Merge pull request #179 from MiraGeoscience/GEOPY-2661

GEOPY-2661: Update minimum requirement to python >=3.12, <3.15 and numpy 2.*

Author: domfournier

.github/workflows/python_analysis.yml

@@ -33,7 +33,7 @@ jobs:
     with:
       package-manager: 'conda'
       app-name: 'geoapps_utils'
-      python-version: '3.10'
+      python-version: '3.12'
   call-workflow-pytest:
     name: Pytest
     uses: MiraGeoscience/CI-tools/.github/workflows/reusable-python-pytest.yml@v2
@@ -42,10 +42,10 @@ jobs:
       pull-requests: read
     with:
       package-manager: 'conda'
-      python-versions: '["3.10", "3.11", "3.12"]'
+      python-versions: '["3.12", "3.13", "3.14"]'
       os: '["ubuntu-latest", "windows-latest"]'
       cache-number: 1
-      codecov-reference-python-version: '3.10'
+      codecov-reference-python-version: '3.12'
       codecov-reference-os: '["windows-latest"]'
     secrets:
       CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}

.github/workflows/python_deploy_dev.yml

@@ -19,7 +19,7 @@ jobs:
       contents: write
     with:
       package-name: 'geoapps-utils'
-      python-version: '3.10'
+      python-version: '3.12'
       source-repo-names: '["public-noremote-conda-dev"]'
       conda-channels: '["conda-forge"]'
       publish-repo-names: '["public-noremote-conda-dev"]'
@@ -35,7 +35,7 @@ jobs:
       package-manager: 'poetry'
       package-name: 'geoapps-utils'
       version-tag: ${{ github.ref_name }}
-      python-version: '3.10'
+      python-version: '3.12'
       virtual-repo-names: '["public-pypi-dev", "test-pypi"]'
     secrets:
       JFROG_ARTIFACTORY_URL: ${{ secrets.JFROG_ARTIFACTORY_URL }}

.pre-commit-config.yaml

@@ -35,8 +35,8 @@ repos:
     hooks:
     -   id: mypy
         additional_dependencies: [
-            numpy==1.26.*,
-            pydantic==2.5.*,
+            numpy==2.4.*,
+            pydantic==2.12.*,
             tomli, # to read config from pyproject.toml
             types-PyYAML,
             types-toml,

deps-lock-config.yaml

@@ -1,5 +1,5 @@
 include_dev: True
 py_versions:
-  - "3.10"
-  - "3.11"
   - "3.12"
+  - "3.13"
+  - "3.14"

environments/env-python-3.10.yml environments/env-python-3.13.ymlenvironments/env-python-3.10.yml renamed to environments/env-python-3.13.yml

@@ -1,3 +1,3 @@
 dependencies:
-  - python=3.10.*
+  - python=3.13.*
   - pip

environments/env-python-3.11.yml environments/env-python-3.14.ymlenvironments/env-python-3.11.yml renamed to environments/env-python-3.14.yml

@@ -1,3 +1,3 @@
 dependencies:
-  - python=3.11.*
+  - python=3.14.*
   - pip

environments/py-3.12-linux-64-dev.conda.lock.yml

@@ -1,123 +1,123 @@
 # Generated by conda-lock.
 # platform: linux-64
-# input_hash: cc330f0a709db60370427f7464d7549374b896164057d19cf51e5f771c055502
+# input_hash: a88138472d5cf703033124b201e9efe5ddfd314346943b826d2af3fe2a691cdf
 
 channels:
   - conda-forge
   - nodefaults
 dependencies:
-  - _libgcc_mutex=0.1=conda_forge
-  - _openmp_mutex=4.5=2_gnu
+  - _openmp_mutex=4.5=20_gnu
   - annotated-types=0.7.0=pyhd8ed1ab_1
-  - astroid=4.0.2=py312h7900ff3_0
+  - astroid=4.0.4=py312h7900ff3_0
   - brotli=1.2.0=hed03a55_1
   - brotli-bin=1.2.0=hb03c661_1
-  - bzip2=1.0.8=hda65f42_8
+  - bzip2=1.0.8=hda65f42_9
   - c-ares=1.34.6=hb03c661_0
-  - ca-certificates=2025.11.12=hbd8a1cb_0
+  - ca-certificates=2026.1.4=hbd8a1cb_0
   - cached-property=1.5.2=hd8ed1ab_1
   - cached_property=1.5.2=pyha770c72_1
-  - certifi=2025.11.12=pyhd8ed1ab_0
   - colorama=0.4.6=pyhd8ed1ab_1
-  - contourpy=1.3.3=py312hd9148b4_3
-  - coverage=7.13.0=py312h8a5da7c_0
+  - contourpy=1.3.3=py312h0a2e395_4
+  - coverage=7.13.4=py312h8a5da7c_0
   - cycler=0.12.1=pyhcf101f3_2
-  - dill=0.4.0=pyhcf101f3_1
+  - dill=0.4.1=pyhcf101f3_0
   - exceptiongroup=1.3.1=pyhd8ed1ab_0
   - fonttools=4.61.1=py312h8a5da7c_0
   - freetype=2.14.1=ha770c72_0
   - h5py=3.15.1=nompi_py312ha4f8f14_101
-  - hdf5=1.14.6=nompi_h1b119a7_104
-  - icu=78.1=h33c6efd_0
+  - hdf5=1.14.6=nompi_h19486de_106
+  - icu=78.2=h33c6efd_0
   - importlib-metadata=8.7.0=pyhe01879c_1
   - iniconfig=2.3.0=pyhd8ed1ab_0
   - isort=7.0.0=pyhd8ed1ab_0
   - keyutils=1.6.3=hb9d3cd8_0
   - kiwisolver=1.4.9=py312h0a2e395_2
-  - krb5=1.21.3=h659f571_0
-  - lcms2=2.17=h717163a_0
-  - ld_impl_linux-64=2.45=default_hbd61a6d_105
+  - krb5=1.22.2=ha1258a1_0
+  - lcms2=2.18=h0c24ade_0
+  - ld_impl_linux-64=2.45.1=default_hbd61a6d_101
   - lerc=4.0.0=h0aef613_1
-  - libaec=1.1.4=h3f801dc_0
+  - libaec=1.1.5=h088129d_0
   - libblas=3.11.0=5_h4a7cf45_openblas
   - libbrotlicommon=1.2.0=hb03c661_1
   - libbrotlidec=1.2.0=hb03c661_1
   - libbrotlienc=1.2.0=hb03c661_1
   - libcblas=3.11.0=5_h0358290_openblas
-  - libcurl=8.17.0=h4e3cde8_1
+  - libcurl=8.18.0=hcf29cc6_1
   - libdeflate=1.25=h17f619e_0
   - libedit=3.1.20250104=pl5321h7949ede_0
   - libev=4.33=hd590300_2
-  - libexpat=2.7.3=hecca717_0
-  - libffi=3.5.2=h9ec8514_0
+  - libexpat=2.7.4=hecca717_0
+  - libffi=3.5.2=h3435931_0
   - libfreetype=2.14.1=ha770c72_0
   - libfreetype6=2.14.1=h73754d4_0
-  - libgcc=15.2.0=he0feb66_16
-  - libgcc-ng=15.2.0=h69a702a_16
-  - libgfortran=15.2.0=h69a702a_16
-  - libgfortran5=15.2.0=h68bc16d_16
-  - libgomp=15.2.0=he0feb66_16
+  - libgcc=15.2.0=he0feb66_17
+  - libgcc-ng=15.2.0=h69a702a_17
+  - libgfortran=15.2.0=h69a702a_17
+  - libgfortran5=15.2.0=h68bc16d_17
+  - libgomp=15.2.0=he0feb66_17
   - libjpeg-turbo=3.1.2=hb03c661_0
   - liblapack=3.11.0=5_h47877c9_openblas
-  - liblzma=5.8.1=hb9d3cd8_2
+  - liblzma=5.8.2=hb03c661_0
   - libnghttp2=1.67.0=had1ee68_0
   - libnsl=2.0.1=hb9d3cd8_1
   - libopenblas=0.3.30=pthreads_h94d23a6_4
-  - libpng=1.6.53=h421ea60_0
