Install CellDesigner
The current release is distributed in archived installer package for each operating system.
- Windows: CellDesigner-401-windows-installer.exe
- MacOSX: CellDesigner-4.0.1-osx-installer.zip
- Linux: CellDesigner-4.0.1-linux-installer.bin
* While J2RE is required for CellDesigner to run, the installers include it. Therefore, you do not need to download or install J2RE.
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If you encounter the following error when you start CellDesigner on Windows platform "Javaw.exe - entry point not found." This error occurs when you have installed different libsbml on your Windows. Both CellDesigner 4.0 uses libsbml-3. To solve this problem, there are 2 ways as follows:
If both of them didn't work for you, please also check whether you have xerces-c_2_7.dll under C:\Windows\systems32. If so, please remove the dll and restart CellDesigner. |
Download the one for your operating system and follow instructions provided in 00READEME.txt or Startup Guide to install CellDesigner for each environment.
Windows:
• Double click CellDesigner-401-windows-installer.exe.
The installer window should open, and follow the message therein.
MacOSX:
• Double click CellDesigner-4.0.1-osx-installer.zip.
• The compressed installer should be recognized by Stuffit Expander and should automatically be expanded to CellDesigner-4.0.1-osx-installer.
Then double click it.
The installer window should open, and follow the message therein.
Linux:
1. Open a shell and, cd to the directory where you downloaded the installer.
2. At the prompt type:
• Open a shell and, cd to the directory where you downloaded the installer.
• At the prompt type:
% chmod u+x CellDesigner-4.0.1-linux-installer.bin
% ./CellDesigner-4.0.1-linux-installer.bin
The installer window should open, and follow the message therein.
If you have installed SBW, set the path to the SBW library.
After installation finished, you would see the following directories/files in the installation directory ( CellDesigner by default).
[Installed File Images]
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After installation finished, you would see the following directories/files in the installation directory (CellDesigner4.0.1 by default).+00README.txt
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+CellDesigner4.0.exe executable application module (* Windows only)
+CellDesigner4.0.sh executable application module (* Linux only)
+CellDesigner4.0 executable application module (* Mac OS X only)
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+/documents
| +ControlPanel40.pdf quick tutorial for control panel
| +PluginTutorial40.pdf quick tutorial for plug in
| +StartupGuide40.pdf this document
| +/plugin
| +index.html Plug-in document
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+/exec
| +autolayout_yobf.jar
| +celldesigner.jar library for CellDesigner application
| +yObf.jar
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+/jre (1.5.0) *(Windows, Linux only)
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+/lib
| +avalon-framework-4.1.4.jar
| +batik.jar
| +browserlauncher.jar
| +copasi.jar
| +copasi_gui.jar
| +freehep-export-2.0.3.jar
| +freehep-graphics2d-2.0.jar
| +freehep-graphicsio-2.0.jar
| +freehep-graphicsio-ps-2.0.jar
| +freehep-io-2.0.1.jar
| +freehep-swing-2.0.2.jar
| +freehep-util-2.0.1.jar
| +itext-1.4.6.jar
| +jai_codec.jar
| +jai_core.jar
| +jcommon-1.0.0-pre2.jar
| +jeuclid-2.0.jar
| +jfreechart-1.0.0-pre2.jar
| +mlibwrapper_jai.jar
| +MRJAdapter.jar
| +openide-lookup-1.9-patched-1.0.jar
| +quaqua-filechooser-only.jar
| +sbmlj.jar
| +SBWCore.jar
| +SOSlib.jar
| +xercesImpl.jar
| +xml-apis.jar
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+libexpat.dll *(Windows only)
+libsbml.dll *(Windows only)
+sbmlj.dll *(Windows only)
+SOSlibJava.dll *(Windows only)
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+libexpat.so.1 *(Linux only)
+libexpat.1.dylib *(Linux only)
+libsbml.so *(Linux only)
+libsbmlj.so *(Linux only)
+libSOSlib.so *(Linux only)
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+libexpat.1.dylib *(Mac OS X only)
+libquaqua.jnilib *(Mac OS X only)
+libsbml.dylib *(Mac OS X only)
+libsbmlj.jnilib *(Mac OS X only)
+libSOSlibJava.jnilib *(Mac OS X only)
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+/licenses
| +/celldesigner
| +license.txt
| +/libraries
| +batik.LICENSE.txt
| +batik.NOTICE.txt
| +FreeHEP.LGPL.txt
| +FreeHEP.LICENSE.txt
| +itext-MPLICENSE.txt
| +jai.LICENSE.txt
| +jfreechart.LICENSE.txt
| +libsbml.LICENSE.txt
| +mrjadapter.LICENSE.txt
| +quaqua.LICENSE.html
| +xerces.LICENSE.txt
| +xercesImpl.LICENSE.txt
| +xercesImpl.NOTICE.txt
| +xml-apis.LICENSE-SAX.html
| +xml-apis.LICENSE.DOM-documentation.html
| +xml-apis.LICENSE.DOM-software.html
| +xml-apis.LICENSE.txt
| +xml-apis.NOTICE.txt
| +yfiles-3rdPartyLicenses.html
| +yfiles-GeneralLicenseTerms.html
| +yfiles-GeneralTermsandConditions.html
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+/Microsoft.VC80.CRT *(Windows only)
| +Microsoft.VC80.CRT.manifest
| +msvcm80.dll
| +msvcp80.dll
| +msvcr80.dll
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+/plugin compiled plugin jar files are added in this directory
| +MappingArrayMass_plugin.jar
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+/samples
| +components40.xml sample for various components
| +database.xml sample for database connections
| +M-Phase.xml sample for model editing
| +M-Phase2.xml sample for model editing
| +Macros.xml sample for macros
| +MAPK.xml sample for simulation provided by SBML ODE Solver
| +sim1.xml
| +sim2.xml
| +simulation.xml sample for simulation
| +/nbt sample files used in Nature Biotech paper by Kitano
| +/notation sample files for notation
| +/plugin sample source and jar files for plugin
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+ mmlctop2_0.xsl
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+uninstall.exe *(Windows only)
+uninstall *(Linux only)
+Uninstaller *(Mac OS X only)
