32 lines
627 B
Bash
Executable File
32 lines
627 B
Bash
Executable File
#!/bin/bash
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exit_status=0
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NXF_CMD=${NXF_CMD:-nextflow}
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NXF_FILES=${*:-'*.nf'}
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for pipeline in $NXF_FILES ; do
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echo "> Running test: $pipeline"
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# run the pipeline
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$NXF_CMD -q run "$pipeline" > .out
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# verify output (if ground truth exists)
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outfile="$(basename "$pipeline" .nf).out"
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if [[ -f "$outfile" ]] ; then
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sort "$outfile" > a.out
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sort .out > b.out
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diff a.out b.out
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status=$? ; [ $status -eq 0 ] || exit_status=$status
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else
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echo "> $outfile not found, skipping"
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fi
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done
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rm -rf .nextflow* work .out a.out b.out
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[ $exit_status -eq 0 ] || false
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