From 34ea42394dc81ff7556fd1ac0c2034f47ed8a878 Mon Sep 17 00:00:00 2001
From: Ciaran Welsh <cwelsh2@uw.edu>
Date: Thu, 8 Oct 2020 13:49:37 -0700
Subject: [PATCH] [libsbml] New port for libsbml (#13524)

Co-authored-by: JackBoosY <yuzaiyang@beyondsoft.com>
---
 ports/libsbml/CONTROL                | 49 ++++++++++++++++
 ports/libsbml/fix-linkage-type.patch | 22 ++++++++
 ports/libsbml/portfile.cmake         | 83 ++++++++++++++++++++++++++++
 3 files changed, 154 insertions(+)
 create mode 100644 ports/libsbml/CONTROL
 create mode 100644 ports/libsbml/fix-linkage-type.patch
 create mode 100644 ports/libsbml/portfile.cmake

diff --git a/ports/libsbml/CONTROL b/ports/libsbml/CONTROL
new file mode 100644
index 00000000000..654ea75bd13
--- /dev/null
+++ b/ports/libsbml/CONTROL
@@ -0,0 +1,49 @@
+Source: libsbml
+Version: 5.18.0
+Description: A library for reading / writing SBML files
+Default-Features: expat,comp,fbc,groups,layout,render,libxml2
+Supports: !uwp
+
+Feature: test
+Description: Unit testing of libSBMLs implementation
+Build-Depends: check
+
+Feature: bzip2
+Description: bz2 compression support for libsbml
+Build-Depends: bzip2
+
+Feature: zlib
+Description: gzip compression support for libsbml
+Build-Depends: zlib
+
+Feature: expat
+Description: libsbml using expat parser
+Build-Depends: expat
+
+Feature: libxml2
+Description: libsbml using libxml2 parser
+Build-Depends: libxml2
+
+Feature: comp
+Description: support for Hierarchical Model Composition
+
+Feature: fbc
+Description: support for Flux Balance Constrant Modeling
+
+Feature: groups
+Description: support for Groups
+
+Feature: layout
+Description: support for Pathway Layouts
+
+Feature: multi
+Description: support for Multistate Modeling
+
+Feature: qual
+Description: support for Qualitative Modeling 
+
+Feature: render
+Description: support for Rendering information
+
+Feature: namespace
+Description: Build with the WITH_CPP_NAMESPACE option set to on
diff --git a/ports/libsbml/fix-linkage-type.patch b/ports/libsbml/fix-linkage-type.patch
new file mode 100644
index 00000000000..08186357ad3
--- /dev/null
+++ b/ports/libsbml/fix-linkage-type.patch
@@ -0,0 +1,22 @@
+diff --git a/src/CMakeLists.txt b/src/CMakeLists.txt
+index eb692cf..11158db 100644
+--- a/src/CMakeLists.txt
++++ b/src/CMakeLists.txt
+@@ -524,7 +524,7 @@ INSTALL(
+ endif()
+ 
+   
+-endif()
++else()
+ 
+ add_library (${LIBSBML_LIBRARY}-static STATIC ${LIBSBML_SOURCES} )
+ 
+@@ -560,7 +560,7 @@ INSTALL(FILES
+   DESTINATION ${PACKAGE_CONFIG_DIR}
+ )
+ endif()
+-
++endif()
+ ##############################################################################
+ #
+ # add native tests
diff --git a/ports/libsbml/portfile.cmake b/ports/libsbml/portfile.cmake
new file mode 100644
index 00000000000..ed7749daa97
--- /dev/null
+++ b/ports/libsbml/portfile.cmake
@@ -0,0 +1,83 @@
+vcpkg_download_distfile(ARCHIVE
+    URLS "https://sourceforge.net/projects/sbml/files/libsbml/5.18.0/stable/libSBML-5.18.0-core-plus-packages-src.tar.gz/download"
+    FILENAME "libSBML-5.18.0.zip"
+    SHA512 49dedaa2fcd2077e7389a8f940adf931d80aa7a8f9d57330328372d2ac8ebcaeb03a20524df2fe0f1c6933587904613754585076c46e6cb5d6f7a001f427185b
+)
+
+vcpkg_extract_source_archive_ex(
+    OUT_SOURCE_PATH SOURCE_PATH
+    ARCHIVE ${ARCHIVE}
+    PATCHES fix-linkage-type.patch
+)
+
+string(COMPARE EQUAL "${VCPKG_CRT_LINKAGE}" "static" STATIC_RUNTIME)
+string(COMPARE EQUAL "${VCPKG_LIBRARY_LINKAGE}" "static" STATIC_LIBRARY)
+
+vcpkg_check_features(OUT_FEATURE_OPTIONS FEATURE_OPTIONS
+    comp        ENABLE_COMP
+    fbc         ENABLE_FBC
+    groups      ENABLE_GROUPS
+    layout      ENABLE_LAYOUT
+    multi       ENABLE_MULTI
+    qual        ENABLE_QUAL
+    render      ENABLE_RENDER
+    render      ENABLE_LAYOUT
+    bzip2       WITH_BZIP2
+    zlib        WITH_ZLIB
+    test        WITH_CHECK
+    namespace   WITH_CPP_NAMESPACE
+)
+
+# Handle conflict features
+set(WITH_EXPAT OFF)
+if ("expat" IN_LIST FEATURES)
+    set(WITH_EXPAT ON)
+endif()
+
+set(WITH_LIBXML OFF)
+if ("libxml2" IN_LIST FEATURES)
+    set(WITH_LIBXML ON)
+endif()
+
+if (WITH_EXPAT AND WITH_LIBXML)
+    message("Feature expat conflict with feature libxml2, currently using libxml2...")
+    set(WITH_EXPAT OFF)
+endif()
+
+if ("test" IN_LIST FEATURES AND WIN32)
+    message(FATAL_ERROR "Feature test only support UNIX.")
+endif()
+
+vcpkg_configure_cmake(
+    SOURCE_PATH ${SOURCE_PATH}
+    PREFER_NINJA # Disable this option if project cannot be built with Ninja
+    OPTIONS ${FEATURE_OPTIONS}
+        -DWITH_EXPAT=${WITH_EXPAT}
+        -DWITH_LIBXML=${WITH_LIBXML}
+        -DENABLE_L3V2EXTENDEDMATH:BOOL=ON
+        -DWITH_STATIC_RUNTIME=${STATIC_RUNTIME}
+        -DLIBSBML_SKIP_SHARED_LIBRARY=${STATIC_LIBRARY}
+)
+
+vcpkg_install_cmake()
+
+vcpkg_fixup_cmake_targets(CONFIG_PATH lib/cmake)
+
+vcpkg_copy_pdbs()
+
+file(REMOVE_RECURSE ${CURRENT_PACKAGES_DIR}/debug/include)
+
+file(GLOB TXT_FILES ${CURRENT_PACKAGES_DIR}/debug/*.txt)
+if (TXT_FILES)
+    file(REMOVE ${TXT_FILES})
+endif()
+file(GLOB TXT_FILES ${CURRENT_PACKAGES_DIR}/*.txt)
+if (TXT_FILES)
+    file(REMOVE ${TXT_FILES})
+endif()
+
+if (EXISTS ${CURRENT_PACKAGES_DIR}/debug/share)
+    file(REMOVE_RECURSE ${CURRENT_PACKAGES_DIR}/debug/share)
+endif()
+
+file(INSTALL ${SOURCE_PATH}/LICENSE.txt DESTINATION ${CURRENT_PACKAGES_DIR}/share/${PORT} RENAME copyright)
\ No newline at end of file