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error message of azcopy is no longer hidden

Open adamrtalbot opened this issue 5 months ago • 1 comments

~When azcopy failed due to resource constraints, it hid the error message making it hard to debug and raising a new error in it's place. This PR refactors the bash for nxf_az_download to handle the error better and surface it back to Nextflow where it can be handled by an errorStrategy.~

turns out, if you just replace azcopy cp with azcopy sync --recursive it works fine 🤷 , I tested it with nf-core/rnaseq and it worked:

make pack && ./build/releases/nextflow-25.05.0-edge-dist run nf-core/rnaseq -r 3.19.0 -profile test --outdir results -c azure.config -w az://work/

This feels like it's too easy.

adamrtalbot avatar Jun 16 '25 10:06 adamrtalbot

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