Merge pull request #793 from d4straub/update-modules-2.12.0dev #1603
GitHub Actions / JUnit Test Report
failed
Nov 13, 2024 in 0s
1 tests run, 0 passed, 0 skipped, 1 failed.
Annotations
Check failure on line 1 in Custom DADA2 Reference Taxonomy Database
github-actions / JUnit Test Report
Custom DADA2 Reference Taxonomy Database
Assertion failed:
23 of 25 assertions failed
Raw output
Nextflow stdout:
ERROR ~ Error executing process > 'NFCORE_AMPLISEQ:AMPLISEQ:QIIME2_PREPTAX:UNTAR (85_greengenes.tar.gz)'
Caused by:
Process `NFCORE_AMPLISEQ:AMPLISEQ:QIIME2_PREPTAX:UNTAR (85_greengenes.tar.gz)` terminated with an error exit status (2)
Command executed:
mkdir user
## Ensures --strip-components only applied when top level of tar contents is a directory
## If just files or multiple directories, place all in prefix
if [[ $(tar -taf 85_greengenes.tar.gz | grep -o -P "^.*?\/" | uniq | wc -l) -eq 1 ]]; then
tar \
-C user --strip-components 1 \
-xavf \
\
85_greengenes.tar.gz \
else
tar \
-C user \
-xavf \
\
85_greengenes.tar.gz \
fi
cat <<-END_VERSIONS > versions.yml
"NFCORE_AMPLISEQ:AMPLISEQ:QIIME2_PREPTAX:UNTAR":
untar: $(echo $(tar --version 2>&1) | sed 's/^.*(GNU tar) //; s/ Copyright.*$//')
END_VERSIONS
Command exit status:
2
Command output:
85_greengenes.tax
85_greengenes.fna
Command error:
Unable to find image 'quay.io/nf-core/ubuntu:20.04' locally
20.04: Pulling from nf-core/ubuntu
99803d4b97f3: Pulling fs layer
99803d4b97f3: Verifying Checksum
99803d4b97f3: Download complete
99803d4b97f3: Pull complete
Digest: sha256:59e9d08d8dc153bfc704de15af5b14ac82f5ac695377fa29dd5087b6fea7942e
Status: Downloaded newer image for quay.io/nf-core/ubuntu:20.04
gzip: stdin: unexpected end of file
tar: Unexpected EOF in archive
tar: Error is not recoverable: exiting now
85_greengenes.tax
85_greengenes.fna
gzip: stdin: unexpected end of file
tar: Unexpected EOF in archive
tar: Unexpected EOF in archive
tar: Error is not recoverable: exiting now
Work dir:
/home/runner/work/ampliseq/ampliseq/.nf-test/tests/ee01a448636d56e7fe65cc46a67aa9a6/work/39/1564899eba7179067d4f1f69b0bdf5
Tip: you can try to figure out what's wrong by changing to the process work dir and showing the script file named `.command.sh`
-- Check '/home/runner/work/ampliseq/ampliseq/.nf-test/tests/ee01a448636d56e7fe65cc46a67aa9a6/meta/nextflow.log' file for details
ERROR ~ Pipeline failed. Please refer to troubleshooting docs: https://nf-co.re/docs/usage/troubleshooting
-- Check '/home/runner/work/ampliseq/ampliseq/.nf-test/tests/ee01a448636d56e7fe65cc46a67aa9a6/meta/nextflow.log' file for details
Nextflow stderr:
Nextflow 24.10.0 is available - Please consider updating your version to it
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