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Merge pull request #833 from erikrikarddaniel/sbdi-gtdb-r220-2 #1679

Merge pull request #833 from erikrikarddaniel/sbdi-gtdb-r220-2

Merge pull request #833 from erikrikarddaniel/sbdi-gtdb-r220-2 #1679

GitHub Actions / JUnit Test Report failed Feb 19, 2025 in 0s

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

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Check failure on line 1 in Double-Primers

See this annotation in the file changed.

@github-actions github-actions / JUnit Test Report

Double-Primers

Assertion failed: 

12 of 14 assertions failed
Raw output
Nextflow stdout:

ERROR ~ Error executing process > 'NFCORE_AMPLISEQ:AMPLISEQ:RENAME_RAW_DATA_FILES (doubleprimer1)'

Caused by:
  Directive `process.shell` cannot contain new-line characters - offending value: [bash
  
  set -e # Exit if a tool returns a non-zero status/exit code
  set -u # Treat unset variables and parameters as an error
  set -o pipefail # Returns the status of the last command to exit with a non-zero status or zero if all successfully execute
  set -C # No clobber - prevent output redirection from overwriting files.
  ]



 -- Check '/home/runner/work/ampliseq/ampliseq/.nf-test/tests/79ca9dff3d350f19070aec8442ea59f9/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/79ca9dff3d350f19070aec8442ea59f9/meta/nextflow.log' file for details
Nextflow stderr: