Merge branch 'main' into develop

Author: ntamas

.all-contributorsrc

@@ -630,6 +630,15 @@
       "contributions": [
         "code"
       ]
+    },
+    {
+      "login": "BeaMarton13",
+      "name": "Bea Márton",
+      "avatar_url": "https://avatars.githubusercontent.com/u/204701577?v=4",
+      "profile": "https://github.com/BeaMarton13",
+      "contributions": [
+        "code"
+      ]
     }
   ],
   "contributorsPerLine": 7

.github/workflows/build.yml

@@ -5,44 +5,36 @@ on: [push, pull_request]
 env:
   CIBW_ENVIRONMENT_PASS_LINUX: PYTEST_TIMEOUT
   CIBW_TEST_COMMAND: "cd {project} && pip install --prefer-binary '.[test]' && python -m pytest -v tests"
-  CIBW_SKIP: "cp36-* cp37-* cp38-* pp37-* pp38-*"
+  CIBW_SKIP: "cp38-* pp38-*"
   PYTEST_TIMEOUT: 60
 
 jobs:
   build_wheel_linux:
-    name: Build wheels on Linux (${{ matrix.wheel_arch }})
+    name: Build wheels on Linux (x86_64)
     runs-on: ubuntu-22.04
-    strategy:
-      fail-fast: false
-      matrix:
-        wheel_arch: [x86_64, i686]
-
     steps:
       - uses: actions/checkout@v4
         with:
           submodules: true
           fetch-depth: 0
 
       - name: Build wheels (manylinux)
-        uses: pypa/cibuildwheel@v2.23.3
+        uses: pypa/cibuildwheel@v3.0.0
         env:
           CIBW_BEFORE_BUILD: "yum install -y flex bison libxml2-devel zlib-devel cairo-devel && pip install -U cmake pip setuptools wheel && python setup.py build_c_core"
-          CIBW_BUILD: "*-manylinux_${{ matrix.wheel_arch }}"
+          CIBW_BUILD: "*-manylinux_x86_64"
           CIBW_ENABLE: pypy
-          # Skip tests for Python 3.10 onwards because SciPy does not have
-          # 32-bit wheels for Linux.
-          CIBW_TEST_SKIP: "cp310-manylinux_i686 cp311-manylinux_i686 cp312-manylinux_i686 cp313-manylinux_i686"
 
       - name: Build wheels (musllinux)
-        uses: pypa/cibuildwheel@v2.23.3
+        uses: pypa/cibuildwheel@v3.0.0
         env:
           CIBW_BEFORE_BUILD: "apk add flex bison libxml2-dev zlib-dev cairo-dev && pip install -U cmake pip setuptools wheel && python setup.py build_c_core"
-          CIBW_BUILD: "*-musllinux_${{ matrix.wheel_arch }}"
+          CIBW_BUILD: "*-musllinux_x86_64"
           CIBW_TEST_COMMAND: "cd {project} && pip install --prefer-binary '.[test-musl]' && python -m pytest -v tests"
 
       - uses: actions/upload-artifact@v4
         with:
-          name: wheels-linux-${{ matrix.wheel_arch }}
+          name: wheels-linux-x86_64
           path: ./wheelhouse/*.whl
 
   build_wheel_linux_aarch64_manylinux:
@@ -55,7 +47,7 @@ jobs:
           fetch-depth: 0
 
       - name: Build wheels (manylinux)
-        uses: pypa/cibuildwheel@v2.23.3
+        uses: pypa/cibuildwheel@v3.0.0
         env:
           CIBW_BEFORE_BUILD: "yum install -y flex bison libxml2-devel zlib-devel cairo-devel && pip install -U cmake pip setuptools wheel && python setup.py build_c_core"
           CIBW_ARCHS_LINUX: aarch64
@@ -77,7 +69,7 @@ jobs:
           fetch-depth: 0
 
       - name: Build wheels (musllinux)
-        uses: pypa/cibuildwheel@v2.23.3
+        uses: pypa/cibuildwheel@v3.0.0
         env:
           CIBW_BEFORE_BUILD: "apk add flex bison libxml2-dev zlib-dev cairo-dev && pip install -U cmake pip setuptools wheel && python setup.py build_c_core"
           CIBW_ARCHS_LINUX: aarch64
@@ -94,7 +86,7 @@ jobs:
     runs-on: macos-latest
     env:
       LLVM_VERSION: "14.0.5"
-      MACOSX_DEPLOYMENT_TARGET: "10.9"
+      MACOSX_DEPLOYMENT_TARGET: "10.15"
     strategy:
       matrix:
         include:
@@ -140,7 +132,7 @@ jobs:
           cmake --install .
 
       - name: Build wheels
-        uses: pypa/cibuildwheel@v2.23.3
+        uses: pypa/cibuildwheel@v3.0.0
         env:
           CIBW_ARCHS_MACOS: "${{ matrix.wheel_arch }}"
           CIBW_BEFORE_BUILD: "pip install -U setuptools && python setup.py build_c_core"
@@ -202,12 +194,12 @@ jobs:
           - cmake_arch: Win32
             wheel_arch: win32
             vcpkg_arch: x86
-            os: windows-2019
+            os: windows-2022
             test_extra: test
           - cmake_arch: x64
             wheel_arch: win_amd64
             vcpkg_arch: x64
-            os: windows-2019
+            os: windows-2022
             test_extra: test
           - cmake_arch: ARM64
             wheel_arch: win_arm64
@@ -246,7 +238,7 @@ jobs:
         shell: cmd
 
       - name: Build wheels
-        uses: pypa/cibuildwheel@v2.23.3
+        uses: pypa/cibuildwheel@v3.0.0
         env:
           CIBW_BEFORE_BUILD: "pip install -U setuptools && python setup.py build_c_core"
           CIBW_BUILD: "*-${{ matrix.wheel_arch }}"
@@ -339,21 +331,14 @@ jobs:
         with:
           python-version: "3.12"
 
-      - name: Install test dependencies
-        run: |
-          pip install --prefer-binary pytest pytest-timeout setuptools
-
-      - name: Build C core
-        env:
-          IGRAPH_USE_SANITIZERS: 1
-        run: |
-          python setup.py build_c_core
-
       - name: Build and install Python extension
         env:
           IGRAPH_USE_SANITIZERS: 1
         run: |
-          pip install .
+          pip install --prefer-binary '.[test]'
+          # Uninstall Matplotlib because Matplotlib-related tests cause false positives in the
+          # leak sanitizer checks
+          pip uninstall -y matplotlib
 
       # Only pytest, and nothing else should be run in this section due to the presence of LD_PRELOAD.
       # The ASan/UBSan library versions need to be updated when switching to a newer Ubuntu/GCC.

CHANGELOG.md

@@ -2,11 +2,14 @@
 
 ## [main]
 
+## [0.11.9] - 2025-06-11
+
 ### Changed
 
 - Dropped support for Python 3.8 as it has now reached its end of life.
 
-- The C core of igraph was updated to version 0.10.15.
+- The C core of igraph was updated to version 0.10.16.
+
 - Added `Graph.simple_cycles()` to find simple cycles in the graph.
 
 ## [0.11.8] - 2024-10-25
@@ -44,31 +47,31 @@
 
 ### Added
 
- - Added `Graph.Hypercube()` for creating n-dimensional hypercube graphs.
+- Added `Graph.Hypercube()` for creating n-dimensional hypercube graphs.
 
- - Added `Graph.Chung_Lu()` for sampling from the Chung-Lu model as well as
-   several related models.
+- Added `Graph.Chung_Lu()` for sampling from the Chung-Lu model as well as
+  several related models.
 
- - Added `Graph.is_complete()` to test if there is a connection between all
-   distinct pairs of vertices.
+- Added `Graph.is_complete()` to test if there is a connection between all
+  distinct pairs of vertices.
 
- - Added `Graph.is_clique()` to test if a set of vertices forms a clique.
+- Added `Graph.is_clique()` to test if a set of vertices forms a clique.
 
- - Added `Graph.is_independent_vertex_set()` to test if some vertices form an
-   independent set.
+- Added `Graph.is_independent_vertex_set()` to test if some vertices form an
+  independent set.
 
- - Added `Graph.mean_degree()` for a convenient way to compute the average
-   degree of a graph.
+- Added `Graph.mean_degree()` for a convenient way to compute the average
+  degree of a graph.
 
 ### Changed
 
- - The C core of igraph was updated to version 0.10.13.
+- The C core of igraph was updated to version 0.10.13.
 
- - `Graph.rewire()` now attempts to perform edge swaps 10 times the number of
-   edges by default.
+- `Graph.rewire()` now attempts to perform edge swaps 10 times the number of
+  edges by default.
 
- - Error messages issued when an attribute is not found now mention the name
-   and type of that attribute.
+- Error messages issued when an attribute is not found now mention the name
+  and type of that attribute.
 
 ## [0.11.5] - 2024-05-07
 
@@ -88,18 +91,18 @@
 
 - Deprecated `PyCObject` API calls in the C code were replaced by calls to
   `PyCapsule`, thanks to @DavidRConnell in
-  https://github.com/igraph/python-igraph/pull/763
+  <https://github.com/igraph/python-igraph/pull/763>
 
 - `get_shortest_path()` documentation was clarified by @JDPowell648 in
-  https://github.com/igraph/python-igraph/pull/764
+  <https://github.com/igraph/python-igraph/pull/764>
 
 - It is now possible to link to an existing igraph C core on MSYS2, thanks to
-  @Kreijstal in https://github.com/igraph/python-igraph/pull/770
+  @Kreijstal in <https://github.com/igraph/python-igraph/pull/770>
 
 ### Fixed
 
 - Bugfix in the NetworkX graph conversion code by @rmmaf in
-  https://github.com/igraph/python-igraph/pull/767
+  <https://github.com/igraph/python-igraph/pull/767>
 
 ## [0.11.4]
 
@@ -720,11 +723,12 @@
 ## [0.8.3]
 
 This is the last released version of `python-igraph` without a changelog file.
-Please refer to the commit logs at https://github.com/igraph/python-igraph for
+Please refer to the commit logs at <https://github.com/igraph/python-igraph> for
 a list of changes affecting versions up to 0.8.3. Notable changes after 0.8.3
 are documented above.
 
