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Release notes:
======== E-CELL2.20 beta release note in English ====
date : Aug. 3. 2002
version : 2.20 beta
author of this document : Mitsui Knowledge Industry Co., Ltd.
Bioscience Division
*** Contents of this distribution :
*standard directory
* SRCC directory --- C++ source files of the core
* SRCJ directory --- Java source files of the GUI
* SRCR directory --- standard-reactor source files
* STDR directory --- standard-reactor description files
* GLIB directory --- index and get option files
* DLLR directory --- dll files for the GUI mode of standard reactors
* DLLRB directory --- dll files for the batch mode of standard reactors
* WIN-BCC directory --- Core binary executables and Borland C++ Makefile
* ECELL directory --- Java class files for GUI
* SAMPLE directory --- rule templates and sample spread sheets,rule files and script files
* buildr.bat --- the batch file to build Reactor source files
* ecellstart.bat --- the start-up batch file for the shortcut from the desktop
* sample.eri --- sample rule file (Toy model)
* simple.eri --- sample rule file (simple model)
* sample.ecs --- sample script file (Toy model)
* simple.ecs --- sample script file (simple model)
* Ecanim2.gif --- E-CELL's logo (animated GIF file)
* ECELL2.BAT --- the start-up batch file for the GUI mode
* ECELL2B.BAT --- the start-up batch file for the batch mode
*erythrocyte directory
* SRCC directory --- C++ source files of the core
* SRCJ directory --- Java source files of the GUI
* GLIB directory --- index and get option files
* DLLR directory --- dll files for the GUI mode of erythrocyte model reactors
* DLLRB directory --- dll files for the batch mode of erythrocyte model reactors
* WIN-BCC directory --- Core binary executables and Borland C++ Makefile
* ECELL directory --- Java class files for the GUI
* Erythrocyte_v236.eri --- erythrocyte model rule file
* default.ecs --- sample script file (for running automatically)
* ALL.ecs --- sample script file (whole metabolic pathway for the erythrocyte model)
* NM.ecs --- sample script file (nucleotide metabolism)
* PPP.ecs --- sample script file (pentose phosphate pathway)
* Gly.ecs --- sample script file (glycolysis)
* Ecanim2.gif --- E-CELL's logo (animated GIF file)
* ECELL2.BAT --- the start-up batch file for GUI mode
* ECELL2B.BAT --- the start-up batch file for batch mode
*tools directory
* reactor directory --- the Perl scripts to convert reactor description files to
reactor source files (rd2ch)
* rule directory --- the binary executables and Perl scripts to convert
row rule files to executable rule files (ss2er?Aer2eri)
*** Verified environments to run :
* MS-Windows 98
* MS-Windows NT4.0
* MS-Windows 2000
* MS-Windows XP
*** System requirements :
Java(TM) 2 Runtime Environment (J2RE): 1.3.0_02 is recommended.
Cygwin(TM) 2.78 or newer (Perl 5.6 or newer)
Borland C++ Compiler 5.5.1 or Borland C++ Builder 5
(It does not correspond to Borland C++ Builder 6 and Microsoft Visual C++ 6)
*** How to install and run the software :
* Please refer to an attached manual (IndexE.html).
*** Copyright and license :
Copyright (C) 1996-2002 Keio University
Copyright (C) 1998-2002 Japan Science and Technology Corporation (JST)
Copyright (C) 2000-2002 Mitsui Knowledge Industry Co., Ltd. Bioscience Division
GNU General Public License
*** Developers :
* E-CELL 1 core : Kouichi TAKAHASHI
* E-CELL 1 GUI : Kouichi TAKAHAHI and Naota ISHIKAWA
* E-CELL 2 core improved parts : Naota ISHIKAWA
* E-CELL 2 GUI : Mitsui Knowledge Industry Co., Ltd. Bioscience Division
http://bio.mki.co.jp/ (Only in Japanese)
*** Improvement : ECD file generated by the tracer :
An ECD file generated by E-CELL1 contains only the total running time and the present time,
while an ECD file generated by E-CELL2 contains the maximum, mean, and minimum values in addition.
*** Improvement : logger function is mounted:
The logger function, which performs a simulation without displaying any Tracer window, is mounted in E-CELL2
*** Improvement : Batch mode is mounted:
The batch mode which performs a simulation at high speed without displaying GUI is mounted in E-CELL2
*** Restriction : Operation during simulation execution:
In E-CELL2.20beta, if it operates closing Tracer during simulation execution (a control panel being the Run state), a system may fall rarely. Please perform operation in the Stop state as much as possible.
*** Restriction : Initial value of .ecd files:
In E-CELL2.20beta, the initial value may not be saved at .ecd files which Tracer and Logger output.
*** Restriction : Initial value of Reactor window:
In E-CELL2.20beta, a different value may be displayed on the initial value of Reactor window. The right value will be displayed if simulation is performed.
*** Other resources :
* A user's manual
* Latest source codes for the E-CELL2
* Binary executables of the E-CELL2.0 or later
The items above can be downloaded at the following URL:
http://bioinformatics.org/project/?group_id=49
*** Acknowledgments :
This work is also supported in part by Japan Science and Technology Corporation (JST), The Ministry of Agriculture, Forestry and Fisheries of Japan (Rice Genome Project SY-2103), and New Energy and Industrial Technology Development Organization (NEDO) of the Ministry of Economy, Trade and Industry of Japan.
======== end of release note ========
Changelog:
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