-  - libsqlite=3.51.1=hf4e2dac_1
+  - libpng=1.6.55=h421ea60_0
+  - libsqlite=3.51.2=hf4e2dac_0
   - libssh2=1.11.1=hcf80075_0
-  - libstdcxx=15.2.0=h934c35e_16
-  - libstdcxx-ng=15.2.0=hdf11a46_16
+  - libstdcxx=15.2.0=h934c35e_17
+  - libstdcxx-ng=15.2.0=hdf11a46_17
   - libtiff=4.7.1=h9d88235_1
   - libuuid=2.41.3=h5347b49_0
   - libwebp-base=1.6.0=hd42ef1d_0
   - libxcb=1.17.0=h8a09558_0
   - libxcrypt=4.4.36=hd590300_1
   - libzlib=1.3.1=hb9d3cd8_2
-  - matplotlib-base=3.8.4=py312h20ab3a6_2
+  - matplotlib-base=3.10.8=py312he3d6523_0
   - mccabe=0.7.0=pyhd8ed1ab_1
   - munkres=1.1.4=pyhd8ed1ab_1
   - ncurses=6.5=h2d0b736_3
-  - numpy=1.26.4=py312heda63a1_0
+  - numpy=2.4.2=py312h33ff503_1
   - openjpeg=2.5.4=h55fea9a_0
-  - openssl=3.6.0=h26f9b46_0
-  - packaging=25.0=pyh29332c3_1
-  - pillow=10.3.0=py312h287a98d_1
-  - pip=25.3=pyh8b19718_0
-  - platformdirs=4.5.1=pyhcf101f3_0
+  - openssl=3.6.1=h35e630c_1
+  - packaging=26.0=pyhcf101f3_0
+  - pillow=12.1.1=py312h50c33e8_0
+  - pip=26.0.1=pyh8b19718_0
+  - platformdirs=4.9.2=pyhcf101f3_0
   - pluggy=1.6.0=pyhf9edf01_1
   - pthread-stubs=0.4=hb9d3cd8_1002
   - pydantic=2.12.5=pyhcf101f3_1
   - pydantic-core=2.41.5=py312h868fb18_1
   - pygments=2.19.2=pyhd8ed1ab_0
   - pylint=4.0.4=pyhcf101f3_0
-  - pyparsing=3.3.1=pyhcf101f3_0
+  - pyparsing=3.3.2=pyhcf101f3_0
   - pytest=9.0.2=pyhcf101f3_0
   - pytest-cov=7.0.0=pyhcf101f3_1
-  - python=3.12.12=hd63d673_1_cpython
+  - python=3.12.12=hd63d673_2_cpython
   - python-dateutil=2.9.0.post0=pyhe01879c_2
   - python_abi=3.12=8_cp312
-  - pyyaml=6.0.3=py312h8a5da7c_0
+  - pyyaml=6.0.3=py312h8a5da7c_1
+  - qhull=2020.2=h434a139_5
   - readline=8.3=h853b02a_0
-  - scipy=1.14.1=py312h62794b6_2
-  - setuptools=80.9.0=pyhff2d567_0
+  - scipy=1.17.0=py312h54fa4ab_1
+  - setuptools=82.0.0=pyh332efcf_0
   - six=1.17.0=pyhe01879c_1
-  - tk=8.6.13=noxft_ha0e22de_103
-  - tomli=2.3.0=pyhcf101f3_0
-  - tomlkit=0.13.3=pyha770c72_0
+  - tk=8.6.13=noxft_h366c992_103
+  - tomli=2.4.0=pyhcf101f3_0
+  - tomlkit=0.14.0=pyha770c72_0
   - typing-extensions=4.15.0=h396c80c_0
   - typing-inspection=0.4.2=pyhd8ed1ab_1
   - typing_extensions=4.15.0=pyhcf101f3_0
-  - tzdata=2025c=h8577fbf_0
-  - unicodedata2=17.0.0=py312h4c3975b_1
-  - wheel=0.45.1=pyhd8ed1ab_1
+  - tzdata=2025c=hc9c84f9_1
+  - unicodedata2=17.0.1=py312h4c3975b_0
+  - wheel=0.46.3=pyhd8ed1ab_0
   - xorg-libxau=1.0.12=hb03c661_1
   - xorg-libxdmcp=1.1.5=hb03c661_1
   - yaml=0.2.5=h280c20c_3
   - zipp=3.23.0=pyhcf101f3_1
+  - zlib-ng=2.3.3=hceb46e0_1
   - zstd=1.5.7=hb78ec9c_6
   - pip:
-    - geoh5py @ git+https://github.com/MiraGeoscience/geoh5py.git@2ddfbccc8ad581c8810b4568fd5795b7148f0c34
+    - geoh5py @ git+https://github.com/MiraGeoscience/geoh5py.git@3310d7a4521879f99a0a56ce613f265423e73a8f
 
