version release v0.1.2 #1036
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Set up Miniconda
/home/runner/miniconda3/lib/python3.12/site-packages/conda/base/context.py:202: FutureWarning: Adding 'defaults' to channel list implicitly is deprecated and will be removed in 25.3.
To remove this warning, please choose a default channel explicitly with conda's regular configuration system, e.g. by adding 'defaults' to the list of channels:
conda config --add channels defaults
For more information see https://docs.conda.io/projects/conda/en/stable/user-guide/configuration/use-condarc.html
deprecated.topic(
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Set up job
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Check out pipeline code
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Free some space
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Free Disk Space (Ubuntu)
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Install Nextflow
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Set up Apptainer
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Set up Singularity
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Set up Miniconda
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Set up Conda
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Clean up Disk space
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Run pipeline with small test data with variant caller bcftools and consensus caller ivar
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Post Set up Miniconda
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Post Install Nextflow
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Post Check out pipeline code
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Complete job
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