Merge branch 'main' into ci/check-links

Author: seisman

.github/ISSUE_TEMPLATE/4-release_checklist.md

@@ -23,11 +23,13 @@ assignees: ''
 - [ ] Check [SPEC 0](https://scientific-python.org/specs/spec-0000/) to see if we need to bump the minimum supported versions of GMT, Python and core package dependencies (NumPy, pandas, Xarray)
 - [ ] Review the ["PyGMT Team" page](https://www.pygmt.org/dev/team.html)
 - [ ] README looks good on TestPyPI. Visit [TestPyPI](https://test.pypi.org/project/pygmt/#history), click the latest pre-release, and check the homepage.
+- [ ] Review new parameter names added/changed for clarity and consistency across the API
 - [ ] Check to ensure that:
   - [ ] Deprecated workarounds/codes/tests are removed. Run `grep -r "# TODO" --include="*.py" .` to find all potential TODOs.
   - [ ] All tests pass in the ["GMT Legacy Tests" workflow](https://github.com/GenericMappingTools/pygmt/actions/workflows/ci_tests_legacy.yaml)
   - [ ] All tests pass in the ["GMT Dev Tests" workflow](https://github.com/GenericMappingTools/pygmt/actions/workflows/ci_tests_dev.yaml)
   - [ ] All tests pass in the ["Doctests" workflow](https://github.com/GenericMappingTools/pygmt/actions/workflows/ci_doctests.yaml)
+  - [ ] All links work in the ["Check Links" workflow](https://github.com/GenericMappingTools/pygmt/actions/workflows/check-links.yml)
 - [ ] Update warnings in `pygmt/_show_versions.py` as well as notes in [Not working transparency](https://www.pygmt.org/dev/install.html#not-working-transparency) regarding GMT-Ghostscript incompatibility
 - [ ] Reserve a DOI on [Zenodo](https://zenodo.org) by clicking on "New Version"
 - [ ] Finish up the "Changelog entry for v0.x.x" Pull Request (Use the previous changelog PR as a reference)
@@ -52,7 +54,7 @@ assignees: ''
 - [ ] Bump PyGMT version on https://github.com/GenericMappingTools/try-gmt (after conda-forge update)
 - [ ] Announce the release on:
   - [ ] GMT [forum](https://forum.generic-mapping-tools.org/c/news/) (do this announcement first! Requires moderator status)
-  - [ ] [ResearchGate](https://www.researchgate.net) (after forum announcement; download the ZIP file of the new release from the release page and add it as research item via the **code** category, be sure to include the corresponding new Zenodo DOI)
+  - [ ] [ResearchGate](https://www.researchgate.net) (after forum announcement; download the ZIP file of the new release from Zenodo and add it as research item via the **code** category, be sure to include the corresponding new Zenodo DOI)
 - [ ] Update release checklist template with any additional bullet points that may have arisen during the release
 
 ---

.github/workflows/check-links.yml

@@ -63,6 +63,7 @@ jobs:
           --exclude "^https://hackmd.io/@pygmt"
           --exclude "^https://test.pypi.org/simple/"
           --exclude "^https://www.adobe.com/jp/print/postscript/pdfs/PLRM.pdf"
+          --exclude "^https://naciscdn.org/naturalearth"
           --exclude "^https://www.generic-mapping-tools.org/remote-datasets/%s$"
           --exclude "^https://www.gnu.org/software/libc/manual/html_node/TZ-Variable.html"
           --exclude "^https://www.pygmt.org/%7B%7Bpath%7D%7D"

.github/workflows/ci_tests.yaml

@@ -151,7 +151,7 @@ jobs:
           GH_TOKEN: ${{ github.token }}
 
       - name: Install uv
-        uses: astral-sh/setup-uv@681c641aba71e4a1c380be3ab5e12ad51f415867 # v7.1.6
+        uses: astral-sh/setup-uv@61cb8a9741eeb8a550a1b8544337180c0fc8476b # v7.2.0
         with:
           activate-environment: true
           python-version: ${{ matrix.python-version }}

.github/workflows/ci_tests_dev.yaml

@@ -103,44 +103,30 @@ jobs:
 
       # Build GMT from source on Linux/macOS, script is adapted from
       # https://github.com/GenericMappingTools/gmt/blob/6.5.0/ci/build-gmt.sh
-      - name: Build GMT on Linux/macOS
-        run: |
-          cd gmt/
-          mkdir build
-          cd build
-          cmake -G Ninja .. \
-            -DCMAKE_INSTALL_PREFIX=${GMT_INSTALL_DIR} \
-            -DCMAKE_BUILD_TYPE=Release \
-            -DGMT_ENABLE_OPENMP=TRUE \
-            -DGMT_USE_THREADS=TRUE
-          cmake --build .
-          cmake --build . --target install
-          cd ..
-          rm -rf gmt/
-        env:
-          GMT_INSTALL_DIR: ${{ runner.temp }}/gmt-install-dir
-        if: runner.os != 'Windows'
-
-      - name: Build GMT on Windows
+      - name: Build GMT from source
         shell: bash
         run: |
           cd gmt/
           mkdir build
           cd build
-          cmd.exe /c "C:\Program Files\Microsoft Visual Studio\2022\Enterprise\VC\Auxiliary\Build\vcvars64.bat"
+          if [[ "$RUNNER_OS" == "Windows" ]]; then
+            cmd.exe /c "C:\Program Files\Microsoft Visual Studio\2022\Enterprise\VC\Auxiliary\Build\vcvars64.bat"
+            CMAKE_PREFIX_PATH="$MAMBA_ROOT_PREFIX/envs/pygmt/Library"
+          else
+            CMAKE_PREFIX_PATH="$MAMBA_ROOT_PREFIX/envs/pygmt"
+          fi
           cmake -G Ninja .. \
+            -DCMAKE_PREFIX_PATH="$CMAKE_PREFIX_PATH" \
             -DCMAKE_INSTALL_PREFIX="$GMT_INSTALL_DIR" \
             -DCMAKE_BUILD_TYPE=Release \
-            -DCMAKE_PREFIX_PATH="$MAMBA_ROOT_PREFIX/envs/pygmt/Library" \
             -DGMT_ENABLE_OPENMP=TRUE \
             -DGMT_USE_THREADS=TRUE
           cmake --build .
           cmake --build . --target install
           cd ..
-          rm -rf gmt/
+          rm -rf build
         env:
           GMT_INSTALL_DIR: ${{ runner.temp }}/gmt-install-dir
-        if: runner.os == 'Windows'
 
       - name: Add GMT's bin to PATH
         run: echo '${{ runner.temp }}/gmt-install-dir/bin' >> $GITHUB_PATH

.github/workflows/format-command.yml

@@ -33,7 +33,7 @@ jobs:
 
       # Setup Python environment
       - name: Set up Python and install dependencies
-        uses: actions/setup-python@v6.1.0
+        uses: actions/setup-python@v6.2.0
         with:
           python-version: '3.14'
           pip-install: ruff prek

.github/workflows/publish-to-pypi.yml

@@ -50,7 +50,7 @@ jobs:
         persist-credentials: false
 
     - name: Set up Python and install dependencies
-      uses: actions/setup-python@v6.1.0
+      uses: actions/setup-python@v6.2.0
       with:
         python-version: '3.14'
         pip-install: build

.github/workflows/release-drafter.yml

@@ -23,7 +23,7 @@ jobs:
 
     steps:
       # Drafts your next Release notes as Pull Requests are merged into "main"
-      - uses: release-drafter/release-drafter@b1476f6e6eb133afa41ed8589daba6dc69b4d3f5 # v6.1.0
+      - uses: release-drafter/release-drafter@6db134d15f3909ccc9eefd369f02bd1e9cffdf97 # v6.2.0
         with:
           # (Optional) specify config name to use, relative to .github/. Default: release-drafter.yml
           config-name: release-drafter.yml

