diff options
Diffstat (limited to 'biology/libsbml')
| -rw-r--r-- | biology/libsbml/Makefile | 6 | ||||
| -rw-r--r-- | biology/libsbml/distinfo | 6 | ||||
| -rw-r--r-- | biology/libsbml/files/patch-CMakeLists.txt | 26 | ||||
| -rw-r--r-- | biology/libsbml/pkg-plist | 26 |
4 files changed, 43 insertions, 21 deletions
diff --git a/biology/libsbml/Makefile b/biology/libsbml/Makefile index 383b06145b85..fec0997b39be 100644 --- a/biology/libsbml/Makefile +++ b/biology/libsbml/Makefile @@ -1,7 +1,6 @@ PORTNAME= libsbml -PORTVERSION= 5.20.4 +PORTVERSION= 5.20.5 DISTVERSIONPREFIX= v -PORTREVISION= 1 CATEGORIES= biology devel MAINTAINER= sunpoet@FreeBSD.org @@ -74,7 +73,6 @@ post-patch: @${REINPLACE_CMD} -e 's|/usr/local|${LOCALBASE}|g' ${WRKSRC}/CMakeLists.txt post-install-EXAMPLES-on: - ${MV} ${STAGEDIR}${DATADIR}/examples ${STAGEDIR}${EXAMPLESDIR} - ${RMDIR} ${STAGEDIR}${DATADIR} + ${MV} ${STAGEDIR}${DATADIR}examples ${STAGEDIR}${EXAMPLESDIR} .include <bsd.port.mk> diff --git a/biology/libsbml/distinfo b/biology/libsbml/distinfo index 7884ce4f4a5c..7908d7960b79 100644 --- a/biology/libsbml/distinfo +++ b/biology/libsbml/distinfo @@ -1,3 +1,3 @@ -TIMESTAMP = 1725559551 -SHA256 (sbmlteam-libsbml-v5.20.4_GH0.tar.gz) = 02c225d3513e1f5d6e3c0168456f568e67f006eddaab82f09b4bdf0d53d2050e -SIZE (sbmlteam-libsbml-v5.20.4_GH0.tar.gz) = 28796139 +TIMESTAMP = 1747546406 +SHA256 (sbmlteam-libsbml-v5.20.5_GH0.tar.gz) = 21c88c753a4a031f157a033de3810488b86f003e684c6ca7aa3d6e26e7e0acfc +SIZE (sbmlteam-libsbml-v5.20.5_GH0.tar.gz) = 28852940 diff --git a/biology/libsbml/files/patch-CMakeLists.txt b/biology/libsbml/files/patch-CMakeLists.txt index 037277324c79..32366d12deb1 100644 --- a/biology/libsbml/files/patch-CMakeLists.txt +++ b/biology/libsbml/files/patch-CMakeLists.txt @@ -1,6 +1,6 @@ ---- CMakeLists.txt.orig 2023-04-03 10:48:28 UTC +--- CMakeLists.txt.orig 2025-05-05 04:53:07 UTC +++ CMakeLists.txt -@@ -430,8 +430,6 @@ if(WITH_EXPAT) +@@ -445,8 +445,6 @@ if(WITH_EXPAT) set(LIBSBML_XML_LIBRARY_INCLUDE ${EXPAT_INCLUDE_DIR}) set(LIBSBML_XML_LIBRARY_LIBS ${EXPAT_LIBRARY}) @@ -9,7 +9,7 @@ endif(WITH_EXPAT) -@@ -452,8 +450,6 @@ if(WITH_LIBXML) +@@ -467,8 +465,6 @@ if(WITH_LIBXML) set(LIBSBML_XML_LIBRARY_INCLUDE ${LIBXML_INCLUDE_DIR}) set(LIBSBML_XML_LIBRARY_LIBS ${LIBXML_LIBRARY}) @@ -18,7 +18,7 @@ endif(WITH_LIBXML) -@@ -473,8 +469,6 @@ if(WITH_XERCES) +@@ -488,8 +484,6 @@ if(WITH_XERCES) set(LIBSBML_XML_LIBRARY_INCLUDE ${XERCES_INCLUDE_DIR}) set(LIBSBML_XML_LIBRARY_LIBS ${XERCES_LIBRARY}) @@ -27,7 +27,7 @@ endif(WITH_XERCES) ############################################################################### -@@ -498,7 +492,6 @@ if(WITH_BZIP2) +@@ -513,7 +507,6 @@ if(WITH_BZIP2) set(USE_BZ2 ON) add_definitions( -DUSE_BZ2 ) list(APPEND SWIG_EXTRA_ARGS -DUSE_BZ2) @@ -35,16 +35,16 @@ endif(WITH_BZIP2) -@@ -608,8 +601,6 @@ valid. It should contain the file zlib.h, but it does - INTERFACE_INCLUDE_DIRECTORIES "${LIBZ_INCLUDE_DIR}") - endif() - +@@ -550,8 +543,6 @@ if(WITH_ZLIB) + set(USE_ZLIB ON) + add_definitions( -DUSE_ZLIB ) + list(APPEND SWIG_EXTRA_ARGS -DUSE_ZLIB) - list(APPEND LIBSBML_FIND_MODULES "${CMAKE_CURRENT_SOURCE_DIR}/CMakeModules/FindZLIB.cmake") - endif(WITH_ZLIB) # install find scripts only for used dependencies -@@ -981,22 +972,6 @@ if(WITH_DOXYGEN) +@@ -923,20 +914,6 @@ endif() add_subdirectory(docs) endif() @@ -62,8 +62,6 @@ - README.md - VERSION.txt -) -- --install(FILES ${DOCUMENTATION_FILES} DESTINATION ${MISC_PREFIX}) - ############################################################################### - # + install(FILES ${DOCUMENTATION_FILES} DESTINATION ${MISC_PREFIX}) + diff --git a/biology/libsbml/pkg-plist b/biology/libsbml/pkg-plist index 7a382979c5e4..df36c508c663 100644 --- a/biology/libsbml/pkg-plist +++ b/biology/libsbml/pkg-plist @@ -107,6 +107,31 @@ include/sbml/extension/SBaseExtensionPoint.h include/sbml/extension/SBasePlugin.h include/sbml/extension/SBasePluginCreator.h include/sbml/extension/SBasePluginCreatorBase.h +include/sbml/html2md/html2md.h +include/sbml/html2md/table.h +include/sbml/maddy/blockparser.h +include/sbml/maddy/breaklineparser.h +include/sbml/maddy/checklistparser.h +include/sbml/maddy/codeblockparser.h +include/sbml/maddy/emphasizedparser.h +include/sbml/maddy/headlineparser.h +include/sbml/maddy/horizontallineparser.h +include/sbml/maddy/htmlparser.h +include/sbml/maddy/imageparser.h +include/sbml/maddy/inlinecodeparser.h +include/sbml/maddy/italicparser.h +include/sbml/maddy/latexblockparser.h +include/sbml/maddy/lineparser.h +include/sbml/maddy/linkparser.h +include/sbml/maddy/orderedlistparser.h +include/sbml/maddy/paragraphparser.h +include/sbml/maddy/parser.h +include/sbml/maddy/parserconfig.h +include/sbml/maddy/quoteparser.h +include/sbml/maddy/strikethroughparser.h +include/sbml/maddy/strongparser.h +include/sbml/maddy/tableparser.h +include/sbml/maddy/unorderedlistparser.h include/sbml/math/ASTNode.h include/sbml/math/ASTNodeType.h include/sbml/math/DefinitionURLRegistry.h @@ -236,6 +261,7 @@ share/cmake/Modules/FindLIBSBML.cmake %%PORTEXAMPLES%%%%EXAMPLESDIR%%/c++/createExampleSBML.cpp %%PORTEXAMPLES%%%%EXAMPLESDIR%%/c++/echoSBML.cpp %%PORTEXAMPLES%%%%EXAMPLESDIR%%/c++/getAllElementsWithNotes.cpp +%%PORTEXAMPLES%%%%EXAMPLESDIR%%/c++/inferReactions.cpp %%PORTEXAMPLES%%%%EXAMPLESDIR%%/c++/inferUnits.cpp %%PORTEXAMPLES%%%%EXAMPLESDIR%%/c++/inlineFunctionDefintions.cpp %%PORTEXAMPLES%%%%EXAMPLESDIR%%/c++/printAnnotation.cpp |