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Failed to invoke the specified Python 3 path #6501

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forever-happy-h opened this issue Oct 7, 2023 · 1 comment
Closed

Failed to invoke the specified Python 3 path #6501

forever-happy-h opened this issue Oct 7, 2023 · 1 comment

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@forever-happy-h
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Hello,

Whenever I need to invoke my desired Python path, the following situation occurs.

$ singularity exec AF_environment.sif /data/mini3/envs/alphafold/bin/python /data/protien/FoldDock/src/sequence_extract.py
INFO: Converting SIF file to temporary sandbox...
FATAL: stat /data2/lvhaohao/mini3/envs/alphafold/bin/python: no such file or directory

And when I don't specify the Python path, Singularity defaults to invoking python3 from /opt/conda/bin/python3, but that file doesn't exist for me.
Afterwards, the following error message will appear.

$ singularity exec AF_environment.sif python3 "/data/protien/FoldDock/src/sequence_extract.py"
INFO: Converting SIF file to temporary sandbox...
/opt/conda/bin/python3: can't open file '/data/protien/FoldDock/src/sequence_extract.py': [Er] No such file or directory

Thank you in advance.

@github-actions
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github-actions bot commented Oct 7, 2023

New issues are no longer accepted in this repository. If singularity --version says singularity-ce, submit instead to https://github.com/sylabs/singularity, otherwise submit to https://github.com/apptainer/apptainer.

@github-actions github-actions bot closed this as completed Oct 7, 2023
@github-actions github-actions bot locked and limited conversation to collaborators Oct 7, 2023
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