.github/workflows/style_checks.yaml

@@ -31,7 +31,7 @@ jobs:
           persist-credentials: false
 
       - name: Set up Python and install dependencies
-        uses: actions/setup-python@v6.1.0
+        uses: actions/setup-python@v6.2.0
         with:
           python-version: '3.14'
           pip-install: ruff prek

.github/workflows/type_checks.yml

@@ -41,7 +41,7 @@ jobs:
 
       # Setup Python
       - name: Set up Python
-        uses: actions/setup-python@v6.1.0
+        uses: actions/setup-python@v6.2.0
         with:
           python-version: '3.14'
           # Need to install following packages:

.mailmap

@@ -1,21 +1,30 @@
 # Map author/committer names and/or email addresses for git.
 # Reference: https://git-scm.com/docs/gitmailmap
+
+# Canonical identities: "Canonical Name <Canonical Email>"
 Dongdong Tian <seisman.info@gmail.com>
-Dongdong Tian <seisman.info@gmail.com> <seisman@users.noreply.github.com>
 Jiayuan Yao <coreman.seism@gmail.com>
-Jiayuan Yao <coreman.seism@gmail.com> <core-man@users.noreply.github.com>
 Jing-Hui Tong <86273921+JingHuiTong@users.noreply.github.com>
-Jing-Hui Tong <86273921+JingHuiTong@users.noreply.github.com> <r0922422020@g.ntu.edu.tw>
 Max Jones <14077947+maxrjones@users.noreply.github.com>
+Michael Grund <23025878+michaelgrund@users.noreply.github.com>
+Wei Ji Leong <23487320+weiji14@users.noreply.github.com>
+Will Schlitzer <schlitzer90@gmail.com>
+Xingchen He <chuanjun@stu.cdut.edu.cn>
+Yvonne Fröhlich <94163266+yvonnefroehlich@users.noreply.github.com>
+
+# Alias mappings: "Canonical Name <Canonical Email> <Alias Email>"
+Dongdong Tian <seisman.info@gmail.com> <seisman@users.noreply.github.com>
+Jiayuan Yao <coreman.seism@gmail.com> <core-man@users.noreply.github.com>
+Jing-Hui Tong <86273921+JingHuiTong@users.noreply.github.com> <r0922422020@g.ntu.edu.tw>
 Max Jones <14077947+maxrjones@users.noreply.github.com> <meghanj@alum.mit.edu>
 Max Jones <14077947+maxrjones@users.noreply.github.com> <meghanj@hawaii.edu>
 Max Jones <14077947+maxrjones@users.noreply.github.com> <meghanrjones@users.noreply.github.com>
-Michael Grund <michael_grund@gmx.de> <23025878+michaelgrund@users.noreply.github.com>
-Michael Grund <michael_grund@gmx.de> <michael.grund@kit.edu>
-Michael Grund <michael_grund@gmx.de> <michaelgrund@users.noreply.github.com>
-Wei Ji Leong <23487320+weiji14@users.noreply.github.com>
+Michael Grund <23025878+michaelgrund@users.noreply.github.com> <michael_grund@gmx.de>
+Michael Grund <23025878+michaelgrund@users.noreply.github.com> <michael.grund@kit.edu>
+Michael Grund <23025878+michaelgrund@users.noreply.github.com> <michaelgrund@users.noreply.github.com>
 Wei Ji Leong <23487320+weiji14@users.noreply.github.com> <weiji.leong@vuw.ac.nz>
 Wei Ji Leong <23487320+weiji14@users.noreply.github.com> <weiji14@users.noreply.github.com>
 Will Schlitzer <schlitzer90@gmail.com> <willschlitzer@users.noreply.github.com>
+Xingchen He <chuanjun@stu.cdut.edu.cn> <chuanjun1978@gmail.com>
 Yvonne Fröhlich <94163266+yvonnefroehlich@users.noreply.github.com> <yvonne.froehlich@kit.edu>
 Yvonne Fröhlich <94163266+yvonnefroehlich@users.noreply.github.com> <yfroe@gpiseis16.gpi.kit.edu>