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add gcc to environment file for rdkit #4896

add gcc to environment file for rdkit

add gcc to environment file for rdkit #4896

Triggered via push October 29, 2024 19:04
Status Failure
Total duration 2h 17m 17s
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CI.yml

on: push
Matrix: build-and-test
build-and-push-docker
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3 errors and 13 warnings
macos-latest Build and Test Python 3.9
The process '/Users/runner/miniconda3/condabin/mamba' failed with exit code 1
ubuntu-latest Build and Test Python 3.9
The process '/home/runner/miniconda3/condabin/mamba' failed with exit code 1
macos-13 Build and Test Python 3.9
The action 'Install and link Julia dependencies' has timed out after 120 minutes.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
macos-latest Build and Test Python 3.9
/Users/runner/miniconda3/lib/python3.12/site-packages/conda/cli/main_config.py:738: FutureWarning: Adding 'defaults' to channel list implicitly. is deprecated and will be removed in 25.3. In the future, defaults won't be added when 'conda config --add/--append channels' is used. If you depend on that behavior, run 'conda config --append channels defaults'. deprecated.topic(
macos-latest Build and Test Python 3.9
/Users/runner/miniconda3/lib/python3.12/argparse.py:2006: FutureWarning: `remote_definition` is deprecated and will be removed in 25.9. Use `conda env create --file=URL` instead. action(self, namespace, argument_values, option_string)
macos-latest Build and Test Python 3.9
PackagesNotFoundError: The following packages are not available from current channels: - cantera::cantera==2.6 - gcc Current channels: - https://repo.anaconda.com/pkgs/main - https://repo.anaconda.com/pkgs/r - https://conda.anaconda.org/rmg - https://conda.anaconda.org/conda-forge - https://conda.anaconda.org/cantera To search for alternate channels that may provide the conda package you're looking for, navigate to https://anaconda.org and use the search bar at the top of the page.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
ubuntu-latest Build and Test Python 3.9
/home/runner/miniconda3/lib/python3.12/site-packages/conda/cli/main_config.py:738: FutureWarning: Adding 'defaults' to channel list implicitly. is deprecated and will be removed in 25.3. In the future, defaults won't be added when 'conda config --add/--append channels' is used. If you depend on that behavior, run 'conda config --append channels defaults'. deprecated.topic(
ubuntu-latest Build and Test Python 3.9
/home/runner/miniconda3/lib/python3.12/argparse.py:2006: FutureWarning: `remote_definition` is deprecated and will be removed in 25.9. Use `conda env create --file=URL` instead. action(self, namespace, argument_values, option_string)
ubuntu-latest Build and Test Python 3.9
ERROR conda.core.link:_execute(951): An error occurred while installing package 'rmg::gcc-4.8.5-7'.
ubuntu-latest Build and Test Python 3.9
LinkError: post-link script failed for package rmg::gcc-4.8.5-7 location of failed script: /home/runner/miniconda3/envs/rmg_env/bin/.gcc-post-link.sh ==> script messages <== <None> ==> script output <== stdout: Installation failed: gcc is not able to compile a simple 'Hello, World' program. stderr: No LSB modules are available. /home/runner/miniconda3/envs/rmg_env/bin/../libexec/gcc/x86_64-unknown-linux-gnu/4.8.5/cc1: error while loading shared libraries: libmpfr.so.4: cannot open shared object file: No such file or directory return code: 1 ()
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
macos-13 Build and Test Python 3.9
/Users/runner/miniconda3/lib/python3.12/site-packages/conda/cli/main_config.py:738: FutureWarning: Adding 'defaults' to channel list implicitly. is deprecated and will be removed in 25.3. In the future, defaults won't be added when 'conda config --add/--append channels' is used. If you depend on that behavior, run 'conda config --append channels defaults'. deprecated.topic(
macos-13 Build and Test Python 3.9
/Users/runner/miniconda3/lib/python3.12/argparse.py:2006: FutureWarning: `remote_definition` is deprecated and will be removed in 25.9. Use `conda env create --file=URL` instead. action(self, namespace, argument_values, option_string)
macos-13 Build and Test Python 3.9
Retrying (Retry(total=2, connect=None, read=None, redirect=None, status=None)) after connection broken by 'ReadTimeoutError("HTTPSConnectionPool(host='conda.anaconda.org', port=443): Read timed out. (read timeout=60.0)")': /rmg/noarch/periodictable-1.5.2-py_0.tar.bz2