UA/mL)
Validation condition 1 NC1_1<8
Validation condition 2 NC1_2<8
NC1_1………..Negative Control first replicate first experimental group
NC1_2………..Negative Control second replicate first experimental group
13. Glossary of Terms
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 205
13. Glossary of Terms
Term
Definition
Average single conc. (???)
Concentration calculated by averaging the single concentrations
Basis OD
Kinetic Parameter: Basis OD value of the onset calculation
Basis OD %
Kinetic Parameter: Basis value of the onset calculation in %
Clipboard
The clipboard is the medium by which programs under Windows
exchange data with each other. Data can be selected in one Windows
application by cutting or copying it to the clipboard and then added
into another application by pasting it from the clipboard.
Correlation coeff.
Correlation coefficient, indicates the strength and direction of a linear
relationship between two random variables.
Cutoff limit
The cutoff limit enables the user to define the limits between two
conditions (for example: positive or intermediate). These criteria are
used in the evaluation of the results.
Cutoff results
Name of the cutoff range the value lies in as defined under cutoff
definition
Cutoff definition
Definition of all cutoff ranges and calculated limits
Dilution factors
Defined dilution factors of the samples and controls.
A dilution factor of 2 represents a 1:2 dilution.
Dilution series
A sample with replicates in different dilutions.
Goodness of fit
1 minus average relative square deviations of the base points from the
curve
Graph
Graphs can be displayed for kinetic measurements, enzyme kinetics,
multilabel measurements, dilution series or standard curves.
Hidden
Displayed if well data is hidden when printing
HUID
Hardware Unit Identification Number
IC 50
The dilution/concentration which results in 50% of the maximum
response
Invalid
Value is invalid, no calculation possible
Graph: Kinetic
Graph of kinetic measurements
Lamp low
No values from measurement because of absorbance instrument
error.
Layout, Plate Layout
Defines where samples or controls are placed on the microplate
Max. slope OD/hr
Kinetic Parameter: Maximum slopes of the kinetic curves per hour
Max. slope OD /min
Kinetic Parameter: Maximum slopes of the kinetic curves per minute
Max. slope OD /sec
Kinetic Parameter: Maximum slopes of the kinetic curves per second
Maximum OD
Kinetic Parameter: Maximum value of the kinetic curves
Mean slope OD /hr
Kinetic Parameter: Average slopes of the kinetics curves per hour
Mean slope OD /min
Kinetic Parameter: Average slopes of the kinetics curves per minute
Mean slope OD /sec
Kinetic Parameter: Average slopes of the kinetics curves per second
13. Glossary of Terms
206 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Term
Definition
Mean. conc (???)
Concentration calculated from the mean of the replicates of the input
data
Measurement data
Dual wavelength absorbance measurement: Data measured using the
measurement filter
Measurement parameters
Defines measurement mode, wavelength, plate size, shaking, etc.
Measurement type
The measurement type can be endpoint measurement, kinetic
measurement, multilabel measurement or well-kinetic measurement.
Method
Methods contain of the measurement parameters and the evaluation
definition. Running a method leads to a workspace that contains the
measured and calculated data.
Minimum OD
Kinetic Parameter: Minimum value of the kinetic curves
MultPt
The standard curve is not monotone and delivers more than one
concentration at the given input data.
NoCalc
No value returned from the calculation.
Original Concentrations
Concentrations of the standard curve defined in the method.
Pipetting status
If a sample ID list is imported from a pipetting software, the pipetting
status can be displayed.
QC Validation
The QC validation criteria are defined in the method and stipulate
whether a measurement is valid or invalid. The criteria can, for
example, indicate if the measurement values lie too far apart from
each other, or if they deviate too far from an expected value. The
program automatically warns the user if the criteria are not met.
Raw data
Data measured by the instrument.
Reference data
Dual wavelength absorbance measurement: Data measured using the
reference filter
Results statistics
Summary of the number of values in the different cutoff ranges
Sample ID List
Sample IDs are assigned to each well on the basis that the associated
probe can be identified. The IDs are usually barcodes imported from
sample ID lists stored by a pipetting software.
Sample IDs
IDs of the samples
Single. conc (???)
Concentration calculated from the input data of each replicate
Test
In previous versions a test contained the evaluation settings but not
the measurement parameters. Tests are no longer supported in
magellan and are replaced by the more powerful methods.
Time Basis OD
Kinetic Parameter: Time until the basis value is reached
Time Basis OD %
Kinetic Parameter: Time until the basis value % is reached
Time Basis to Onset OD
Kinetic Parameter: Time between basis value and onset value
Time Basis to Onset OD %
Kinetic Parameter: Time between the basis and the onset value %
Time max. slope sec
Kinetic Parameter: Kinetic Parameter: Time point of the maximum
slope
Time maximum OD
Kinetic Parameter: Time until the maximum is reached
Time minimum OD
Kinetic Parameter: Time until the minimum is reached
Time Onset OD
Kinetic Parameter: Time until the defined onset value is reached
13. Glossary of Terms
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 207
Term
Definition
Time Onset OD %
Kinetic Parameter: Time until the defined onset in % is reached
Time points
Time stamps of the single measurements of a kinetic measurement
Unavailable
Requested data is not available
Unused
No data measured; no layout defined in this well
User Prompts
User Prompts are references that are setup in the method. They are
displayed before the measurement and the user has to add text to
them. This text will then be incorporated in a printout.
Validation criteria
Summary of validation condition results
Well position
Name of the well, for example: A1, A2, …
Workspace
All available data within the program can be found in the Workspace,
for example the measurement data, the print definition and the method
definition. The Workspace is used for loading methods and running
measurements.
!
Precedes values that have been eliminated during calculation
#
Precedes concentration values that have been calculated using
extrapolation and lie outside the range of the standard curve
( )
Parenthesis surround values that have been masked
*
An asterisk marks values that have been measured using the “Use
gain regulation” option, which corrects (=lowers) the gain.
??? – Mean
Calculated averages (for example: Raw data – Mean)
??? – Standard deviation
s - ???
Calculated standard deviations (for example: Raw data – Standard
deviation or s – Raw data)
??? – Variation coefficient
v - ???
Calculated variation coefficients (for example: Raw data – Variation
coefficient or v – Raw data)
~
Added to values that have been edited or simulated
<Min
Calculated concentration is lower than minimum
>Max
Calculated concentration exceeds maximum
<Blank>
Printed report: Insert empty matrix or table printout
<Page break>
Printed report: Print next item on the next page
<Separator>
Printed report: Print line between two items
x
Symbol x refers to the current value within a well
concX
Symbol concX refers to the concentration of the standard in the
current well.
dilX
Symbol dilX refers to the dilution of the sample or control in the
current well.
‘???’!
Available data set if more than one set of input data shall be used for
calculations
[ ]
Indices access the different cycles of a kinetic measurement whereas
[0] indicates the first cycle
*
The asterisk marks identifiers that have been set as aliases.
Index
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 209
Index
A
About magellan ...................................................... 158
abs(argument) ....................................................... 168
Absorbance Multilabel Measurement ...................... 37
Add HUIDs............................................................. 160
Add New Transformation ......................................... 52
Add/Modify Role .................................................... 147
Add/Modify User (magellan Standard) ................... 153
Add/Modify User (magellan Tracker) ..................... 145
Akima .................................................................... 180
and – logical expression ........................................ 167
Application Examples ............................................ 187
Application Locked .................................................. 24
Approval ................................................................ 130
Arbitrary Cycle Kinetic ........................................... 101
Archive Files .......................................................... 131
area under the kinetic curve .................................... 57
ASCII File Export ................................................... 112
Assign Alias ....................................................... 39, 44
ASTM delimiter definition ......................................... 76
ASTM Export Settings ............................................. 77
ASTM file ........................................................... 76, 77
ASTM File Export ........................ 74, 76, 77, 111, 112
ASTM File Export (LIS) .......................................... 112
Attach signature ..................................................... 129
Audit Trail .............................................................. 159
Autofill Selection ...................................................... 87
Automated Data Handling ....................................... 74
Automatic Archiving ............................................... 133
Available Data ......................................................... 58
avg(argument) ....................................................... 169
C
calcAlways(argument) ........................................... 174
Calculations ........................................................... 163
Spectra Data Reduction .................................... 164
Calculations ........................................................... 163
Change Password ................................................... 24
Components & Terms .............................................. 19
Conc., Dil. and Ref. Values ..................................... 46
Concentrations ...................................................... 118
Connecting an Instrument ....................................... 24
Context Sensitive Menu of a Well of Evaluate Results
Tab.................................................................... 123
Details Dialog .................................................... 123