 variables:
   KMP_WARNINGS: 0

environments/py-3.12-linux-64.conda.lock.yml

@@ -1,103 +1,103 @@
 # Generated by conda-lock.
 # platform: linux-64
-# input_hash: cc330f0a709db60370427f7464d7549374b896164057d19cf51e5f771c055502
+# input_hash: a88138472d5cf703033124b201e9efe5ddfd314346943b826d2af3fe2a691cdf
 
 channels:
   - conda-forge
   - nodefaults
 dependencies:
-  - _libgcc_mutex=0.1=conda_forge
-  - _openmp_mutex=4.5=2_gnu
+  - _openmp_mutex=4.5=20_gnu
   - annotated-types=0.7.0=pyhd8ed1ab_1
   - brotli=1.2.0=hed03a55_1
   - brotli-bin=1.2.0=hb03c661_1
-  - bzip2=1.0.8=hda65f42_8
+  - bzip2=1.0.8=hda65f42_9
   - c-ares=1.34.6=hb03c661_0
-  - ca-certificates=2025.11.12=hbd8a1cb_0
+  - ca-certificates=2026.1.4=hbd8a1cb_0
   - cached-property=1.5.2=hd8ed1ab_1
   - cached_property=1.5.2=pyha770c72_1
-  - certifi=2025.11.12=pyhd8ed1ab_0
-  - contourpy=1.3.3=py312hd9148b4_3
+  - contourpy=1.3.3=py312h0a2e395_4
   - cycler=0.12.1=pyhcf101f3_2
   - fonttools=4.61.1=py312h8a5da7c_0
   - freetype=2.14.1=ha770c72_0
   - h5py=3.15.1=nompi_py312ha4f8f14_101
-  - hdf5=1.14.6=nompi_h1b119a7_104
-  - icu=78.1=h33c6efd_0
+  - hdf5=1.14.6=nompi_h19486de_106
+  - icu=78.2=h33c6efd_0
   - keyutils=1.6.3=hb9d3cd8_0
   - kiwisolver=1.4.9=py312h0a2e395_2
-  - krb5=1.21.3=h659f571_0
-  - lcms2=2.17=h717163a_0
-  - ld_impl_linux-64=2.45=default_hbd61a6d_105
+  - krb5=1.22.2=ha1258a1_0
+  - lcms2=2.18=h0c24ade_0
+  - ld_impl_linux-64=2.45.1=default_hbd61a6d_101
   - lerc=4.0.0=h0aef613_1
-  - libaec=1.1.4=h3f801dc_0
+  - libaec=1.1.5=h088129d_0
   - libblas=3.11.0=5_h4a7cf45_openblas
   - libbrotlicommon=1.2.0=hb03c661_1
   - libbrotlidec=1.2.0=hb03c661_1
   - libbrotlienc=1.2.0=hb03c661_1
   - libcblas=3.11.0=5_h0358290_openblas
-  - libcurl=8.17.0=h4e3cde8_1
+  - libcurl=8.18.0=hcf29cc6_1
   - libdeflate=1.25=h17f619e_0
   - libedit=3.1.20250104=pl5321h7949ede_0
   - libev=4.33=hd590300_2
-  - libexpat=2.7.3=hecca717_0
-  - libffi=3.5.2=h9ec8514_0
+  - libexpat=2.7.4=hecca717_0
+  - libffi=3.5.2=h3435931_0
   - libfreetype=2.14.1=ha770c72_0
   - libfreetype6=2.14.1=h73754d4_0
-  - libgcc=15.2.0=he0feb66_16
-  - libgcc-ng=15.2.0=h69a702a_16
-  - libgfortran=15.2.0=h69a702a_16
-  - libgfortran5=15.2.0=h68bc16d_16
-  - libgomp=15.2.0=he0feb66_16
+  - libgcc=15.2.0=he0feb66_17
+  - libgcc-ng=15.2.0=h69a702a_17
+  - libgfortran=15.2.0=h69a702a_17
+  - libgfortran5=15.2.0=h68bc16d_17
+  - libgomp=15.2.0=he0feb66_17
   - libjpeg-turbo=3.1.2=hb03c661_0
   - liblapack=3.11.0=5_h47877c9_openblas
