From: <mh...@us...> - 2011-11-08 00:37:31
|
Revision: 14788 http://sbml.svn.sourceforge.net/sbml/?rev=14788&view=rev Author: mhucka Date: 2011-11-08 00:37:25 +0000 (Tue, 08 Nov 2011) Log Message: ----------- Added another common text fragment file. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2011-11-08 00:35:35 UTC (rev 14787) +++ trunk/libsbml/docs/src/Makefile.in 2011-11-08 00:37:25 UTC (rev 14788) @@ -130,6 +130,7 @@ common-text/id-syntax.html \ common-text/level-1-uses-text-string-math.html \ common-text/libsbml-version.html.in \ + common-text/libsbml-facility-only-warning.html \ common-text/math-functions.html \ common-text/math-precedence-table.html \ common-text/not-sbml-warning.html \ This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2011-11-11 02:16:24
|
Revision: 14838 http://sbml.svn.sourceforge.net/sbml/?rev=14838&view=rev Author: mhucka Date: 2011-11-11 02:16:17 +0000 (Fri, 11 Nov 2011) Log Message: ----------- Fixed a small bug in a sed invocation. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2011-11-11 01:57:51 UTC (rev 14837) +++ trunk/libsbml/docs/src/Makefile.in 2011-11-11 02:16:17 UTC (rev 14838) @@ -527,7 +527,7 @@ endef define insert_javascript - sed -i -e 's:<SCRIPT type="text/javascript">:<script type="text/javascript" src="../../../sbml.js"></script><SCRIPT type="text/javascript">:g' $(wildcard $(1)/*.html) + sed -i "" -e 's:<SCRIPT type="text/javascript">:<script type="text/javascript" src="../../../sbml.js"></script><SCRIPT type="text/javascript">:g' $(wildcard $(1)/*.html) endef # Compile the ExcludeDoclet class file if needed. This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2011-11-29 02:27:26
|
Revision: 14936 http://sbml.svn.sourceforge.net/sbml/?rev=14936&view=rev Author: mhucka Date: 2011-11-29 02:27:20 +0000 (Tue, 29 Nov 2011) Log Message: ----------- Remove .class files generated when creating the documentation doclet. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2011-11-29 02:25:50 UTC (rev 14935) +++ trunk/libsbml/docs/src/Makefile.in 2011-11-29 02:27:20 UTC (rev 14936) @@ -106,7 +106,8 @@ doxygen-config-matlab.txt \ doxygen-config-octave.txt \ doxygen-config-perl.txt \ - doxygen-config-python.txt + doxygen-config-python.txt \ + *.class # The `make dist' rules for this directory are more complicated than usual. # There are additional separate rules below. This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2011-12-12 22:44:52
|
Revision: 14988 http://sbml.svn.sourceforge.net/sbml/?rev=14988&view=rev Author: mhucka Date: 2011-12-12 22:44:46 +0000 (Mon, 12 Dec 2011) Log Message: ----------- Implemented a method of adding missing documentation for Python. It's the same idea as used for Java: have a set of files that are used in place of what is used by SWIG, so that the files can contain docs that SWIG ignores. However, a difference from the Java case is that the files don't get read individually; instead, they are appended to a copy of the libsbml.py file that gets fed to Doxygen. When the classes are meant to override something that is already in libsbml.py, the first instances must be removed, so that the docs in the end don't end up with doubled entries. The script pythondocsubstituter.py is used to accomplish all this. The directives for the python docs in Makefile.in drive the process. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2011-12-12 22:40:35 UTC (rev 14987) +++ trunk/libsbml/docs/src/Makefile.in 2011-12-12 22:44:46 UTC (rev 14988) @@ -107,6 +107,7 @@ doxygen-config-octave.txt \ doxygen-config-perl.txt \ doxygen-config-python.txt \ + libsbml.py \ *.class # The `make dist' rules for this directory are more complicated than usual. @@ -268,6 +269,7 @@ plain-font-off.html \ plain-font-on.html \ pythondocfilter.py \ + pythondocsubstituter.py \ search.css \ search.png \ sbml.js \ @@ -432,10 +434,12 @@ $(call postprocess_doxygen,$(c-manual)) ifdef USE_PYTHON -python-sources = ../../src/bindings/python/libsbml.py +python-sources = ../../src/bindings/python/libsbml.py +python-subst-dir = python-substitutions python-manual $(python-manual): doxygen-config-python.txt $(python-sources) mkdir -p $(python-manual) + ./pythondocsubstituter.py $(python-sources) libsbml.py $(wildcard $(python-subst-dir)/*.py) $(DOXYGEN) doxygen-config-python.txt $(call postprocess_doxygen,$(python-manual)) endif This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2011-12-17 20:23:26
|
Revision: 15076 http://sbml.svn.sourceforge.net/sbml/?rev=15076&view=rev Author: mhucka Date: 2011-12-17 20:23:20 +0000 (Sat, 17 Dec 2011) Log Message: ----------- 1) Added sed command to remove width and height attributes from the tree.html file created by Doxygen. 2) Added ftv* graphics files to the list of dist files. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2011-12-17 20:01:00 UTC (rev 15075) +++ trunk/libsbml/docs/src/Makefile.in 2011-12-17 20:23:20 UTC (rev 15076) @@ -115,7 +115,7 @@ distfiles = \ DoxygenLayout.xml \ - SBMLDoclet.java \ + SBMLDoclet.java \ Makefile.in \ common-text/L1-math-syntax-warning.html \ common-text/about-sbml-units-attrib.html \ @@ -148,57 +148,60 @@ common-text/string-functions-table.html \ common-text/unassigned-units-are-not-a-default.html \ common-text/unitid-syntax.html \ - common-text/unitkind-table.html \ - common-text/warn-default-args-in-docs.html \ - common-text/xmlid-syntax.html \ - csdocfilter.py \ - doxygen-base.css \ - doxygen-config-c.txt.cmake \ - doxygen-config-c.txt.in \ - doxygen-config-common.txt \ - doxygen-config-common.txt.cmake \ - doxygen-config-cpp.txt.cmake \ - doxygen-config-cpp.txt.in \ - doxygen-config-csharp.txt.in \ - doxygen-config-matlab.txt.in \ - doxygen-config-octave.txt.in \ - doxygen-config-perl.txt.cmake \ - doxygen-config-perl.txt.in \ - doxygen-config-python.txt.cmake \ - doxygen-config-python.txt.in \ - doxygen-footer.html \ - doxygen-header.html \ - doxygen-tabs.css \ - doxygen-tree.css \ - examples/readmath.cpp \ - examples/readSBML.java \ - examples/simpleread.cpp \ - force-serif-font-off.html \ - force-serif-font-on.html \ - graphics/astnode-illustration.jpg \ - graphics/built-in-units.jpg \ - graphics/cmake-configure-macos.png \ - graphics/cmake-configure-windows.png \ - graphics/cmake-empty-screenshot.png \ - graphics/cmake-empty-windows.png \ - graphics/cmake-options-red-windows.png \ - graphics/cmake-options-red.png \ - graphics/compartment-size.jpg \ - graphics/enzymatic-reaction.jpg \ - graphics/hellojsp-screenshot.png \ - graphics/listof-illustration.jpg \ - graphics/math-formula-precedence.jpg \ - graphics/math-string-functions.jpg \ - graphics/official-sbml-supported-40.jpg \ - graphics/right-arrow.gif \ - graphics/sbase-species.eps \ - graphics/sbase-species.pdf \ - graphics/sbase-species.vthought \ - graphics/sbase.eps \ - graphics/sbase.pdf \ - graphics/sbase.vtt \ - graphics/solution-explorer-windows.png \ - graphics/species-boundarycondition.jpg \ + common-text/unitkind-table.html \ + common-text/warn-default-args-in-docs.html \ + common-text/xmlid-syntax.html \ + csdocfilter.py \ + doxygen-base.css \ + doxygen-config-c.txt.cmake \ + doxygen-config-c.txt.in \ + doxygen-config-common.txt \ + doxygen-config-common.txt.cmake \ + doxygen-config-cpp.txt.cmake \ + doxygen-config-cpp.txt.in \ + doxygen-config-csharp.txt.in \ + doxygen-config-matlab.txt.in \ + doxygen-config-octave.txt.in \ + doxygen-config-perl.txt.cmake \ + doxygen-config-perl.txt.in \ + doxygen-config-python.txt.cmake \ + doxygen-config-python.txt.in \ + doxygen-footer.html \ + doxygen-header.html \ + doxygen-tabs.css \ + doxygen-tree.css \ + examples/readmath.cpp \ + examples/readSBML.java \ + examples/simpleread.cpp \ + force-serif-font-off.html \ + force-serif-font-on.html \ + graphics/astnode-illustration.jpg \ + graphics/built-in-units.jpg \ + graphics/cmake-configure-macos.png \ + graphics/cmake-configure-windows.png \ + graphics/cmake-empty-screenshot.png \ + graphics/cmake-empty-windows.png \ + graphics/cmake-options-red-windows.png \ + graphics/cmake-options-red.png \ + graphics/compartment-size.jpg \ + graphics/enzymatic-reaction.jpg \ + graphics/ftv2doc.png \ + graphics/ftv2folderclosed.png \ + graphics/ftv2folderopen.png \ + graphics/hellojsp-screenshot.png \ + graphics/listof-illustration.jpg \ + graphics/math-formula-precedence.jpg \ + graphics/math-string-functions.jpg \ + graphics/official-sbml-supported-40.jpg \ + graphics/right-arrow.gif \ + graphics/sbase-species.eps \ + graphics/sbase-species.pdf \ + graphics/sbase-species.vthought \ + graphics/sbase.eps \ + graphics/sbase.pdf \ + graphics/sbase.vtt \ + graphics/solution-explorer-windows.png \ + graphics/species-boundarycondition.jpg \ graphics/species-hasonlysubstance.jpg \ graphics/species.eps \ graphics/species.pdf \ @@ -425,6 +428,7 @@ sed -is 's/libSBML MATLAB Public API //' $(1)/tree.html;\ sed -is 's/libSBML Octave Public API //' $(1)/tree.html;\ fi + sed -i.bak -e 's/height="[0-9]*"//g;s/width="[0-9]*"//g' $(1)/tree.html endef cpp-manual $(cpp-manual): doxygen-config-cpp.txt $(core-sources) This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2011-12-18 04:42:53
|
Revision: 15083 http://sbml.svn.sourceforge.net/sbml/?rev=15083&view=rev Author: mhucka Date: 2011-12-18 04:42:47 +0000 (Sun, 18 Dec 2011) Log Message: ----------- Forgot to change the name of pythondocsubstituter.py in here. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2011-12-18 03:06:47 UTC (rev 15082) +++ trunk/libsbml/docs/src/Makefile.in 2011-12-18 04:42:47 UTC (rev 15083) @@ -276,7 +276,7 @@ plain-font-off.html \ plain-font-on.html \ pythondocfilter.py \ - pythondocsubstituter.py \ + pythondocpreprocessor.py \ search.css \ search.png \ sbml.js \ @@ -447,7 +447,7 @@ python-manual $(python-manual): doxygen-config-python.txt $(python-sources) mkdir -p $(python-manual) - ./pythondocsubstituter.py $(python-sources) libsbml.py $(wildcard $(python-subst-dir)/*.py) + ./pythondocpreprocessor.py $(python-sources) libsbml.py $(wildcard $(python-subst-dir)/*.py) $(DOXYGEN) doxygen-config-python.txt $(call postprocess_doxygen,$(python-manual)) endif This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2011-12-19 05:30:51
|
Revision: 15096 http://sbml.svn.sourceforge.net/sbml/?rev=15096&view=rev Author: mhucka Date: 2011-12-19 05:30:44 +0000 (Mon, 19 Dec 2011) Log Message: ----------- Used sed to hack the finished html output from doxygen to adjust the width of the table of contents frame. Doxygen doesn't appear to provide direct control over that, hence the need to munge the final html. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2011-12-19 05:29:28 UTC (rev 15095) +++ trunk/libsbml/docs/src/Makefile.in 2011-12-19 05:30:44 UTC (rev 15096) @@ -429,6 +429,7 @@ sed -is 's/libSBML Octave Public API //' $(1)/tree.html;\ fi sed -i.bak -e 's/height="[0-9]*"//g;s/width="[0-9]*"//g' $(1)/tree.html + sed -i.bak -e 's/frameset cols="225/frameset cols="210/' $(1)/index.html endef cpp-manual $(cpp-manual): doxygen-config-cpp.txt $(core-sources) This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2012-01-12 21:05:55
|
Revision: 15227 http://sbml.svn.sourceforge.net/sbml/?rev=15227&view=rev Author: mhucka Date: 2012-01-12 21:05:49 +0000 (Thu, 12 Jan 2012) Log Message: ----------- Updated copyright dates to 2012. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2012-01-12 21:05:38 UTC (rev 15226) +++ trunk/libsbml/docs/src/Makefile.in 2012-01-12 21:05:49 UTC (rev 15227) @@ -7,7 +7,7 @@ ## This file is part of libSBML. Please visit http://sbml.org for more ## information about SBML, and the latest version of libSBML. ## -## Copyright (C) 2009-2011 jointly by the following organizations: +## Copyright (C) 2009-2012 jointly by the following organizations: ## 1. California Institute of Technology, Pasadena, CA, USA ## 2. EMBL European Bioinformatics Institute (EBML-EBI), Hinxton, UK ## This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2012-02-10 01:04:41
|
Revision: 15412 http://sbml.svn.sourceforge.net/sbml/?rev=15412&view=rev Author: mhucka Date: 2012-02-10 01:04:35 +0000 (Fri, 10 Feb 2012) Log Message: ----------- Changed the file used to store doxygen-style documentation strings in the python library. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2012-02-10 01:03:40 UTC (rev 15411) +++ trunk/libsbml/docs/src/Makefile.in 2012-02-10 01:04:35 UTC (rev 15412) @@ -443,7 +443,7 @@ $(call postprocess_doxygen,$(c-manual)) ifdef USE_PYTHON -python-sources = ../../src/bindings/python/libsbml.py +python-sources = ../../src/bindings/python/libsbml-doxygen.py python-subst-dir = python-substitutions python-manual $(python-manual): doxygen-config-python.txt $(python-sources) This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <fbe...@us...> - 2012-02-10 23:16:16
|
Revision: 15439 http://sbml.svn.sourceforge.net/sbml/?rev=15439&view=rev Author: fbergmann Date: 2012-02-10 23:16:10 +0000 (Fri, 10 Feb 2012) Log Message: ----------- - added new files Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2012-02-10 22:25:18 UTC (rev 15438) +++ trunk/libsbml/docs/src/Makefile.in 2012-02-10 23:16:10 UTC (rev 15439) @@ -143,12 +143,17 @@ common-text/sbmlerror-table.html \ common-text/simple-ast.graffle \ common-text/simple-ast.svg \ + common-text/rules-additional-restrictions.html \ + common-text/rules-additional-restrictions.txt \ + common-text/rules-general-summary.html \ + common-text/rules-general-summary.txt \ common-text/species-boundarycondition.html \ common-text/species-hasonlysubstance.html \ common-text/string-functions-table.html \ common-text/unassigned-units-are-not-a-default.html \ common-text/unitid-syntax.html \ common-text/unitkind-table.html \ + common-text/unitkind-table.txt \ common-text/warn-default-args-in-docs.html \ common-text/xmlid-syntax.html \ csdocfilter.py \ @@ -190,6 +195,7 @@ graphics/ftv2folderopen.png \ graphics/hellojsp-screenshot.png \ graphics/listof-illustration.jpg \ + graphics/listof-illustration.txt \ graphics/math-formula-precedence.jpg \ graphics/math-string-functions.jpg \ graphics/official-sbml-supported-40.jpg \ This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2012-02-11 19:39:32
|
Revision: 15458 http://sbml.svn.sourceforge.net/sbml/?rev=15458&view=rev Author: mhucka Date: 2012-02-11 19:39:25 +0000 (Sat, 11 Feb 2012) Log Message: ----------- 1) Missing python-substitutions directory from distribution. 2) Let's not try to build the C docs for now. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2012-02-11 19:24:30 UTC (rev 15457) +++ trunk/libsbml/docs/src/Makefile.in 2012-02-11 19:39:25 UTC (rev 15458) @@ -66,7 +66,7 @@ # so doesn't require doxygen). ifneq "$(USE_DOXYGEN)" "" - docs = $(cpp-manual) $(c-manual) + docs = $(cpp-manual) # $(c-manual) Skip C because it's so out of date. else docs = endif @@ -152,62 +152,62 @@ common-text/string-functions-table.html \ common-text/unassigned-units-are-not-a-default.html \ common-text/unitid-syntax.html \ - common-text/unitkind-table.html \ - common-text/unitkind-table.txt \ - common-text/warn-default-args-in-docs.html \ - common-text/xmlid-syntax.html \ - csdocfilter.py \ - doxygen-base.css \ - doxygen-config-c.txt.cmake \ - doxygen-config-c.txt.in \ - doxygen-config-common.txt \ - doxygen-config-common.txt.cmake \ - doxygen-config-cpp.txt.cmake \ - doxygen-config-cpp.txt.in \ - doxygen-config-csharp.txt.in \ - doxygen-config-matlab.txt.in \ - doxygen-config-octave.txt.in \ - doxygen-config-perl.txt.cmake \ - doxygen-config-perl.txt.in \ - doxygen-config-python.txt.cmake \ - doxygen-config-python.txt.in \ - doxygen-footer.html \ - doxygen-header.html \ - doxygen-tabs.css \ - doxygen-tree.css \ - examples/readmath.cpp \ - examples/readSBML.java \ - examples/simpleread.cpp \ - force-serif-font-off.html \ - force-serif-font-on.html \ - graphics/astnode-illustration.jpg \ - graphics/built-in-units.jpg \ - graphics/cmake-configure-macos.png \ - graphics/cmake-configure-windows.png \ - graphics/cmake-empty-screenshot.png \ - graphics/cmake-empty-windows.png \ - graphics/cmake-options-red-windows.png \ - graphics/cmake-options-red.png \ - graphics/compartment-size.jpg \ - graphics/enzymatic-reaction.jpg \ - graphics/ftv2doc.png \ - graphics/ftv2folderclosed.png \ - graphics/ftv2folderopen.png \ - graphics/hellojsp-screenshot.png \ - graphics/listof-illustration.jpg \ - graphics/listof-illustration.txt \ - graphics/math-formula-precedence.jpg \ - graphics/math-string-functions.jpg \ - graphics/official-sbml-supported-40.jpg \ - graphics/right-arrow.gif \ - graphics/sbase-species.eps \ - graphics/sbase-species.pdf \ - graphics/sbase-species.vthought \ - graphics/sbase.eps \ - graphics/sbase.pdf \ - graphics/sbase.vtt \ - graphics/solution-explorer-windows.png \ - graphics/species-boundarycondition.jpg \ + common-text/unitkind-table.html \ + common-text/unitkind-table.txt \ + common-text/warn-default-args-in-docs.html \ + common-text/xmlid-syntax.html \ + csdocfilter.py \ + doxygen-base.css \ + doxygen-config-c.txt.cmake \ + doxygen-config-c.txt.in \ + doxygen-config-common.txt \ + doxygen-config-common.txt.cmake \ + doxygen-config-cpp.txt.cmake \ + doxygen-config-cpp.txt.in \ + doxygen-config-csharp.txt.in \ + doxygen-config-matlab.txt.in \ + doxygen-config-octave.txt.in \ + doxygen-config-perl.txt.cmake \ + doxygen-config-perl.txt.in \ + doxygen-config-python.txt.cmake \ + doxygen-config-python.txt.in \ + doxygen-footer.html \ + doxygen-header.html \ + doxygen-tabs.css \ + doxygen-tree.css \ + examples/readmath.cpp \ + examples/readSBML.java \ + examples/simpleread.cpp \ + force-serif-font-off.html \ + force-serif-font-on.html \ + graphics/astnode-illustration.jpg \ + graphics/built-in-units.jpg \ + graphics/cmake-configure-macos.png \ + graphics/cmake-configure-windows.png \ + graphics/cmake-empty-screenshot.png \ + graphics/cmake-empty-windows.png \ + graphics/cmake-options-red-windows.png \ + graphics/cmake-options-red.png \ + graphics/compartment-size.jpg \ + graphics/enzymatic-reaction.jpg \ + graphics/ftv2doc.png \ + graphics/ftv2folderclosed.png \ + graphics/ftv2folderopen.png \ + graphics/hellojsp-screenshot.png \ + graphics/listof-illustration.jpg \ + graphics/listof-illustration.txt \ + graphics/math-formula-precedence.jpg \ + graphics/math-string-functions.jpg \ + graphics/official-sbml-supported-40.jpg \ + graphics/right-arrow.gif \ + graphics/sbase-species.eps \ + graphics/sbase-species.pdf \ + graphics/sbase-species.vthought \ + graphics/sbase.eps \ + graphics/sbase.pdf \ + graphics/sbase.vtt \ + graphics/solution-explorer-windows.png \ + graphics/species-boundarycondition.jpg \ graphics/species-hasonlysubstance.jpg \ graphics/species.eps \ graphics/species.pdf \ @@ -248,8 +248,10 @@ libsbml-csharp-math.txt \ libsbml-csharp-reading-files.txt \ libsbml-example.txt \ + libsbml-extension-support-classes.txt \ libsbml-features.html \ libsbml-features.txt \ + libsbml-howto-implement-extension.txt \ libsbml-installation.html.in \ libsbml-installation.txt \ libsbml-issues.html \ @@ -281,6 +283,21 @@ libsbml-uninstallation.txt \ plain-font-off.html \ plain-font-on.html \ + python-substitutions/ASTNodeList.py \ + python-substitutions/CVTermList.py \ + python-substitutions/DateList.py \ + python-substitutions/ISBMLExtensionNamespaces.py \ + python-substitutions/libsbml.py \ + python-substitutions/ModelCreatorList.py \ + python-substitutions/SBaseExtensionPoint.py \ + python-substitutions/SBaseList.py \ + python-substitutions/SBMLExtension.py \ + python-substitutions/SBMLNamespacesList.py \ + python-substitutions/SBMLTransforms.py \ + python-substitutions/string.py \ + python-substitutions/SwigPyIterator.py \ + python-substitutions/XMLInputStream.py \ + python-substitutions/XMLOutputStream.py \ pythondocfilter.py \ pythondocpreprocessor.py \ search.css \ This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2012-02-27 03:31:36