Edit Dialog ........................................................ 124
Graph-Kinetics Dialog ....................................... 124
Graph-Multilabel Dialog .................................... 124
Graph-Spectra Dialog ....................................... 126
Summary of a well ...................................... 39, 123
Convert Documents ............................................... 135
Convert From ......................................................... 135
Convert To ............................................................. 134
Copy in ASCII-Format ........................................... 115
Copy Tab ............................................................... 139
Copy to Excel ........................................................ 115
Copy/Export Options ............................................. 139
correlation coefficient ..................................... 183, 184
countDeleted(arg1; arg2) ....................................... 172
Create/Edit a Method ............................................... 33
Create/edit a sample ID ........................................... 83
Cubic Spline .......................................................... 179
Cutoff ....................................................................... 63
Cybersecurity ........................................................... 16
D
Data Export .............................................................. 65
Data Handling .......................................................... 65
Default paths ......................................................... 138
Define a new identifier ............................................. 44
Define a Plate Layout .............................................. 41
Define Constants ..................................................... 54
Define Evaluation .................................................... 38
Define Filter Slides .................................................. 32
Dilution Series ....................................................... 121
E
Edit Constants ....................................................... 100
Edit user prompts .................................................. 100
Edit well ................................................................... 87
eliminate (arg1; arg2; arg3; arg4) .......................... 171
eliminatePerc (arg1; arg2; arg3; arg4) ................... 171
eliminateRange (arg1; arg2; arg3; arg4) ................ 172
Email Options ........................................................ 151
End Point Measurements ........................................ 36
Enzyme Kinetics ...................................................... 58
Enzyme Kinetics Graph ......................................... 118
Evaluate Data .......................................................... 63
Evaluate Results ............................................ 107, 128
Excel Export .......................................................... 112
exp(argument) ....................................................... 168
Export
to ASCII .............................................................. 68
to Excel ............................................................... 69
Export to ASTM file .................................................. 74
Export to LIS ............................................................ 76
F
File Handling .......................................................... 160
File Selection Criteria............................................. 108
file type symbols ...................................................... 20
File Types Used with magellan ................................ 19
Five Parameters – Marquardt ................................ 183
Folder Handling ....................................................... 20
Formula ................................................................. 165
Basic Functions ................................................ 168
Elimination Functions ........................................ 171
Functions .......................................................... 167
How to write a formula ...................................... 165
Logical Expressions .......................................... 167
Operators .......................................................... 167
Other Functions ................................................ 174
Spectra Functions ............................................. 174
Statistical Functions .......................................... 169
Variables ........................................................... 165
Four Parameters .................................................... 182
Four Parameters – Marquardt ............................... 183
frac(argument) ....................................................... 168
G
Glossary of Terms ................................................. 205
H
Help Button .............................................................. 21
HUID .......................................................... 14, 27, 160
Index
210 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
I
Icons ....................................................................... 18
ICx calculation ......................................................... 48
identifiers ............................................................ 44, 45
if(…) then(…) else(…) – logical expression ............167
ignore() ...................................................................174
Import Raw Data ....................................................134
Import sample ID list ............................................... 89
Import/edit a sample ID list ...................................... 85
In(argument) ...........................................................168
Initial Password ....................................................... 24
Insert Sample ID List ..............................................103
Installation
Software ............................................................. 12
Installation Qualification .......................................... 13
Instrument Control ................................................... 31
Instrument Data ......................................................117
int(argument) ..........................................................168
isInvalid() ................................................................174
K