-  - liblzma=5.8.1=hb9d3cd8_2
+  - liblzma=5.8.2=hb03c661_0
   - libnghttp2=1.67.0=had1ee68_0
   - libnsl=2.0.1=hb9d3cd8_1
   - libopenblas=0.3.30=pthreads_h94d23a6_4
-  - libpng=1.6.53=h421ea60_0
-  - libsqlite=3.51.1=hf4e2dac_1
+  - libpng=1.6.55=h421ea60_0
+  - libsqlite=3.51.2=hf4e2dac_0
   - libssh2=1.11.1=hcf80075_0
-  - libstdcxx=15.2.0=h934c35e_16
-  - libstdcxx-ng=15.2.0=hdf11a46_16
+  - libstdcxx=15.2.0=h934c35e_17
+  - libstdcxx-ng=15.2.0=hdf11a46_17
   - libtiff=4.7.1=h9d88235_1
   - libuuid=2.41.3=h5347b49_0
   - libwebp-base=1.6.0=hd42ef1d_0
   - libxcb=1.17.0=h8a09558_0
   - libxcrypt=4.4.36=hd590300_1
   - libzlib=1.3.1=hb9d3cd8_2
-  - matplotlib-base=3.8.4=py312h20ab3a6_2
+  - matplotlib-base=3.10.8=py312he3d6523_0
   - munkres=1.1.4=pyhd8ed1ab_1
   - ncurses=6.5=h2d0b736_3
-  - numpy=1.26.4=py312heda63a1_0
+  - numpy=2.4.2=py312h33ff503_1
   - openjpeg=2.5.4=h55fea9a_0
-  - openssl=3.6.0=h26f9b46_0
-  - packaging=25.0=pyh29332c3_1
-  - pillow=10.3.0=py312h287a98d_1
-  - pip=25.3=pyh8b19718_0
+  - openssl=3.6.1=h35e630c_1
+  - packaging=26.0=pyhcf101f3_0
+  - pillow=12.1.1=py312h50c33e8_0
+  - pip=26.0.1=pyh8b19718_0
   - pthread-stubs=0.4=hb9d3cd8_1002
   - pydantic=2.12.5=pyhcf101f3_1
   - pydantic-core=2.41.5=py312h868fb18_1
-  - pyparsing=3.3.1=pyhcf101f3_0
-  - python=3.12.12=hd63d673_1_cpython
+  - pyparsing=3.3.2=pyhcf101f3_0
+  - python=3.12.12=hd63d673_2_cpython
   - python-dateutil=2.9.0.post0=pyhe01879c_2
   - python_abi=3.12=8_cp312
+  - qhull=2020.2=h434a139_5
   - readline=8.3=h853b02a_0
-  - scipy=1.14.1=py312h62794b6_2
-  - setuptools=80.9.0=pyhff2d567_0
+  - scipy=1.17.0=py312h54fa4ab_1
+  - setuptools=82.0.0=pyh332efcf_0
   - six=1.17.0=pyhe01879c_1
-  - tk=8.6.13=noxft_ha0e22de_103
+  - tk=8.6.13=noxft_h366c992_103
   - typing-extensions=4.15.0=h396c80c_0
   - typing-inspection=0.4.2=pyhd8ed1ab_1
   - typing_extensions=4.15.0=pyhcf101f3_0
-  - tzdata=2025c=h8577fbf_0
-  - unicodedata2=17.0.0=py312h4c3975b_1
-  - wheel=0.45.1=pyhd8ed1ab_1
+  - tzdata=2025c=hc9c84f9_1
+  - unicodedata2=17.0.1=py312h4c3975b_0
+  - wheel=0.46.3=pyhd8ed1ab_0
   - xorg-libxau=1.0.12=hb03c661_1
   - xorg-libxdmcp=1.1.5=hb03c661_1
+  - zlib-ng=2.3.3=hceb46e0_1
   - zstd=1.5.7=hb78ec9c_6
   - pip:
-    - geoh5py @ git+https://github.com/MiraGeoscience/geoh5py.git@2ddfbccc8ad581c8810b4568fd5795b7148f0c34
+    - geoh5py @ git+https://github.com/MiraGeoscience/geoh5py.git@3310d7a4521879f99a0a56ce613f265423e73a8f
 
 variables:
   KMP_WARNINGS: 0