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Update all third-party libraries. #51

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Merged
luciansmith merged 1 commit into from
Oct 7, 2025
Merged

Update all third-party libraries. #51

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2 changes: 1 addition & 1 deletion third_party/NuML
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Submodule NuML updated 1 files
+2 −5 libnuml/CMakeLists.txt
2 changes: 1 addition & 1 deletion third_party/SBMLNetwork
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Submodule SBMLNetwork updated 23 files
+3 −3 .github/workflows/build.yml
+1 −1 VERSION.txt
+3,165 −2,488 docs/_static/escher_ecoli.svg
+4 −0 docs/api_reference/c_api_index.rst
+8 −0 docs/api_reference/cpp_api_index.rst
+69 −0 src/bindings/python/ctypes/libsbmlnetwork.py.cmake
+1 −196 src/bindings/python/ctypes/sbmlnetwork/src/sbmlnetwork/features/styles/style_manager.py
+21 −0 src/bindings/python/ctypes/sbmlnetwork/src/sbmlnetwork/network_elements/visual_elements/curve/curve.py
+18 −0 src/bindings/python/ctypes/sbmlnetwork/src/sbmlnetwork/network_elements/visual_elements/curve/curve_segment.py
+21 −0 ...ork/src/sbmlnetwork/network_elements/visual_elements/visual_element_lists/curve_element_lists/curve_list.py
+21 −0 ...sbmlnetwork/network_elements/visual_elements/visual_element_lists/curve_element_lists/curve_segment_list.py
+31 −0 src/bindings/python/ctypes/sbmlnetwork/tests/test_user_interface_layer.py
+16 −0 src/c_api/libsbmlnetwork_c_api.cpp
+42 −0 src/c_api/libsbmlnetwork_c_api.h
+410 −0 src/features/styles/libsbmlnetwork_styles.cpp
+39 −0 src/features/styles/libsbmlnetwork_styles.h
+32 −0 src/libsbmlnetwork_layout.cpp
+42 −0 src/libsbmlnetwork_layout.h
+61 −0 src/libsbmlnetwork_layout_helpers.cpp
+4 −0 src/libsbmlnetwork_layout_helpers.h
+32 −0 src/libsbmlnetwork_sbmldocument_layout.cpp
+80 −0 src/libsbmlnetwork_sbmldocument_layout.h
+4 −0 src/libsbmlnetwork_sbmldocument_render.cpp
2 changes: 1 addition & 1 deletion third_party/expat
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Submodule expat updated 63 files
+2 −2 .ci.sh
+4 −0 .gitattributes
+3 −1 .github/workflows/autotools-cmake.yml
+6 −6 .github/workflows/clang-format.yml
+6 −6 .github/workflows/clang-static-analyzer.yml
+6 −6 .github/workflows/clang-tidy.yml
+1 −1 .github/workflows/cmake-required-version.yml
+1 −1 .github/workflows/codespell.yml
+1 −1 .github/workflows/coverage.yml
+7 −7 .github/workflows/coverity-scan.yml
+1 −1 .github/workflows/cppcheck.yml
+2 −0 .github/workflows/data/exported-symbols.txt
+1 −1 .github/workflows/emscripten.yml
+1 −1 .github/workflows/expat_config_h.yml
+4 −3 .github/workflows/freebsd.yml
+14 −7 .github/workflows/fuzzing.yml
+6 −5 .github/workflows/linux.yml
+2 −2 .github/workflows/macos.yml
+1 −1 .github/workflows/musl.yml
+1 −1 .github/workflows/perl-integration.yml
+3 −2 .github/workflows/scripts/mass-cppcheck.sh
+1 −1 .github/workflows/valid-xml.yml
+7 −7 .github/workflows/windows-binaries.yml
+3 −3 .github/workflows/windows-build.yml
+2 −0 expat/.gitignore
+7 −7 expat/CMake.README
+6 −6 expat/CMakeLists.txt
+128 −2 expat/Changes
+19 −2 expat/ConfigureChecks.cmake
+4 −3 expat/Makefile.am
+4 −3 expat/README.md
+0 −0 expat/cmake/autotools/expat__linux.cmake.in
+107 −0 expat/cmake/autotools/expat__macos.cmake.in
+107 −0 expat/cmake/autotools/expat__windows.cmake.in
+17 −7 expat/configure.ac
+164 −21 expat/doc/reference.html
+21 −7 expat/doc/xmlwf.xml
+12 −12 expat/expat_config.h.cmake
+4 −2 expat/fuzz/xml_lpm_fuzzer.cpp
+8 −6 expat/fuzz/xml_parse_fuzzer.c
+8 −6 expat/fuzz/xml_parsebuffer_fuzzer.c
+39 −25 expat/lib/expat.h
+62 −61 expat/lib/expat_external.h
+14 −0 expat/lib/internal.h
+3 −0 expat/lib/libexpat.def.cmake
+507 −145 expat/lib/xmlparse.c
+15 −21 expat/lib/xmlrole.h
+2 −2 expat/lib/xmltok.c
+113 −113 expat/lib/xmltok.h
+1 −1 expat/qa.sh
+237 −1 expat/tests/alloc_tests.c
+4 −0 expat/tests/basic_tests.c
+1 −1 expat/tests/handlers.c
+1 −2 expat/tests/minicheck.h
+95 −1 expat/tests/misc_tests.c
+6 −1 expat/tests/nsalloc_tests.c
+2 −2 expat/win32/README.txt
+2 −2 expat/win32/build_expat_iss.bat
+1 −1 expat/win32/expat.iss
+1 −1 expat/xmlwf/unixfilemap.c
+3 −3 expat/xmlwf/xmlfile.c
+16 −3 expat/xmlwf/xmlwf.c
+14 −4 expat/xmlwf/xmlwf_helpgen.py
2 changes: 1 addition & 1 deletion third_party/libSEDML
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Submodule libSEDML updated 1 files
+2 −5 CMakeLists.txt
2 changes: 1 addition & 1 deletion third_party/llvm-13.x
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Submodule llvm-13.x updated 11 files
+0 −8 .github/lockdown.yml
+1 −1 .github/workflows/README.md
+0 −49 .github/workflows/clang-tests.yml
+0 −158 .github/workflows/libclang-abi-tests.yml
+0 −60 .github/workflows/libclc-tests.yml
+0 −49 .github/workflows/lld-tests.yml
+0 −57 .github/workflows/lldb-tests.yml
+0 −185 .github/workflows/llvm-tests.yml
+211 −0 .github/workflows/main.yml
+0 −235 azure-pipelines.yml
+6 −4 llvm/CMakeLists.txt
2 changes: 1 addition & 1 deletion third_party/rr-libstruct
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Submodule rr-libstruct updated 1 files
+8 −1 lsMatrix.cpp
2 changes: 1 addition & 1 deletion third_party/sundials
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Submodule sundials updated 133 files