Kinetic Data Reduction ............................................ 55
Kinetic Measurements ............................................. 37
Kinetic Parameters .................................................118
Kinetic transformations ....................................... 58, 63
Kinetics Graph ........................................................125
L
Levenberg-Marquardt algorithm .............................183
Levenberg-Marquardt method ................................183
Levy-Jennings-Graph .............................................113
lg(argument) ...........................................................168
Licensing magellan ................................................. 27
LIS - Laboratory Information System ....................... 74
Lock application .....................................................149
Log(argument) ........................................................168
Logical Expressions
and ....................................................................167
if(…) then(…) else(…) .......................................167
or 167
login .......................................................................153
Login ....................................................................... 24
logins
unsuccessful ......................................................149
M
magellan Standard .................................................. 12
magellan Tracker .................................................... 12
Manufacturer ............................................................. 2
max(argument) .......................................................170
maxAvg(argument) .................................................170
mean(argument) .....................................................169
Measurement Parameters ....................................... 34
Measurement Status ..............................................104
Measurement Types - SUNRISE ............................ 34
median(argument) ..................................................169
medianPlate() .........................................................169
Menus of the Evaluate Results Tab .......................111
Method Export ........................................................112
Method Layout .......................................................122
Method Notes .......................................................... 78
min(argument) ........................................................170
Min./Max. ................................................................. 57
minAvg(argument) ..................................................170
Miscellaneous Icon .................................................131
Options ..............................................................137
Miscellaneous of Evaluate Results Tab .................122
Miscellaneous Tab .................................................142
Movements
plate carrier, filter slide ....................................... 31
Multilabel Graph .................................................... 124
Multilabel Measurement .......................................... 35
Multiplate Methods .................................................. 81
N
Number Format ....................................................... 78
O
Obtain Raw Data ............................................... 97, 98
Onsets ..................................................................... 56
Operation Qualification OQ ............................... 13, 16
or – logical expression........................................... 167
Organize Favorites .................................................. 99
P
Password
Options ............................................................. 150
Paste from ASCII-Format ...................................... 115
Paste in ASCII-Format ............................................ 88
Paths Tab .............................................................. 138
Plate layout ............................................................. 41
Plate Layout Window........................................39, 116
Plate to Plate QC .............................................65, 113
Plate View Settings ............................................... 140
Plate View Tab ...................................................... 140
PointwiseCV(argument) ........................................ 170
Print ....................................................................... 112
Print Preview ......................................................... 112
Printed Report ......................................................... 70
Printer Setup ......................................................... 112
Printout Font .......................................................... 112
Q
QC Validation ...................................................64, 122
Qualitative Results ................................................ 122
Quantitative ELISA Example ................................. 187
R
Reader Compatibility ............................................... 12
Recalculate with Another Method .......................... 116
Reduced Data ....................................................... 117
Register Wizard ..................................................... 158
Registration form ..................................................... 29
Review .................................................................. 130
round(argument) ................................................... 169
S
sample ID list
importing ....................................................... 83, 89
Sample ID List Settings ........................................... 83
Sample IDs ............................................................ 122
Saving the Evaluated Results ............................... 128
Saving the Method .................................................. 79
Saving the Sample ID List ....................................... 96
Shortcuts List .......................................................... 22
Sign a File ............................................................. 129
Signature ............................................................... 129
Approval ........................................................... 130
Review .............................................................. 130
Slopes ..................................................................... 55
SMTP server ......................................................... 151
Software
Installation .......................................................... 12
Removal ............................................................. 15
Special Characters ................................................ 117
Spectra Data Reduction ...................................49, 164
Index
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 211
Spectra Dialog ....................................................... 126
spectrum of a scan measurement ......................... 126
sqr(argument) ........................................................ 169
sqrt(argument) ....................................................... 169
Standard Curve ............................................... 58, 119
Standard Curve Analysis Types ............................ 176
Standard Curve Graph .......................................... 121
Standard Elements .................................................. 21
Start Favorite ........................................................... 97
Start Measurement .......................................... 97, 100
Starting magellan ..................................................... 23
stddev(argument) .................................................. 170
Sum(argument) ...................................................... 170
System Audit Trail ................................................. 161
System Recovery .................................................... 14
T
Temperature Control ................................. 19, 31, 102
Test Mail ................................................................ 151
Transformed Data .................................................. 117
U
Unsuccessful logins ............................................... 149
Use Predefined Method ..................................... 97, 99
User Administration
Options ............................................................. 149
User Administration (magellan Tracker)
Change User ..................................................... 153
Login ................................................................. 153
User Administration Audit Trail .............................. 148
User Administration Summary ............................... 151
User Interface .......................................................... 17
User Prompts ........................................................... 78
User Rights ............................................................ 154
User Rights (magellan Standard) .......................... 154
W
Weighting
Four / Five Parameter Fit – Marquardt / Polynomial
Fit ........................................................... 60, 184
Welcome Dialog box ................................................ 22
Well Summary ......................................................... 88
Westgard
®
rules ..................................................... 114
Wizard
Standard Elements ............................................. 21
Wizard List ............................................................... 17
Workspace Overview ............................................. 109
212 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 2021-11
Trademarks
The following product names and any registered or unregistered trademarks
mentioned in this document are used for identification purposes only and remain
the exclusive property of their respective owners:
• [Product Name]
TM
(infinite
®
)
Tecan
®
and the Tecan Logo are registered trademarks of Tecan Group Ltd.,
Männedorf, Switzerland
• DNA Expert
TM
is a registered trademark of Techcomp Ltd., Hong Kong, China
• Agilent® is a registered trademark of Agilent Technologies, Inc., Santa Clara ,
CA, USA
• AIR LIQUIDE
TM
is a registered trademark of AIR LIQUIDE, S.A., Paris, France
• Aseptisol® is a registered trademark of BODE Chemie GmbH & Co. KG,
Hamburg, Germany
• Bacillol® is a registered trademark of BODE Chemie GmbH & Co. KG,
Hamburg, Germany
• Costar®, Corning® and NBS
TM
are registered trademarks of Corning
Incorporated, Corning, NY, USA
• Greiner®, µClear®, Lumitrac
TM
and Fluotrac
TM
are registered trademarks
of Greiner Labortechnik GmbH, Frickenhausen, Germany
• HTRF® is a registered trademark of Cisbio International, France
• Invitrogen
TM
is a registered trademark of Invitrogen Corporation, Carlsbad, CA,
USA
• Lysetol® and Gigasept® (formerly Lysetol) are registered trademarks of
Schülke & Mayr GmbH, Norderstedt, Germany
• Microcide® is a registered trademark of Global Biotechnologies Inc., Portland,
Maine, USA
• Microman® is a registered trademark of Gilson, Inc., Middleton, WI, USA
• Pentium® is a registered trademark of Intel Corporation, Santa Clara, CA,
USA
• Invitrogen® and PanVera® are registered trademarks of
Invitrogen Corporation Carlsbad, CA, USA
• Windows®, MS DOS®, Visual Basic® and Excel® are registered trademarks
of Microsoft Corporation, Redmond, WA, USA
• Hamamatsu® is a registered trademark of HAMAMATSU Photonics K.K. [IR],
Hamamatsu City, Japan
• NUNC
TM
and Matrix are registered trademarks of Thermo Fisher Scientific,
Waltham, MA, USA
• Polyfiltronics® is a registered trademark of Whatman International Ltd.
• Dynex® is a registered trademark of Magellan Biosciences, Chelmsford, MA,
USA
• Labsystem® is a registered trademark of Labsystem kft., Budapest, Hungary
• BRET
2
®, DeepBlueC® and PerkinElmer® are registered trademarks of
PerkinElmer, Inc., Waltham, Massachusetts, USA
• Chroma-Glo
TM
is a registered trademark of Promega Corporation, Madison,
WI 53711 USA
• MycoAlert® is a registered trademark of Cambrex Corporation, East
Rutherford, NJ, USA
2021-11 Instructions for Use for magellan No. 30143531 Rev. No. 1.4 213
Tecan Customer Support
If you have any questions or need technical support for your Tecan product,
contact your local Tecan Customer Support organization. Go to
http://www.tecan.com/ for contact information.
Prior to contacting Tecan for product support, prepare the following information
for the best possible technical support (see name plate):
• Model name of your product
• Serial number (SN) of your product
• Software and software version (if applicable)
• Description of the problem and contact person
• Date and time when the problem occurred
• Steps that you have already taken to correct the problem
• Your contact information (phone number, fax number, e-mail address, etc.)
