<@U03R5TJ77GF> I'm playing with the cleanup, did y...
# nf-testm
Maxime Garcia
12/10/2025, 10:30 AM@Jim Downie I'm playing with the cleanup, did you ever use this to delete the whole test folder after each test?
j
Jim Downie
12/10/2025, 10:35 AMI did but I didn’t like it as it runs even if the test fails, so you can’t debug easily
m
Maxime Garcia
12/10/2025, 10:41 AMI'm thinking that can be controlled
Maxime Garcia
12/10/2025, 10:41 AMI find I often want to just update snapshot
Maxime Garcia
12/10/2025, 10:42 AMespecially for pipeline tests
Maxime Garcia
12/10/2025, 10:42 AMand on my computer running all often eats up all space
Maxime Garcia
12/10/2025, 10:43 AMSo did a bash for loop on each file in tests to run the test and delete the test folder in between, but that's a bit clunky I believe
Maxime Garcia
12/10/2025, 10:43 AM Copy code
for i in `ls -1 tests/ | grep nf | grep test | grep -v snap` ; do nf-test test --profile=+docker tests/$i --verbose --update-snapshot --clean-snapshot ; rm -rf ~/tests/ ; doneMaxime Garcia
12/10/2025, 10:44 AMSo I added:
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cleanup {
new File("${launchDir}").deleteDir()
}Maxime Garcia
12/10/2025, 10:45 AMBut I have some weird errors happening at the cleanup step like:
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Error: java.lang.RuntimeException: Path /home/max/tests/befc7d85b57aa2a565f1a11b2d33f9b9/output/reports/multiqc_data/gatk-base-recalibrator-quality-scores-plot_Pre-recalibration_Count.txt not found.Maxime Garcia
12/10/2025, 10:46 AMso just wondering if you ever ran into this or similar issue
j
Jim Downie
12/10/2025, 10:49 AMI’ve not seen that before but I quickly stopped trying after realising it nuked debugging
Jim Downie
12/10/2025, 10:50 AMCould you try just deleting the work dir?
m
Maxime Garcia
12/10/2025, 10:56 AMoh yeah, so not launchDir, but workDir and outputDir then
Maxime Garcia
12/10/2025, 10:56 AMlet me try that