|
Revision: 15518 http://sbml.svn.sourceforge.net/sbml/?rev=15518&view=rev Author: mhucka Date: 2012-02-27 03:31:29 +0000 (Mon, 27 Feb 2012) Log Message: ----------- Commented out perl docs for now. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2012-02-27 03:10:51 UTC (rev 15517) +++ trunk/libsbml/docs/src/Makefile.in 2012-02-27 03:31:29 UTC (rev 15518) @@ -77,9 +77,10 @@ ifdef USE_PYTHON docs += $(python-manual) endif -ifdef USE_PERL - docs += $(perl-manual) -endif +# Currently, the Perl docs aren't ready. So let's not make them. +# ifdef USE_PERL +# docs += $(perl-manual) +# endif ifdef USE_CSHARP docs += $(csharp-manual) endif This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2012-04-27 23:36:31
|
Revision: 15719 http://sbml.svn.sourceforge.net/sbml/?rev=15719&view=rev Author: mhucka Date: 2012-04-27 23:36:24 +0000 (Fri, 27 Apr 2012) Log Message: ----------- Fixed places where I forgot to update a stylesheet filename. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2012-04-27 23:18:57 UTC (rev 15718) +++ trunk/libsbml/docs/src/Makefile.in 2012-04-27 23:36:24 UTC (rev 15719) @@ -558,7 +558,7 @@ # between doxygen and javadoc. Let's ignore the warnings to avoid # confusing users. -java-ignorable-warnings = "warning - @param argument|Custom tags that could" +java-ignorable-warnings = "warning - @param argument|Custom tags that could|@~ is an unknown tag" # 2011-02-13 <mh...@ca...> We now do an evil work-around for the # problem that SWIG refuses to attach documentation to certain things: @@ -590,14 +590,14 @@ -windowtitle $(javadoc-windowtitle) \ -doctitle $(javadoc-doctitle) \ -overview libsbml-java-fake-overview.html \ - -stylesheetfile doxygen-base.css \ + -stylesheetfile doxygen-base-stylesheet.css \ -d $(java-manual) \ -tag note:a:"Note:" \ -tag warning:a:"Warning:" \ -tag docnote:a:"Documentation note:" \ -sourcepath $(java-local-dir) org.sbml.libsbml \ 2>&1 | egrep -v $(java-ignorable-warnings) - cp -f doxygen-base.css $(java-manual) + cp -f doxygen-base-stylesheet.css $(java-manual) cp -f $(logo-file) $(java-manual) cp -f $(logo-file) $(java-manual)/$(java-class-path)/ cp -f graphics/*.png $(java-manual) This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <luc...@us...> - 2012-05-01 16:29:36
|
Revision: 15749 http://sbml.svn.sourceforge.net/sbml/?rev=15749&view=rev Author: luciansmith Date: 2012-05-01 16:29:30 +0000 (Tue, 01 May 2012) Log Message: ----------- Adding the new -l3 files to the docs. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2012-05-01 16:04:07 UTC (rev 15748) +++ trunk/libsbml/docs/src/Makefile.in 2012-05-01 16:29:30 UTC (rev 15749) @@ -136,6 +136,7 @@ common-text/libsbml-facility-only-warning.html \ common-text/math-functions.html \ common-text/math-precedence-table.html \ + common-text/math-precedence-table-l3.html \ common-text/not-sbml-warning.html \ common-text/note-reading-zipped-files.html \ common-text/note-writing-zipped-files.html \ @@ -151,6 +152,8 @@ common-text/species-boundarycondition.html \ common-text/species-hasonlysubstance.html \ common-text/string-functions-table.html \ + common-text/string-functions-table-l3.html \ + common-text/string-values-table-l3.html \ common-text/unassigned-units-are-not-a-default.html \ common-text/unitid-syntax.html \ common-text/unitkind-table.html \ This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2012-05-04 05:28:24
|
Revision: 15793 http://sbml.svn.sourceforge.net/sbml/?rev=15793&view=rev Author: mhucka Date: 2012-05-04 05:28:17 +0000 (Fri, 04 May 2012) Log Message: ----------- Fixed handling of @~ in swigdoc.py so that the errors don't have to be ignored here. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2012-05-04 05:27:42 UTC (rev 15792) +++ trunk/libsbml/docs/src/Makefile.in 2012-05-04 05:28:17 UTC (rev 15793) @@ -561,7 +561,7 @@ # between doxygen and javadoc. Let's ignore the warnings to avoid # confusing users. -java-ignorable-warnings = "warning - @param argument|Custom tags that could|@~ is an unknown tag" +java-ignorable-warnings = "warning - @param argument|Custom tags that could" # 2011-02-13 <mh...@ca...> We now do an evil work-around for the # problem that SWIG refuses to attach documentation to certain things: This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2012-05-14 18:04:24
|
Revision: 15857 http://sbml.svn.sourceforge.net/sbml/?rev=15857&view=rev Author: mhucka Date: 2012-05-14 18:04:17 +0000 (Mon, 14 May 2012) Log Message: ----------- The logo file wasn't being copied for the Javadoc case. Fixed. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2012-05-14 18:03:00 UTC (rev 15856) +++ trunk/libsbml/docs/src/Makefile.in 2012-05-14 18:04:17 UTC (rev 15857) @@ -323,7 +323,8 @@ # Additional odds and ends. -logo-file = graphics/official-sbml-supported-32.jpg +logo-files = graphics/official-sbml-supported-32.jpg \ + graphics/official-sbml-supported-40.jpg # Error msg used below. Do not put a period on the last sentence because # one will be added automatically. @@ -430,7 +431,7 @@ endef define postprocess_doxygen - cp $(logo-file) $(1) + cp $(logo-files) $(1) cp graphics/*.gif $(1) cp graphics/*.png $(1) cp common-text/simple-ast.svg $(1) @@ -610,8 +611,8 @@ -sourcepath $(java-local-dir) org.sbml.libsbml \ 2>&1 | egrep -v $(java-ignorable-warnings) cp -f doxygen-base-stylesheet.css $(java-manual) - cp -f $(logo-file) $(java-manual) - cp -f $(logo-file) $(java-manual)/$(java-class-path)/ + cp -f $(logo-files) $(java-manual) + cp -f $(logo-files) $(java-manual)/$(java-class-path)/ cp -f graphics/*.png $(java-manual) cp -f graphics/*.jpg $(java-manual)/$(java-class-path)/ cp -f common-text/*.svg $(java-manual)/$(java-class-path)/ This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2013-02-07 08:18:10
|
Revision: 17113 http://sbml.svn.sourceforge.net/sbml/?rev=17113&view=rev Author: mhucka Date: 2013-02-07 08:18:03 +0000 (Thu, 07 Feb 2013) Log Message: ----------- File changes for new layout. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2013-02-07 08:14:33 UTC (rev 17112) +++ trunk/libsbml/docs/src/Makefile.in 2013-02-07 08:18:03 UTC (rev 17113) @@ -250,6 +250,7 @@ libsbml-authors.html \ libsbml-blurb.html \ libsbml-blurb.txt \ + libsbml-changes.txt \ libsbml-coding.txt \ libsbml-communications.html \ libsbml-communications.txt \ @@ -260,6 +261,7 @@ libsbml-csharp-reading-files.txt \ libsbml-doxygen.html \ libsbml-example.txt \ + libsbml-extending.txt \ libsbml-extension-support-classes.txt \ libsbml-features.html \ libsbml-features.txt \ @@ -283,17 +285,18 @@ libsbml-matlab-mainpage.txt \ libsbml-matlab-reading-files.txt \ libsbml-news.txt \ - libsbml-old-news.txt \ libsbml-papers.html \ libsbml-papers.txt \ libsbml-octave-mainpage.txt \ libsbml-octave-reading-files.txt \ + libsbml-old-news.txt \ + libsbml-other.txt \ + libsbml-programming.txt \ libsbml-python-mainpage.txt \ libsbml-python-math.txt \ libsbml-python-reading-files.txt \ libsbml-reading-files.txt \ - libsbml-uninstallation.html \ - libsbml-uninstallation.txt \ + libsbml-release-info.txt \ plain-font-off.html \ plain-font-on.html \ python-substitutions/ASTNodeList.py \ @@ -628,7 +631,6 @@ $(call merge_html,libsbml-java-math.html,$(java-manual)/libsbml-java-math.html,facilities for manipulating mathematical expressions) $(call merge_html,libsbml-issues.html,$(java-manual)/libsbml-issues.html,known issues and pitfalls) $(call merge_html,libsbml-java-misc.html,$(java-manual)/libsbml-java-misc.html,Miscellaneous Java-specific information) - $(call merge_html,libsbml-uninstallation.html,$(java-manual)/libsbml-uninstallation.html,uninstallation) $(call merge_html,../../LICENSE.html,$(java-manual)/libsbml-license.html,license) $(call merge_html_verb,../../NEWS.txt,$(java-manual)/libsbml-news.html,news) $(call merge_html_verb,../../OLD_NEWS.txt,$(java-manual)/libsbml-old-news.html,old-news) This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2013-02-14 03:00:33
|
Revision: 17282 http://sbml.svn.sourceforge.net/sbml/?rev=17282&view=rev Author: mhucka Date: 2013-02-14 03:00:25 +0000 (Thu, 14 Feb 2013) Log Message: ----------- 1) Updates for java. 2) Don't use sed because some versions barf on non-ascii content. Switched to perl. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2013-02-14 02:59:28 UTC (rev 17281) +++ trunk/libsbml/docs/src/Makefile.in 2013-02-14 03:00:25 UTC (rev 17282) @@ -210,6 +210,7 @@ graphics/math-string-functions.jpg \ graphics/official-sbml-supported-32.jpg \ graphics/official-sbml-supported-40.jpg \ + graphics/official-sbml-supported-70.jpg \ graphics/right-arrow.gif \ graphics/sbase-species.eps \ graphics/sbase-species.pdf \ @@ -328,7 +329,8 @@ # Additional odds and ends. logo-files = graphics/official-sbml-supported-32.jpg \ - graphics/official-sbml-supported-40.jpg + graphics/official-sbml-supported-40.jpg \ + graphics/official-sbml-supported-70.png # Error msg used below. Do not put a period on the last sentence because # one will be added automatically. @@ -554,17 +556,17 @@ define merge_html cat libsbml-java-top.html $(1) libsbml-java-bottom.html libsbml-java-footer.html \ - | sed -e 's/%%title%%/$(3)/g;s/%%version%%/@PACKAGE_VERSION@/g' > $(2) + | perl -pe 's/%%title%%/$(3)/g;s/%%version%%/@PACKAGE_VERSION@/g' > $(2) endef define merge_html_verb cat libsbml-java-top.html libsbml-java-verb-top.html $(1) \ libsbml-java-verb-bottom.html libsbml-java-bottom.html libsbml-java-footer.html \ - | sed -e 's/%%title%%/$(3)/g;s/%%version%%/@PACKAGE_VERSION@/g' > $(2) + | perl -pe 's/%%title%%/$(3)/g;s/%%version%%/@PACKAGE_VERSION@/g' > $(2) endef define insert_javascript - sed -i "" -e 's:<SCRIPT type="text/javascript">:<script type="text/javascript" src="../../../sbml.js"></script><SCRIPT type="text/javascript">:g' $(wildcard $(1)/*.html) + sed -i "" -e 's:<SCRIPT type="text/javascript">:<script src="../../../sbml.js"></script><SCRIPT type="text/javascript">:g' $(wildcard $(1)/*.html) endef # Compile the SBMLDoclet class file if needed. @@ -610,6 +612,7 @@ -overview libsbml-java-fake-overview.html \ -stylesheetfile doxygen-base-stylesheet.css \ -d $(java-manual) \ + -tag ingroup:a:"" \ -tag note:a:"Note:" \ -tag warning:a:"Warning:" \ -sourcepath $(java-local-dir) org.sbml.libsbml \ This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2013-02-14 03:40:47
|
Revision: 17294 http://sbml.svn.sourceforge.net/sbml/?rev=17294&view=rev Author: mhucka Date: 2013-02-14 03:40:39 +0000 (Thu, 14 Feb 2013) Log Message: ----------- Updated list of files. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2013-02-14 03:31:26 UTC (rev 17293) +++ trunk/libsbml/docs/src/Makefile.in 2013-02-14 03:40:39 UTC (rev 17294) @@ -119,211 +119,229 @@ # The `make dist' rules for this directory are more complicated than usual. # There are additional separate rules below. -distfiles = \ - DoxygenLayout.xml \ - SBMLDoclet.java \ - Makefile.in \ - common-text/L1-math-syntax-warning.html \ - common-text/about-sbml-units-attrib.html \ - common-text/about-semantic-annotations.html \ - common-text/assuming-compressed-file.html \ - common-text/astnode-illustration.html \ - common-text/astnode-types.html \ - common-text/base-units.html \ - common-text/base-units2.html \ - common-text/comment-set-methods.html \ - common-text/compartment-size-recommendations.html \ - common-text/compartment-size-restrictions.html \ - common-text/cvterm-common-description-text.html \ - common-text/id-syntax.html \ - common-text/level-1-uses-text-string-math.html \ - common-text/libsbml-version.html.in \ - common-text/libsbml-facility-only-warning.html \ - common-text/math-functions.html \ - common-text/math-precedence-table.html \ - common-text/math-precedence-table-l3.html \ - common-text/not-sbml-warning.html \ - common-text/note-reading-zipped-files.html \ - common-text/note-writing-zipped-files.html \ - common-text/parameter-addition-overrides-values.html \ - common-text/predefined-units.html \ - common-text/sbmlerror-table.html \ - common-text/simple-ast.graffle \ - common-text/simple-ast.svg \ - common-text/rules-additional-restrictions.html \ - common-text/rules-additional-restrictions.txt \ - common-text/rules-general-summary.html \ - common-text/rules-general-summary.txt \ - common-text/species-boundarycondition.html \ - common-text/species-hasonlysubstance.html \ - common-text/string-functions-table.html \ - common-text/string-functions-table-l3.html \ - common-text/string-values-table-l3.html \ - common-text/unassigned-units-are-not-a-default.html \ - common-text/unitid-syntax.html \ - common-text/unitkind-table.html \ - common-text/unitkind-table.txt \ - common-text/warn-default-args-in-docs.html \ - common-text/xmlid-syntax.html \ - csdocfilter.py \ - doxygen-base-stylesheet.css \ - doxygen-config-c.txt.cmake \ - doxygen-config-c.txt.in \ - doxygen-config-common.txt \ - doxygen-config-common.txt.cmake \ - doxygen-config-cpp.txt.cmake \ - doxygen-config-cpp.txt.in \ - doxygen-config-csharp.txt.in \ - doxygen-config-matlab.txt.in \ - doxygen-config-octave.txt.in \ - doxygen-config-perl.txt.cmake \ - doxygen-config-perl.txt.in \ - doxygen-config-python.txt.cmake \ - doxygen-config-python.txt.in \ - doxygen-footer.html \ - doxygen-header.html \ - doxygen-navtree.css \ - doxygen-tabs.css \ - doxygen-tree.css \ - examples/readmath.cpp \ - examples/readSBML.java \ - examples/simpleread.cpp \ - force-serif-font-off.html \ - force-serif-font-on.html \ - graphics/astnode-illustration.jpg \ - graphics/built-in-units.jpg \ - graphics/cmake-configure-macos.png \ - graphics/cmake-configure-windows.png \ - graphics/cmake-empty-screenshot.png \ - graphics/cmake-empty-windows.png \ - graphics/cmake-options-red-windows.png \ - graphics/cmake-options-red.png \ - graphics/compartment-size.jpg \ - graphics/enzymatic-reaction.jpg \ - graphics/ftv2doc.png \ - graphics/ftv2folderclosed.png \ - graphics/ftv2folderopen.png \ - graphics/hellojsp-screenshot.png \ - graphics/listof-illustration.jpg \ - graphics/listof-illustration.txt \ - graphics/math-formula-precedence.jpg \ - graphics/math-string-functions.jpg \ - graphics/official-sbml-supported-32.jpg \ - graphics/official-sbml-supported-40.jpg \ - graphics/official-sbml-supported-70.jpg \ - graphics/right-arrow.gif \ - graphics/sbase-species.eps \ - graphics/sbase-species.pdf \ - graphics/sbase-species.vthought \ - graphics/sbase.eps \ - graphics/sbase.pdf \ - graphics/sbase.vtt \ - graphics/solution-explorer-windows.png \ - graphics/species-boundarycondition.jpg \ - graphics/species-hasonlysubstance.jpg \ - graphics/species.eps \ - graphics/species.pdf \ - graphics/species.vtt \ - graphics/string-functions.jpg \ - graphics/string-syntax.jpg \ - graphics/tab_a.png \ - graphics/tab_b.png \ - graphics/tab_h.png \ - graphics/tab_s.png \ - graphics/top-level.eps \ - graphics/top-level.pdf \ - graphics/top-level.vtt \ - graphics/unitdefinition.eps \ - graphics/unitdefinition.pdf \ - graphics/unitdefinition.vtt \ - java-skip.txt \ - java-substitutions/ASTNodeList.java \ - java-substitutions/CVTermList.java \ - java-substitutions/DateList.java \ - java-substitutions/ModelCreatorList.java \ - java-substitutions/SBMLConstructorException.java \ - java-substitutions/SBMLNamespacesList.java \ - java-substitutions/SBaseList.java \ - java-substitutions/XMLConstructorException.java \ - java-substitutions/libsbmlConstants.java \ - libsbml-accessing.html \ - libsbml-accessing.txt \ - libsbml-authors.html \ - libsbml-blurb.html \ - libsbml-blurb.txt \ - libsbml-changes.txt \ - libsbml-coding.txt \ - libsbml-communications.html \ - libsbml-communications.txt \ - libsbml-conversion-warnings.txt \ - libsbml-conversion-warnings.html \ - libsbml-csharp-mainpage.txt \ - libsbml-csharp-math.txt \ - libsbml-csharp-reading-files.txt \ - libsbml-doxygen.html \ - libsbml-example.txt \ - libsbml-extending.txt \ - libsbml-extension-support-classes.txt \ - libsbml-features.html \ - libsbml-features.txt \ - libsbml-howto-implement-extension.txt \ - libsbml-installation.html.in \ - libsbml-installation.txt \ - libsbml-issues.html \ - libsbml-issues.txt \ - libsbml-java-bottom.html \ - libsbml-java-fake-overview.html \ - libsbml-java-footer.html \ - libsbml-java-math.html \ - libsbml-java-overview.html \ - libsbml-java-reading.html \ - libsbml-java-top.html \ - libsbml-java-verb-top.html \ - libsbml-java-verb-bottom.html \ - libsbml-license.txt \ - libsbml-mainpage.txt \ - libsbml-math.txt \ - libsbml-matlab-mainpage.txt \ - libsbml-matlab-reading-files.txt \ - libsbml-news.txt \ - libsbml-papers.html \ - libsbml-papers.txt \ - libsbml-octave-mainpage.txt \ - libsbml-octave-reading-files.txt \ - libsbml-old-news.txt \ - libsbml-other.txt \ - libsbml-programming.txt \ - libsbml-python-mainpage.txt \ - libsbml-python-math.txt \ - libsbml-python-reading-files.txt \ - libsbml-reading-files.txt \ - libsbml-release-info.txt \ - plain-font-off.html \ - plain-font-on.html \ - python-substitutions/ASTNodeList.py \ - python-substitutions/CVTermList.py \ - python-substitutions/DateList.py \ - python-substitutions/ISBMLExtensionNamespaces.py \ - python-substitutions/libsbml.py \ - python-substitutions/ModelCreatorList.py \ - python-substitutions/SBaseExtensionPoint.py \ - python-substitutions/SBaseList.py \ - python-substitutions/SBMLExtension.py \ - python-substitutions/SBMLNamespacesList.py \ - python-substitutions/SBMLTransforms.py \ - python-substitutions/string.py \ - python-substitutions/SwigPyIterator.py \ - python-substitutions/XMLInputStream.py \ - python-substitutions/XMLOutputStream.py \ - pythondocfilter.py \ - pythondocpreprocessor.py \ - search.css \ - search.png \ - sbml.js \ - templates/c++.txt \ - templates/c.txt \ - templates/m4.txt \ - templates/makefile.txt \ +distfiles = \ + doxygen-layout-cpp.xml \ + doxygen-layout-notcpp.xml \ + SBMLDoclet.java \ + Makefile.in \ + common-text/L1-math-syntax-warning.html \ + common-text/about-sbml-units-attrib.html \ + common-text/about-semantic-annotations.html \ + common-text/assuming-compressed-file.html \ + common-text/astnode-illustration.html \ + common-text/astnode-types.html \ + common-text/base-units.html \ + common-text/base-units2.html \ + common-text/comment-set-methods.html \ + common-text/compartment-size-recommendations.html \ + common-text/compartment-size-restrictions.html \ + common-text/cvterm-common-description-text.html \ + common-text/id-syntax.html \ + common-text/level-1-uses-text-string-math.html \ + common-text/libsbml-facility-only-warning.html \ + common-text/libsbml-version.html.in \ + common-text/math-functions.html \ + common-text/math-precedence-table-l3.html \ + common-text/math-precedence-table.html \ + common-text/not-sbml-warning.html \ + common-text/note-reading-zipped-files.html \ + common-text/note-writing-zipped-files.html \ + common-text/parameter-addition-overrides-values.html \ + common-text/pkg-marker-comp.html \ + common-text/pkg-marker-fbc.html \ + common-text/pkg-marker-layout.html \ + common-text/predefined-units.html \ + common-text/rules-additional-restrictions.html \ + common-text/rules-additional-restrictions.txt \ + common-text/rules-general-summary.html \ + common-text/rules-general-summary.txt \ + common-text/sbmlerror-table.html \ + common-text/simple-ast.graffle \ + common-text/simple-ast.svg \ + common-text/species-boundarycondition.html \ + common-text/species-hasonlysubstance.html \ + common-text/string-functions-table-l3.html \ + common-text/string-functions-table.html \ + common-text/string-values-table-l3.html \ + common-text/unassigned-units-are-not-a-default.html \ + common-text/unitid-syntax.html \ + common-text/unitkind-table.html \ + common-text/unitkind-table.txt \ + common-text/warn-default-args-in-docs.html \ + common-text/xmlid-syntax.html \ + csdocfilter.py \ + doxygen-base-stylesheet.css \ + doxygen-config-c.txt.cmake \ + doxygen-config-c.txt.in \ + doxygen-config-common.txt \ + doxygen-config-common.txt.cmake \ + doxygen-config-cpp.txt.cmake \ + doxygen-config-cpp.txt.in \ + doxygen-config-csharp.txt.in \ + doxygen-config-matlab.txt.in \ + doxygen-config-octave.txt.in \ + doxygen-config-perl.txt.cmake \ + doxygen-config-perl.txt.in \ + doxygen-config-python.txt.cmake \ + doxygen-config-python.txt.in \ + doxygen-footer.html \ + doxygen-header.html \ + doxygen-navtree.css \ + doxygen-tabs.css \ + doxygen-tree.css \ + examples/readmath.cpp \ + examples/readSBML.java \ + examples/simpleread.cpp \ + force-serif-font-off.html \ + force-serif-font-on.html \ + graphics/astnode-illustration.jpg \ + graphics/built-in-units.jpg \ + graphics/cmake-configure-macos.png \ + graphics/cmake-configure-windows.png \ + graphics/cmake-empty-screenshot.png \ + graphics/cmake-empty-windows.png \ + graphics/cmake-options-red-windows.png \ + graphics/cmake-options-red.png \ + graphics/compartment-size.jpg \ + graphics/enzymatic-reaction.jpg \ + graphics/ftv2doc.png \ + graphics/ftv2folderclosed.png \ + graphics/ftv2folderopen.png \ + graphics/hellojsp-screenshot.png \ + graphics/listof-illustration.jpg \ + graphics/listof-illustration.txt \ + graphics/math-formula-precedence.jpg \ + graphics/math-string-functions.jpg \ + graphics/official-sbml-supported-32.jpg \ + graphics/official-sbml-supported-40.jpg \ + graphics/official-sbml-supported-70.png \ + graphics/right-arrow.gif \ + graphics/sbase-species.eps \ + graphics/sbase-species.pdf \ + graphics/sbase-species.vthought \ + graphics/sbase.eps \ + graphics/sbase.pdf \ + graphics/sbase.vtt \ + graphics/solution-explorer-windows.png \ + graphics/species-boundarycondition.jpg \ + graphics/species-hasonlysubstance.jpg \ + graphics/species.eps \ + graphics/species.pdf \ + graphics/species.vtt \ + graphics/string-functions.jpg \ + graphics/string-syntax.jpg \ + graphics/tab_a.png \ + graphics/tab_b.png \ + graphics/tab_h.png \ + graphics/tab_s.png \ + graphics/top-level.eps \ + graphics/top-level.pdf \ + graphics/top-level.vtt \ + graphics/unitdefinition.eps \ + graphics/unitdefinition.pdf \ + graphics/unitdefinition.vtt \ + java-skip.txt \ + java-substitutions/ASTNodeList.java \ + java-substitutions/CVTermList.java \ + java-substitutions/DateList.java \ + java-substitutions/ModelCreatorList.java \ + java-substitutions/SBMLConstructorException.java \ + java-substitutions/SBMLNamespacesList.java \ + java-substitutions/SBaseList.java \ + java-substitutions/XMLConstructorException.java \ + java-substitutions/libsbmlConstants.java \ + libsbml-doxygen.html \ + libsbml-extending.txt \ + libsbml-accessing.html \ + libsbml-accessing.txt \ + libsbml-authors.html \ + libsbml-blurb.html \ + libsbml-blurb.txt \ + libsbml-changes.txt \ + libsbml-coding.txt \ + libsbml-communications.html \ + libsbml-communications.txt \ + libsbml-conversion-warnings.html \ + libsbml-conversion-warnings.txt \ + libsbml-core-versus-packages.html \ + libsbml-core-versus-packages.txt \ + libsbml-csharp-mainpage.txt \ + libsbml-csharp-math.txt \ + libsbml-csharp-reading-files.txt \ + libsbml-doxygen.html \ + libsbml-example.txt \ + libsbml-extension-support-classes.txt \ + libsbml-features.html \ + libsbml-features.txt \ + libsbml-group-comp-intro.html \ + libsbml-group-comp-intro.txt \ + libsbml-group-core-intro.html \ + libsbml-group-core-intro.txt \ + libsbml-group-fbc-intro.html \ + libsbml-group-fbc-intro.txt \ + libsbml-group-layout-intro.html \ + libsbml-group-layout-intro.txt \ + libsbml-howto-implement-extension.txt \ + libsbml-installation.html.in \ + libsbml-installation.txt \ + libsbml-issues.html \ + libsbml-issues.txt \ + libsbml-java-bottom.html \ + libsbml-java-fake-overview.html \ + libsbml-java-footer.html \ + libsbml-java-math.html \ + libsbml-java-misc.html \ + libsbml-java-overview.html \ + libsbml-java-reading.html \ + libsbml-java-top.html \ + libsbml-java-verb-bottom.html \ + libsbml-java-verb-top.html \ + libsbml-license.txt \ + libsbml-mainpage.txt \ + libsbml-math.txt \ + libsbml-matlab-mainpage.txt \ + libsbml-matlab-reading-files.txt \ + libsbml-news.txt \ + libsbml-octave-mainpage.txt \ + libsbml-octave-reading-files.txt \ + libsbml-old-news.txt \ + libsbml-other.txt \ + libsbml-papers.html \ + libsbml-papers.txt \ + libsbml-programming.txt \ + libsbml-programming-csharp.txt \ + libsbml-programming-python.txt \ + libsbml-python-mainpage.txt \ + libsbml-python-math.txt \ + libsbml-python-reading-files.txt \ + libsbml-reading-files.txt \ + libsbml-release-info.txt \ + plain-font-off.html \ + plain-font-on.html \ + python-substitutions/ASTNodeList.py \ + python-substitutions/CVTermList.py \ + python-substitutions/DateList.py \ + python-substitutions/ISBMLExtensionNamespaces.py \ + python-substitutions/libsbml.py \ + python-substitutions/ModelCreatorList.py \ + python-substitutions/SBaseExtensionPoint.py \ + python-substitutions/SBaseList.py \ + python-substitutions/SBMLExtension.py \ + python-substitutions/SBMLNamespacesList.py \ + python-substitutions/SBMLTransforms.py \ + python-substitutions/string.py \ + python-substitutions/SwigPyIterator.py \ + python-substitutions/XMLInputStream.py \ + python-substitutions/XMLOutputStream.py \ + pythondocfilter.py \ + pythondocpreprocessor.py \ + sbml.js \ + search.css \ + search.png \ + templates/c++.txt \ + templates/c.txt \ + templates/m4.txt \ + templates/makefile.txt \ templates/python.txt # Additional odds and ends. This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2013-04-07 02:36:14
|
