PyPartMC 1.1.3__tar.gz → 1.1.4__tar.gz

{PyPartMC-1.1.3 → PyPartMC-1.1.4}/.github/workflows/readme_listings.yml

@@ -75,7 +75,9 @@ jobs:
         with:
           submodules: recursive
 
-      - run: sudo apt-get install libnetcdff-dev
+      - run: |
+          sudo apt-get update
+          sudo apt-get install libnetcdff-dev
       - run: |
           cd readme_fortran
           mkdir build

{PyPartMC-1.1.3 → PyPartMC-1.1.4}/.github/workflows/tests+pypi.yml

@@ -130,10 +130,14 @@ jobs:
           python-version: ${{ matrix.python-version }}
 
       - if: matrix.python-version == 'system'
-        run: sudo ln -s `which python3` /usr/local/bin/python
+        run: |
+          sudo ln -s `which python3` /usr/local/bin/python
+          echo PIP_INSTALL_OPTS=--break-system-packages >> $GITHUB_ENV
+
+      - if: matrix.python-version != 'system'
+        run: python -m pip install --upgrade pip==22.1.2
 
-      - run: python -m pip install --upgrade pip==22.1.2
-      - run: pip install "build<1.1" wheel
+      - run: python -m pip install $PIP_INSTALL_OPTS "build<1.1" wheel
       - run: cmake --version
       - run: |
           unset CI
@@ -183,23 +187,23 @@ jobs:
       - env:
           SYSTEM_VERSION_COMPAT: 0 
         run: |
-          pip debug --verbose
-          for i in dist/*.whl; do pip install $i[tests]; done;
-          pip show --verbose PyPartMC
+          python -m pip debug --verbose
+          for i in dist/*.whl; do python -m pip install $PIP_INSTALL_OPTS $i[tests]; done;
+          python -m pip show --verbose PyPartMC
 
       ### make sure PyPartMC is not picked up from a local folder
       - run: |
           cd tests
           python -c "import PyPartMC"
-          pytest --durations=10 -v -s -We -p no:unraisableexception .
+          python -m pytest --durations=10 -v -s -We -p no:unraisableexception .
           cd ..
 
       - if: matrix.python-version != '3.7'
         run: |
-          pip install -r gitmodules/devops_tests/requirements.txt
+          python -m pip install $PIP_INSTALL_OPTS -r gitmodules/devops_tests/requirements.txt
           ex -sc 'g/^PyPartMC/d' -cx .binder/requirements.txt
-          pip install -r .binder/requirements.txt
-          GITHUB_TOKEN=${{ secrets.GITHUB_TOKEN }} pytest --durations=10 -v -s -We -p no:unraisableexception gitmodules/devops_tests
+          python -m pip install $PIP_INSTALL_OPTS -r .binder/requirements.txt
+          GITHUB_TOKEN=${{ secrets.GITHUB_TOKEN }} python -m pytest --durations=10 -v -s -We -p no:unraisableexception gitmodules/devops_tests
 
 ### uncomment to gain ssh access in case of failure
 #      - if: ${{ failure() }}

{PyPartMC-1.1.3/PyPartMC.egg-info → PyPartMC-1.1.4}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: PyPartMC
-Version: 1.1.3
+Version: 1.1.4
 Summary: Python interface to PartMC
 Author: PyPartMC team (see https://github.com/open-atmos/PyPartMC/graphs/contributors)
 Author-email: nriemer@illinois.edu
@@ -30,7 +30,8 @@ The Python API can facilitate using PartMC from other environments - see, e.g.,
 For an outline of the project, rationale, architecture, and features, refer to: [D'Aquino et al., 2024 (SoftwareX)](https://doi.org/10.1016/j.softx.2023.101613) (please cite if PyPartMC is used in your research).
 For a list of talks and other relevant resources, please see [project Wiki](https://github.com/open-atmos/PyPartMC/wiki/).
 
-[![US Funding](https://img.shields.io/static/v1?label=US%20DOE%20Funding%20by&color=267c32&message=ASR&logoWidth=25&logo=image/png;base64,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)](https://asr.science.energy.gov/)
+[![US Funding](https://img.shields.io/static/v1?label=US%20DOE%20Funding%20by&color=267c32&message=ASR&logoWidth=25&logo=image/png;base64,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)](https://asr.science.energy.gov/) [![PL Funding](https://img.shields.io/static/v1?label=PL%20Funding%20by&color=d21132&message=NCN&logoWidth=25&logo=image/png;base64,iVBORw0KGgoAAAANSUhEUgAAABQAAAANCAYAAACpUE5eAAAABmJLR0QA/wD/AP+gvaeTAAAAKUlEQVQ4jWP8////fwYqAiZqGjZqIHUAy4dJS6lqIOMdEZvRZDPcDQQAb3cIaY1Sbi4AAAAASUVORK5CYII=)](https://www.ncn.gov.pl/?language=en)
+   
 [![License: GPL v3](https://img.shields.io/badge/License-GPL%20v3-blue.svg)](https://www.gnu.org/licenses/gpl-3.0.html)
 [![Copyright](https://img.shields.io/static/v1?label=Copyright&color=249fe2&message=UIUC&)](https://atmos.illinois.edu/)
 [![Github Actions Build Status](https://github.com/open-atmos/PyPartMC/workflows/tests+pypi/badge.svg?branch=main)](https://github.com/open-atmos/PyPartMC/actions)
@@ -301,6 +302,12 @@ flowchart TD
 ```
 
 ## FAQ
+- Q: How to install PyPartMC with MOSAIC enabled?    
+  A: Installation can be done using `pip`, however, `pip` needs to be instructed not to use binary packages available at pypi.org but rather to compile from source (pip will download the source from pip.org), and the path to compiled MOSAIC library needs to be provided at compile-time; the following command should convey it:
+```bash
+MOSAIC_HOME=<<PATH_TO_MOSAIC_LIB>> pip install --force-reinstall --no-binary=PyPartMC PyPartMC
+```
+
 - Q: Why `pip install PyPartMC` triggers compilation on my brand new Apple machine, while it quickly downloads and installs binary packages when executed on older Macs, Windows or Linux?    
   A: We are not yet providing binary wheels on PyPI for Apple-silicon (arm64) machines. Cross-compilation with gfortran is only supported with experimental unofficial builds [and is tricky](https://github.com/iains/gcc-12-branch/issues/23), while Github Actions ARM64 virtual machines are [costly](https://docs.github.com/en/billing/managing-billing-for-github-actions/about-billing-for-github-actions#minute-multipliers).  
 
@@ -349,7 +356,7 @@ PyPartMC codebase benefits from Pylint, Black and isort code analysis (which are
 #### PyPartMC:
 
 authors: [PyPartMC developers](https://github.com/open-atmos/PyPartMC/graphs/contributors)   
-funding: [US Department of Energy Atmospheric System Research programme](https://asr.science.energy.gov/)   
+funding: [US Department of Energy Atmospheric System Research programme](https://asr.science.energy.gov/), [Polish National Science Centre](https://ncn.gov.pl/en)   
 copyright: [University of Illinois at Urbana-Champaign](https://atmos.illinois.edu/)   
 licence: [GPL v3](https://www.gnu.org/licenses/gpl-3.0.en.html)
 

{PyPartMC-1.1.3 → PyPartMC-1.1.4/PyPartMC.egg-info}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: PyPartMC
-Version: 1.1.3
+Version: 1.1.4
 Summary: Python interface to PartMC
 Author: PyPartMC team (see https://github.com/open-atmos/PyPartMC/graphs/contributors)
 Author-email: nriemer@illinois.edu
@@ -30,7 +30,8 @@ The Python API can facilitate using PartMC from other environments - see, e.g.,
 For an outline of the project, rationale, architecture, and features, refer to: [D'Aquino et al., 2024 (SoftwareX)](https://doi.org/10.1016/j.softx.2023.101613) (please cite if PyPartMC is used in your research).
 For a list of talks and other relevant resources, please see [project Wiki](https://github.com/open-atmos/PyPartMC/wiki/).
 
-[![US Funding](https://img.shields.io/static/v1?label=US%20DOE%20Funding%20by&color=267c32&message=ASR&logoWidth=25&logo=image/png;base64,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)](https://asr.science.energy.gov/)
+[![US Funding](https://img.shields.io/static/v1?label=US%20DOE%20Funding%20by&color=267c32&message=ASR&logoWidth=25&logo=image/png;base64,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)](https://asr.science.energy.gov/) [![PL Funding](https://img.shields.io/static/v1?label=PL%20Funding%20by&color=d21132&message=NCN&logoWidth=25&logo=image/png;base64,iVBORw0KGgoAAAANSUhEUgAAABQAAAANCAYAAACpUE5eAAAABmJLR0QA/wD/AP+gvaeTAAAAKUlEQVQ4jWP8////fwYqAiZqGjZqIHUAy4dJS6lqIOMdEZvRZDPcDQQAb3cIaY1Sbi4AAAAASUVORK5CYII=)](https://www.ncn.gov.pl/?language=en)
+   
 [![License: GPL v3](https://img.shields.io/badge/License-GPL%20v3-blue.svg)](https://www.gnu.org/licenses/gpl-3.0.html)
 [![Copyright](https://img.shields.io/static/v1?label=Copyright&color=249fe2&message=UIUC&)](https://atmos.illinois.edu/)
 [![Github Actions Build Status](https://github.com/open-atmos/PyPartMC/workflows/tests+pypi/badge.svg?branch=main)](https://github.com/open-atmos/PyPartMC/actions)
@@ -301,6 +302,12 @@ flowchart TD
 ```
 