-[main]: https://github.com/igraph/python-igraph/compare/0.11.8...main
+[main]: https://github.com/igraph/python-igraph/compare/0.11.9...main
+[0.11.9]: https://github.com/igraph/python-igraph/compare/0.11.8...0.11.9
 [0.11.8]: https://github.com/igraph/python-igraph/compare/0.11.7...0.11.8
 [0.11.7]: https://github.com/igraph/python-igraph/compare/0.11.6...0.11.7
 [0.11.6]: https://github.com/igraph/python-igraph/compare/0.11.5...0.11.6

CONTRIBUTORS.md

@@ -95,6 +95,7 @@ Thanks goes to these wonderful people ([emoji key](https://allcontributors.org/d
       <td align="center" valign="top" width="14.28%"><a href="https://github.com/m1-s"><img src="https://avatars.githubusercontent.com/u/94642227?v=4?s=100" width="100px;" alt="Michael Schneider"/><br /><sub><b>Michael Schneider</b></sub></a><br /><a href="https://github.com/igraph/python-igraph/commits?author=m1-s" title="Code">💻</a></td>
       <td align="center" valign="top" width="14.28%"><a href="http://thomaskrijnen.com/"><img src="https://avatars.githubusercontent.com/u/1096535?v=4?s=100" width="100px;" alt="Thomas Krijnen"/><br /><sub><b>Thomas Krijnen</b></sub></a><br /><a href="https://github.com/igraph/python-igraph/commits?author=aothms" title="Code">💻</a></td>
       <td align="center" valign="top" width="14.28%"><a href="https://github.com/GenieTim"><img src="https://avatars.githubusercontent.com/u/8596965?v=4?s=100" width="100px;" alt="Tim Bernhard"/><br /><sub><b>Tim Bernhard</b></sub></a><br /><a href="https://github.com/igraph/python-igraph/commits?author=GenieTim" title="Code">💻</a></td>
+      <td align="center" valign="top" width="14.28%"><a href="https://github.com/BeaMarton13"><img src="https://avatars.githubusercontent.com/u/204701577?v=4?s=100" width="100px;" alt="Bea Márton"/><br /><sub><b>Bea Márton</b></sub></a><br /><a href="https://github.com/igraph/python-igraph/commits?author=BeaMarton13" title="Code">💻</a></td>
     </tr>
   </tbody>
 </table>

MANIFEST.in

@@ -8,6 +8,10 @@ include scripts/*.sh
 include scripts/*.py
 include tests/*.py
 
+include CHANGELOG.md
+include CONTRIBUTORS.md
+include CITATION.cff
+
 graft vendor/source/igraph
 
 graft doc

src/_igraph/edgeseqobject.c

@@ -849,7 +849,7 @@ PyObject* igraphmodule_EdgeSeq_select(igraphmodule_EdgeSeqObject *self, PyObject
       igraph_vector_int_destroy(&v);
     } else {
       /* Iterators and everything that was not handled directly */
-      PyObject *iter, *item2;
+      PyObject *iter = NULL, *item2 = NULL;
 
       /* Allocate stuff */
       if (igraph_vector_int_init(&v, 0)) {

src/_igraph/error.c

@@ -61,7 +61,20 @@ PyObject* igraphmodule_handle_igraph_error() {
 void igraphmodule_igraph_warning_hook(const char *reason, const char *file,
                                       int line) {
   char buf[4096];
-  snprintf(buf, sizeof(buf), "%s at %s:%i", reason, file, line);
+  char end;
+  size_t len = strlen(reason);
+  const char* separator = " ";
+
+  if (len == 0) {
+    separator = "";
+  } else {
+    end = reason[len - 1];
+    if (end != '.' && end != '?' && end != '!') {
+      separator = ". ";
+    }
+  }
+
+  snprintf(buf, sizeof(buf), "%s%sLocation: %s:%i", reason, separator, file, line);
   PY_IGRAPH_WARN(buf);
 }
 

src/igraph/version.py

@@ -1,2 +1,2 @@
-__version_info__ = (0, 11, 8)
+__version_info__ = (0, 11, 9)
 __version__ = ".".join("{0}".format(x) for x in __version_info__)