Install CellDesigner
The current release is distributed in archived installer package for each operating system.
Windows: CellDesigner-4.0beta-windows-installer.exe
MacOSX: CellDesigner-4.0beta-osx-installer.zip
Linux: CellDesigner-4.0beta-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.
Windows:
• Double click CellDesigner-4.0beta-windows-installer.exe.
The installer window should open, and follow the message therein.
MacOSX:
• Double click CellDesigner-4.0beta-osx-installer.zip.
• The compressed installer should be recognized by Stuffit Expander and should automatically be expanded to CellDesigner-4.0beta-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-4.0beta-linux-installer.bin
% ./CellDesigner-4.0beta-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]
--------------------------------
After installation finished, you would see the following directories/files in the installation directory (CellDesigner4.0beta by default).+00README.txt this document
|
+CellDesigner4.0beta.exe executable application module (* Windows only)
+CellDesigner4.0beta.sh executable application module (* Linux only)
+CellDesigner4.0beta executable application module (* MacOSX only)
|
+documents/
| +startupguide40B.pdf
| +controlpanel40.pdf
| +plugintutorial40B.pdf
| +plugin/
| +index.html Plug-in document
|
+exec/
| +celldesigner.jar
|
+jre (1.5.0) *(Windows, Linux only)
|
+lib
+lib
| +avalon-framework-4.1.4.jar
| +batik.jar
| +browserlauncher.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
| +xercesImpl.jar
| +xml-apis.jar
|
+libsbml.dll (* Windows only)
+msvcp71.dll (* Windows only)
+msvcr71.dll (* Windows only)
+sbmlj.dll (* Windows only)
+SODE.dll (* Windows only)
+xerces-c_2_7.dll (* Windows only)
|
+libSODE.so (* Linux only)
+libsbml.so (* Linux only)
+libsbmlj.so (* Linux only)
+libxerces-c.so.27 (* Linux only)
|
+libsbml.dylib (* MacOSX only)
+libsbmlj.jnilib (* MacOSX only)
+libSODE.jnilib (* MacOSX only)
+libxerces-c.27.dylib (* MacOSX only)
|
+licenses/
| +celldesigner/
| +license.txt
| +libraries/
| +avalon-framework.LICENSE.txt
| +avalon-framework.NOTICE.TXT
| +batik.LICENSE.txt
| +batik.NOTICE.txt
| +commons-io.LICENSE.txt
| +commons-io.NOTICE.txt
| +commons-logging.LICENSE.txt
| +commons-logging.NOTICE.txt
| +fop.LICENSE.txt
| +fop.NOTICE.txt
| +jai.LICENSE.txt
| +jfreechart.LICENSE.txt
| +libsbml.LICENSE.txt
| +mrjadapter.LICENSE.txt
| +serializer.LICENSE.txt
| +serializer.NOTICE.txt
| +xalan.BCEL.LICENSE.txt
| +xalan.LICENSE.txt
| +xalan.NOTICE.txt
| +xalan.regexp.LICENSE.txt
| +xalan.runtime.LICENSE.txt
| +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
| +xmlgraphics-commons.LICENSE.txt
| +xmlgraphics-commons.NOTICE.txt
|
+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.
| +simulation.xml sample for simulation
| +sim1.xml sample for simulation
| +sim2.xml sample for simulation
|
| +notation/ sample files for notation
| +Complex40.xml
| +geneRNA40.xml
| +ReactionShape.xml
|
| +NBT/ sample files used in Nature Biotech paper by Kitano.
| +CD3files/
| +Fig1b_ProcessDiagram_3.xml
| +Fig3abcd_AndOr_3.xml
| +Fig3e_EGFR_league_3.xml
| +SuplFig2_GPCR beta2-AR_3.xml
| +SuplFig3_NF-kappaB(p65+p50)_3.xml
| +SuplFig4a_TranscriptionTranslation_3.xml
| +SuplFig4b_transcription_3.xml
| +SuplFig5_StructureofComplex_3.xml
| +SuplFig7_M-Phase_3.xml
|
| +CD4files/
| +Fig1b_ProcessDiagram_4.xml
| +Fig3abcd_AndOr_4.xml
| +Fig3e_EGFR_league_4.xml
| +SuplFig2_GPCR beta2-AR_4.xml
| +SuplFig3_NF-kappaB(p65+p50)_4.xml
| +SuplFig4a_TranscriptionTranslation_4.xml
| +SuplFig4b_transcription_4.xml
| +SuplFig5_StructureofComplex_4.xml
| +SuplFig7_M-Phase_4.xml
|
| +plugin/ sample plugin source files and jar files
| +src/
| +plugin/
| +sample1/
| +sample2/
| +jar/
| +sample_plugin.jar
|
+plugin/ compiled plugin jar files are added in this directory
|
+mmlctop2_0.xsl
+uninstall.exe uninstaller (* Windows only)
+uninstall uninstaller (* Linux only)
+Uninstaller uninstaller (* MacOSX only)