 ## FAQ
+- Q: How to install PyPartMC with MOSAIC enabled?    
+  A: Installation can be done using `pip`, however, `pip` needs to be instructed not to use binary packages available at pypi.org but rather to compile from source (pip will download the source from pip.org), and the path to compiled MOSAIC library needs to be provided at compile-time; the following command should convey it:
+```bash
+MOSAIC_HOME=<<PATH_TO_MOSAIC_LIB>> pip install --force-reinstall --no-binary=PyPartMC PyPartMC
+```
+
 - Q: Why `pip install PyPartMC` triggers compilation on my brand new Apple machine, while it quickly downloads and installs binary packages when executed on older Macs, Windows or Linux?    
   A: We are not yet providing binary wheels on PyPI for Apple-silicon (arm64) machines. Cross-compilation with gfortran is only supported with experimental unofficial builds [and is tricky](https://github.com/iains/gcc-12-branch/issues/23), while Github Actions ARM64 virtual machines are [costly](https://docs.github.com/en/billing/managing-billing-for-github-actions/about-billing-for-github-actions#minute-multipliers).  
 
@@ -349,7 +356,7 @@ PyPartMC codebase benefits from Pylint, Black and isort code analysis (which are
 #### PyPartMC:
 
 authors: [PyPartMC developers](https://github.com/open-atmos/PyPartMC/graphs/contributors)   
-funding: [US Department of Energy Atmospheric System Research programme](https://asr.science.energy.gov/)   
+funding: [US Department of Energy Atmospheric System Research programme](https://asr.science.energy.gov/), [Polish National Science Centre](https://ncn.gov.pl/en)   
 copyright: [University of Illinois at Urbana-Champaign](https://atmos.illinois.edu/)   
 licence: [GPL v3](https://www.gnu.org/licenses/gpl-3.0.en.html)
 

{PyPartMC-1.1.3 → PyPartMC-1.1.4}/README.md

@@ -10,7 +10,8 @@ The Python API can facilitate using PartMC from other environments - see, e.g.,
 For an outline of the project, rationale, architecture, and features, refer to: [D'Aquino et al., 2024 (SoftwareX)](https://doi.org/10.1016/j.softx.2023.101613) (please cite if PyPartMC is used in your research).
 For a list of talks and other relevant resources, please see [project Wiki](https://github.com/open-atmos/PyPartMC/wiki/).
 
