qbic-pipelines / variantmtb Goto Github PK
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License: MIT License
since this is not a nf-core pipeline, replace the nfcore logo with the qbic logo.
subworkflos/nf-core/utils_nfcore_pipeline.nf
.nf-core lint
checks integrity of this workflow and fails if changes are madelib/nfcoreTemplate.groovy
) simply exclude this file from the file_unchanged
linting check.Please solve the following issues before publishing to master:
the github-action test nf-core CI / Run pipeline with test data (21.10.3)
fails
the github-action test nf-core CI / Run pipeline with test data
passes
mark could replicate the issue on his local machine.
I could not.
I suspect it might be due to querynator depending on packages from conda-forge. I have conda-forge added in my .condarc
Error executing process > 'NFCORE_VARIANTMTB:VARIANTMTB:QUERYNATOR_CIVICAPI (test_sample)'
Caused by:
Failed to create Conda environment
command: conda create --mkdir --yes --quiet --prefix /home/runner/work/variantmtb/variantmtb/work/conda/env-8333bfb82ced3d481ee8f58aa4d2aef8 bioconda::querynator=0.4.1
status : 1
message:
PackagesNotFoundError: The following packages are not available from current channels:
- bioconda::querynator==0.4.1
Current channels:
- defaults
- https://conda.anaconda.org/bioconda
No response
nextflow version 21.10.3
No response
No response
No response
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