Revision: 17385 http://sourceforge.net/p/sbml/code/17385 Author: mhucka Date: 2013-04-07 02:36:12 +0000 (Sun, 07 Apr 2013) Log Message: ----------- Really just testing if I relocated my svn tree the right way after SF.net's update. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2013-04-01 22:31:50 UTC (rev 17384) +++ trunk/libsbml/docs/src/Makefile.in 2013-04-07 02:36:12 UTC (rev 17385) @@ -178,7 +178,7 @@ doxygen-config-cpp.txt.cmake \ doxygen-config-cpp.txt.in \ doxygen-config-csharp.txt.in \ - doxygen-config-csharp.txt.cmake \ + doxygen-config-csharp.txt.cmake \ doxygen-config-matlab.txt.in \ doxygen-config-octave.txt.in \ doxygen-config-perl.txt.cmake \ This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2013-08-29 00:43:52
|
Revision: 18338 http://sourceforge.net/p/sbml/code/18338 Author: mhucka Date: 2013-08-29 00:43:49 +0000 (Thu, 29 Aug 2013) Log Message: ----------- Added papers and new graphics. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2013-08-29 00:42:54 UTC (rev 18337) +++ trunk/libsbml/docs/src/Makefile.in 2013-08-29 00:43:49 UTC (rev 18338) @@ -196,6 +196,7 @@ force-serif-font-off.html \ force-serif-font-on.html \ graphics/astnode-illustration.jpg \ + graphics/biology-qualifiers.png \ graphics/built-in-units.jpg \ graphics/cmake-configure-macos.png \ graphics/cmake-configure-windows.png \ @@ -213,6 +214,7 @@ graphics/listof-illustration.txt \ graphics/math-formula-precedence.jpg \ graphics/math-string-functions.jpg \ + graphics/model-qualifiers.png \ graphics/official-sbml-supported-32.jpg \ graphics/official-sbml-supported-40.jpg \ graphics/official-sbml-supported-70.png \ @@ -317,6 +319,8 @@ libsbml-python-reading-files.txt \ libsbml-reading-files.txt \ libsbml-release-info.txt \ + papers/miriam-2005.pdf \ + papers/miriam-resources-2007.pdf \ plain-font-off.html \ plain-font-on.html \ python-substitutions/ASTNodeList.py \ @@ -461,6 +465,7 @@ cp graphics/*.png $(1) cp common-text/simple-ast.svg $(1) cp sbml.js $(1) + cp papers/*.pdf $(1) cp -rf doxygen-tabs.css $(1)/tabs.css cp -rf doxygen-navtree.css $(1)/navtree.css endef This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2013-08-29 05:13:22
|
Revision: 18345 http://sourceforge.net/p/sbml/code/18345 Author: mhucka Date: 2013-08-29 05:13:18 +0000 (Thu, 29 Aug 2013) Log Message: ----------- Added new file for the code examples section. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2013-08-29 05:13:03 UTC (rev 18344) +++ trunk/libsbml/docs/src/Makefile.in 2013-08-29 05:13:18 UTC (rev 18345) @@ -273,6 +273,7 @@ libsbml-csharp-reading-files.txt \ libsbml-doxygen.html \ libsbml-example.txt \ + libsbml-examples.txt \ libsbml-extension-support-classes.txt \ libsbml-features.html \ libsbml-features.txt \ This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2013-09-11 23:34:37
|
Revision: 18416 http://sourceforge.net/p/sbml/code/18416 Author: mhucka Date: 2013-09-11 23:33:04 +0000 (Wed, 11 Sep 2013) Log Message: ----------- Distribute the necessary files for qual documentation. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2013-09-11 10:45:46 UTC (rev 18415) +++ trunk/libsbml/docs/src/Makefile.in 2013-09-11 23:33:04 UTC (rev 18416) @@ -150,6 +150,7 @@ common-text/pkg-marker-comp.html \ common-text/pkg-marker-fbc.html \ common-text/pkg-marker-layout.html \ + common-text/pkg-marker-qual.html \ common-text/predefined-units.html \ common-text/rules-additional-restrictions.html \ common-text/rules-additional-restrictions.txt \ @@ -232,6 +233,7 @@ graphics/sbase.pdf \ graphics/sbase.vtt \ graphics/solution-explorer-windows.png \ + graphics/sourceforge-download.png \ graphics/species-boundarycondition.jpg \ graphics/species-hasonlysubstance.jpg \ graphics/species.eps \ @@ -291,6 +293,8 @@ libsbml-group-fbc-intro.txt \ libsbml-group-layout-intro.html \ libsbml-group-layout-intro.txt \ + libsbml-group-qual-intro.html \ + libsbml-group-qual-intro.txt \ libsbml-howto-implement-extension.txt \ libsbml-installation.html.in \ libsbml-installation.txt \ This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2013-09-30 23:58:35
|
Revision: 18485 http://sourceforge.net/p/sbml/code/18485 Author: mhucka Date: 2013-09-30 23:58:32 +0000 (Mon, 30 Sep 2013) Log Message: ----------- Added missing files for distributions. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2013-09-30 23:56:12 UTC (rev 18484) +++ trunk/libsbml/docs/src/Makefile.in 2013-09-30 23:58:32 UTC (rev 18485) @@ -204,6 +204,7 @@ force-serif-font-on.html \ graphics/astnode-illustration.jpg \ graphics/biology-qualifiers.png \ + graphics/biology-qualifiers.txt \ graphics/built-in-units.jpg \ graphics/cmake-configure-macos.png \ graphics/cmake-configure-windows.png \ @@ -218,11 +219,13 @@ graphics/ftv2folderclosed.png \ graphics/ftv2folderopen.png \ graphics/hellojsp-screenshot.png \ + graphics/layout-example.png \ graphics/listof-illustration.jpg \ graphics/listof-illustration.txt \ graphics/math-formula-precedence.jpg \ graphics/math-string-functions.jpg \ graphics/model-qualifiers.png \ + graphics/model-qualifiers.txt \ graphics/official-sbml-supported-32.jpg \ graphics/official-sbml-supported-40.jpg \ graphics/official-sbml-supported-70.png \ This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |
From: <mh...@us...> - 2013-10-01 00:53:58
|
Revision: 18489 http://sourceforge.net/p/sbml/code/18489 Author: mhucka Date: 2013-10-01 00:53:56 +0000 (Tue, 01 Oct 2013) Log Message: ----------- Some graphics files maybe weren't being copied during documentation builds. Modified Paths: -------------- trunk/libsbml/docs/src/Makefile.in Modified: trunk/libsbml/docs/src/Makefile.in =================================================================== --- trunk/libsbml/docs/src/Makefile.in 2013-10-01 00:50:48 UTC (rev 18488) +++ trunk/libsbml/docs/src/Makefile.in 2013-10-01 00:53:56 UTC (rev 18489) @@ -476,8 +476,10 @@ define postprocess_doxygen cp $(logo-files) $(1) + cp graphics/*.txt $(1) cp graphics/*.gif $(1) cp graphics/*.png $(1) + cp graphics/*.jpg $(1) cp common-text/simple-ast.svg $(1) cp sbml.js $(1) cp documents/*.pdf $(1) @@ -659,8 +661,10 @@ cp -f doxygen-base-stylesheet.css $(java-manual) cp -f $(logo-files) $(java-manual) cp -f $(logo-files) $(java-manual)/$(java-class-path)/ + cp -f graphics/*.gif $(java-manual) cp -f graphics/*.png $(java-manual) cp -f graphics/*.jpg $(java-manual)/$(java-class-path)/ + cp -f documents/*.pdf $(java-manual) cp -f common-text/*.svg $(java-manual)/$(java-class-path)/ cp -f sbml.js $(java-manual) cp common-text/simple-ast.svg $(java-manual) This was sent by the SourceForge.net collaborative development platform, the world's largest Open Source development site. |