End User Software License Agreement
IMPORTANT - READ CAREFULLY: This End-User License Agreement ("EULA") is a legal agreement between you (either an
individual or a legal entity) and Tecan Austria GmbH ("Tecan") for the proprietary software product identified above, which includes
computer software ("SOFTWARE PRODUCT") and may include associated media, printed materials, and "online" or electronic
documentation ("DOCUMENTATION"). This SOFTWARE PRODUCT is made available to you only on the terms and conditions of
this EULA. By installing, copying, or otherwise using the SOFTWARE PRODUCT (whichever occurs first), you agree to be bound by
the terms of this EULA. If you do not agree with the terms of this EULA, you are not authorized to install and/or use the SOFTWARE
PRODUCT.
SOFTWARE PRODUCT LICENSE
The SOFTWARE PRODUCT and the DOCUMENTATION are protected by copyright laws and international copyright treaties, as
well as other intellectual property laws and treaties. The SOFTWARE PRODUCT is licensed, not sold.
1. GRANT OF LICENSE
This EULA grants you the non-exclusive and non-transferable right to use the SOFTWARE PRODUCT in accordance with the
instructions and procedures in the DOCUMENTATION for your own internal purposes only. You may install and use the number of
copies of the SOFTWARE PRODUCT on the number of computers or workstations connected to the number of devices as specified
in the documentation to this EULA in accordance with the software installation procedure described in the documentation.
You may either make one copy of the SOFTWARE PRODUCT solely for archival purposes in support of your use of the
SOFTWARE PRODUCT on a single computer or transfer the SOFTWARE PRODUCT to a single hard disk provided that you keep
the original only for backup or archival purposes. You may not reproduce or distribute the SOFTWARE PRODUCT in any other way,
including rental or leasing.
The SOFTWARE PRODUCT shall be used exclusively with the devices specified in the documentation and must not be used on
any other devices.
2. LICENSE FEE
The license fee for the right to use the SOFTWARE PRODUCT is set forth in the documentation.
3. DESCRIPTION OF OTHER RIGHTS AND LIMITATIONS
You may not reverse engineer, decompile, or disassemble the SOFTWARE PRODUCT, except and only to the extent that such
activity is expressly permitted by applicable law notwithstanding this limitation.
The SOFTWARE PRODUCT is licensed as a single product. Its component parts may not be separated for use on more than one
computer or workstation.
Tecan may provide you with support services related to the SOFTWARE PRODUCT ("SUPPORT SERVICES"). Use of SUPPORT
SERVICES is governed by Tecan's policies and programs described in the user manual, in "online" documentation, and/or in other
materials provided by Tecan. Any supplemental software code provided to you as part of the SUPPORT SERVICES shall be
considered part of the SOFTWARE PRODUCT and subject to the terms and conditions of this EULA. With respect to technical
information, you provide to Tecan as part of the SUPPORT SERVICES, Tecan may use such information for its business purposes,
including for product support and development. Tecan will not utilize such technical information in a form that personally identifies
you.
You may not transfer any of your rights under this EULA without the prior written consent of Tecan to a third party.
Without prejudice to any other rights, Tecan may terminate this EULA if you fail to comply with the terms and conditions of this
EULA. In such event, you may not use the SOFTWARE PRODUCT any longer and you must destroy all copies of the SOFTWARE
PRODUCT and the DOCUMENTATION and all its component parts within a period of fourteen days.
4. COPYRIGHT
All title and copyrights in and to the SOFTWARE PRODUCT (including but not limited to any charts, images, photographs,
animations, video, audio, music, text, and "applets" incorporated into the SOFTWARE PRODUCT), the DOCUMENTATION and any
copies of the SOFTWARE PRODUCT and the DOCUMENTATION are owned by Tecan Austria GmbH or its suppliers and licensed
to Tecan. The SOFTWARE PRODUCT and the DOCUMENTATION are protected by copyright laws and international treaty
provisions. Therefore, you must treat the SOFTWARE PRODUCT and the DOCUMENTATION like any other copyright protected
material.
5. TERMS AND CONDITIONS FOR USE
Use of the SOFTWARE PRODUCT shall be subject to compliance with the following terms and conditions relating thereto:
- The SOFTWARE PRODUCT shall be used exclusively on devices specified in the documentation;
- only the latest version of the SOFTWARE PRODUCT shall be used;
- the SOFTWARE PRODUCT shall not be modified nor caused to be modified.
