Important! Template update for nf-core/tools v3.0.2 #1377
GitHub Actions / JUnit Test Report
failed
Oct 23, 2024 in 0s
1 tests run, 0 passed, 0 skipped, 1 failed.
Annotations
Check failure on line 1 in Test pipeline: NFCORE_FUNCSCAN
github-actions / JUnit Test Report
Test pipeline: NFCORE_FUNCSCAN.test_preannotated_profile
Assertion failed:
24 of 28 assertions failed
Raw output
Nextflow stdout:
ERROR ~ Error executing process > 'NFCORE_FUNCSCAN:FUNCSCAN:AMP:DRAMP_DOWNLOAD'
Caused by:
Process `NFCORE_FUNCSCAN:FUNCSCAN:AMP:DRAMP_DOWNLOAD` terminated with an error exit status (1)
Command executed:
mkdir amp_ref_database/
ampcombi_download.py
cat <<-END_VERSIONS > versions.yml
"NFCORE_FUNCSCAN:FUNCSCAN:AMP:DRAMP_DOWNLOAD":
ampcombi: $(ampcombi --version | sed 's/ampcombi //')
END_VERSIONS
Command exit status:
1
Command output:
(empty)
Command error:
Unable to find image 'quay.io/biocontainers/ampcombi:0.2.2--pyhdfd78af_0' locally
0.2.2--pyhdfd78af_0: Pulling from biocontainers/ampcombi
ca7680d1025d: Already exists
bd9ddc54bea9: Pulling fs layer
32ac20ce48fd: Pulling fs layer
bd9ddc54bea9: Verifying Checksum
bd9ddc54bea9: Download complete
bd9ddc54bea9: Pull complete
32ac20ce48fd: Verifying Checksum
32ac20ce48fd: Download complete
32ac20ce48fd: Pull complete
Digest: sha256:e146a1e61af09d923f2dc7bd63ea8fa43b1c1aca18e139edeaf0f2da0720647f
Status: Downloaded newer image for quay.io/biocontainers/ampcombi:0.2.2--pyhdfd78af_0
Traceback (most recent call last):
File "/home/runner/work/funcscan/funcscan/bin/ampcombi_download.py", line 78, in <module>
download_DRAMP("amp_ref_database")
File "/home/runner/work/funcscan/funcscan/bin/ampcombi_download.py", line 49, in download_DRAMP
for record in seq_record:
File "/usr/local/lib/python3.11/site-packages/Bio/SeqIO/Interfaces.py", line 72, in __next__
return next(self.records)
^^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.11/site-packages/Bio/SeqIO/FastaIO.py", line 246, in iterate
Seq(sequence), id=first_word, name=first_word, description=title
^^^^^^^^^^^^^
File "/usr/local/lib/python3.11/site-packages/Bio/Seq.py", line 2034, in __init__
self._data = bytes(data, encoding="ASCII")
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
UnicodeEncodeError: 'ascii' codec can't encode character '\u5de5' in position 20: ordinal not in range(128)
Work dir:
/home/runner/work/funcscan/funcscan/.nf-test/tests/1f6a72c94a9e6a86afed0ba5b15fed82/work/c8/40faee7874adb31b8f702cfea7a082
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/1f6a72c94a9e6a86afed0ba5b15fed82/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/1f6a72c94a9e6a86afed0ba5b15fed82/meta/nextflow.log' file for details
Nextflow stderr:
Nextflow 24.04.4 is available - Please consider updating your version to it
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