29 lines
786 B
Bash
29 lines
786 B
Bash
#!/bin/bash -l
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#SBATCH --partition=dc-cpu
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#SBATCH --nodes=1
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#SBATCH --ntasks=1
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#SBATCH --account=training2611
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#SBATCH --mem=2G
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#SBATCH --time=0:10:00
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# Either use from this location if it is scheduled without modifications.
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# Or copy to a subdir, modify specifics there, then schedule from there.
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# get ROOT of the datalad repository
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ROOT=../..
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export PATH=$PATH:$HOME/../judac/local
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source $HOME/../judac/venv/bin/activate
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echo "Processing $DIR"
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# parallel command
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srun $ROOT/code/histograms/tiffhist.py -c all pot*.tif -o histogram.json
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# post-processing
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$ROOT/code/histograms/visualize_histogram.py histogram.json -o histogram.png
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# modify README.md
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if ! grep -q "# Histogram" README.md; then
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echo -e '\n\n# Histogram\n\n\n' >>README.md
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fi
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