It shall be your responsibility to personally effect any requisite declarations to the authorities with a view to using SOFTWARE
PRODUCTS.
6. PRECAUTIONS OF USE
Before being commercialized, the SOFTWARE PRODUCT underwent a series of tests to measure the reliability of results obtained.
However, taking into account the high number of possible applications for which the SOFTWARE PRODUCT can be used, it has not
been possible to carry out said tests in a real work situation.
The contracting parties agree that it is not possible in practice to produce data processing programs which will be 100% suitable for
all applications.
Therefore, you are strongly advised to verify and to validate results obtained before using the SOFTWARE PRODUCT in a real
work situation every time it is used in a new application.
Should there be any doubt as to the results, or in the case of erroneous results, you are requested to immediately contact Tecan.
For the perfect use of SOFTWARE PRODUCTS, you are reminded that:
- You must have the requisite knowledge;
- you must, in a regular fashion, write-protect and backup, in particular, to protect the data files from incidents such as deletion,
overwriting, virus infection, etc.
7. LIMITED WARRANTY
The SOFTWARE PRODUCT is under warranty for a period of 90 days as of the date of delivery thereof.
During said period, Tecan shall use reasonable efforts to deliver, as quickly as possible and by any means it chooses an updated
version or a copy of the said version of the program free of any significant defect appeared.
The provisions mentioned above determine the extent of the warranty granted to you.
Note on Java Support. The SOFTWARE PRODUCT may contain support for programs written in Java. Java technology is not fault
tolerant and is not designed, manufactured, or intended for use or resale as online control equipment in hazardous environments
requiring fail-safe performance, such as in the operation of nuclear facilities, aircraft navigation or communication systems, air traffic
control, direct life support machines, or weapons systems, in which the failure of Java technology could lead directly to death,
personal injury, or severe physical or environmental damage. Sun Microsystems, Inc. requires the addition of this disclaimer.
8. RESTRICTED LIABILITY
Tecan shall be subject to an undertaking to exercise due-care.
Said undertaking shall concern the supply of the software conforming to the functionalities described in the documentation thereof,
no guarantee whatsoever being given either with regard to results obtained or the fitness of the SOFTWARE PRODUCT for your
purposes.
You shall be solely liable for the use of the SOFTWARE PRODUCT and results obtained. In particular, you shall be responsible for
verifying the contents and the consistency thereof, as the SOFTWARE PRODUCT shall be used under your sole management,
control and responsibility.
TECAN SHALL NOT BE HELD LIABLE FOR ANY INDIRECT OR CONSEQUENTIAL DAMAGES OR ANY LOSS OF PROFIT,
SHORTFALL IN EARNINGS OR LOSS OF DATA INCURRED BY YOU EVEN IF TECAN HAS BEEN INFORMED THAT THE SAID
LOSS OR PREJUDICE COULD OCCUR.
The SOFTWARE PRODUCT has undergone an anti-virus test. However, Tecan shall not be liable should a virus be present that
was undetectable by the anti-virus utility used to run the test mentioned above.
SHOULD FOR ANY REASON WHATSOEVER, TECAN BE HELD LIABLE BY THE COURTS, THE AMOUNT OF ANY DAMAGES
EFFECTIVELY OWED AND ORDERED TO BE PAID SHALL, WITH THE EXCEPTION OF INTENTIONAL MISCONDUCT OR
GROSS NEGLIGENCE, NOT EXCEED THE TOTAL AMOUNT OF THE SUMS RECEIVED BY TECAN BY VIRTUE OF THE
PRESENT EULA.
9. CONFIDENTIALITY
You hereby acknowledge and agree that you will not disclose the SOFTWARE PRODUCT and the DOCUMENTATION to any of
your employees (except to those responsible for the application) or to any third party without the prior written consent of Tecan and
that this duty of confidentiality survives the term of this EULA. You will safeguard the SOFTWARE PRODUCT and the
DOCUMENTATION with the highest degree of care.
10. TERMINATION
If you fail to comply with any of your obligations hereunder, Tecan shall have the right, at any time, to terminate the EULA and take
immediate possession of the SOFTWARE PRODUCT and the DOCUMENTATION and of all copies wherever located without
demand or notice.