-[![US Funding](https://img.shields.io/static/v1?label=US%20DOE%20Funding%20by&color=267c32&message=ASR&logoWidth=25&logo=image/png;base64,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)](https://asr.science.energy.gov/)
+[![US Funding](https://img.shields.io/static/v1?label=US%20DOE%20Funding%20by&color=267c32&message=ASR&logoWidth=25&logo=image/png;base64,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)](https://asr.science.energy.gov/) [![PL Funding](https://img.shields.io/static/v1?label=PL%20Funding%20by&color=d21132&message=NCN&logoWidth=25&logo=image/png;base64,iVBORw0KGgoAAAANSUhEUgAAABQAAAANCAYAAACpUE5eAAAABmJLR0QA/wD/AP+gvaeTAAAAKUlEQVQ4jWP8////fwYqAiZqGjZqIHUAy4dJS6lqIOMdEZvRZDPcDQQAb3cIaY1Sbi4AAAAASUVORK5CYII=)](https://www.ncn.gov.pl/?language=en)
+   
 [![License: GPL v3](https://img.shields.io/badge/License-GPL%20v3-blue.svg)](https://www.gnu.org/licenses/gpl-3.0.html)
 [![Copyright](https://img.shields.io/static/v1?label=Copyright&color=249fe2&message=UIUC&)](https://atmos.illinois.edu/)
 [![Github Actions Build Status](https://github.com/open-atmos/PyPartMC/workflows/tests+pypi/badge.svg?branch=main)](https://github.com/open-atmos/PyPartMC/actions)
@@ -281,6 +282,12 @@ flowchart TD
 ```
 
 ## FAQ
+- Q: How to install PyPartMC with MOSAIC enabled?    
+  A: Installation can be done using `pip`, however, `pip` needs to be instructed not to use binary packages available at pypi.org but rather to compile from source (pip will download the source from pip.org), and the path to compiled MOSAIC library needs to be provided at compile-time; the following command should convey it:
+```bash
+MOSAIC_HOME=<<PATH_TO_MOSAIC_LIB>> pip install --force-reinstall --no-binary=PyPartMC PyPartMC
+```
+
 - Q: Why `pip install PyPartMC` triggers compilation on my brand new Apple machine, while it quickly downloads and installs binary packages when executed on older Macs, Windows or Linux?    
   A: We are not yet providing binary wheels on PyPI for Apple-silicon (arm64) machines. Cross-compilation with gfortran is only supported with experimental unofficial builds [and is tricky](https://github.com/iains/gcc-12-branch/issues/23), while Github Actions ARM64 virtual machines are [costly](https://docs.github.com/en/billing/managing-billing-for-github-actions/about-billing-for-github-actions#minute-multipliers).  
 
@@ -329,7 +336,7 @@ PyPartMC codebase benefits from Pylint, Black and isort code analysis (which are
 #### PyPartMC:
 
 authors: [PyPartMC developers](https://github.com/open-atmos/PyPartMC/graphs/contributors)   
-funding: [US Department of Energy Atmospheric System Research programme](https://asr.science.energy.gov/)   
+funding: [US Department of Energy Atmospheric System Research programme](https://asr.science.energy.gov/), [Polish National Science Centre](https://ncn.gov.pl/en)   
 copyright: [University of Illinois at Urbana-Champaign](https://atmos.illinois.edu/)   
 licence: [GPL v3](https://www.gnu.org/licenses/gpl-3.0.en.html)