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Merge pull request #435 from nf-core/fix_taxonomy_files #1684

Merge pull request #435 from nf-core/fix_taxonomy_files

Merge pull request #435 from nf-core/fix_taxonomy_files #1684

GitHub Actions / JUnit Test Report failed Jan 15, 2025 in 0s

1 tests run, 0 passed, 0 skipped, 1 failed.

Annotations

Check failure on line 1 in Test pipeline: NFCORE_FUNCSCAN

See this annotation in the file changed.

@github-actions github-actions / JUnit Test Report

Test pipeline: NFCORE_FUNCSCAN.test_taxonomy_pyrodigal

Assertion failed: 

15 of 17 assertions failed
Raw output
Nextflow stdout:

ERROR ~ Error executing process > 'NFCORE_FUNCSCAN:FUNCSCAN:ARG:ABRICATE_RUN (sample_2)'

Caused by:
  Process `NFCORE_FUNCSCAN:FUNCSCAN:ARG:ABRICATE_RUN (sample_2)` terminated with an error exit status (125)


Command executed:

  abricate \
      sample_2.fasta \
      --db ncbi --minid 80 --mincov 80 \
       \
      --threads 4 \
      > sample_2.txt
  
  cat <<-END_VERSIONS > versions.yml
  "NFCORE_FUNCSCAN:FUNCSCAN:ARG:ABRICATE_RUN":
      abricate: $(echo $(abricate --version 2>&1) | sed 's/^.*abricate //' )
  END_VERSIONS

Command exit status:
  125

Command output:
  (empty)

Command error:
  Unable to find image 'quay.io/biocontainers/abricate:1.0.1--ha8f3691_1' locally
  docker: Error response from daemon: unauthorized: authentication required.
  See 'docker run --help'.

Work dir:
  /home/runner/work/funcscan/funcscan/.nf-test/tests/237a9cc7d7305da4ae99f8a5873c779a/work/81/296d90d65633d346262fc8ee0f78ba

Container:
  quay.io/biocontainers/abricate:1.0.1--ha8f3691_1

Tip: view the complete command output by changing to the process work dir and entering the command `cat .command.out`

 -- Check '/home/runner/work/funcscan/funcscan/.nf-test/tests/237a9cc7d7305da4ae99f8a5873c779a/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/funcscan/funcscan/.nf-test/tests/237a9cc7d7305da4ae99f8a5873c779a/meta/nextflow.log' file for details
Nextflow stderr: