Standardize conversion workflow #1032
GitHub Actions / JUnit Test Report
failed
Sep 16, 2024 in 0s
1 tests run, 0 passed, 0 skipped, 1 failed.
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github-actions / JUnit Test Report
nf.test-dataset_cellrangermulti_aligner
Assertion failed:
25 of 27 assertions failed
Raw output
Nextflow stdout:
ERROR ~ Error executing process > 'NFCORE_SCRNASEQ:SCRNASEQ:MTX_CONVERSION:CONCAT_H5AD (1)'
Caused by:
Not a valid path value type: nextflow.util.ArrayBag ([/home/runner/work/scrnaseq/scrnaseq/.nf-test/tests/c7d364337517d05e62c09dbb6cb11b88/work/69/40ae9baf63cb6af6846d845ab12974/PBMC_10K/outs/multi/count/raw_feature_bc_matrix.h5, /home/runner/work/scrnaseq/scrnaseq/.nf-test/tests/c7d364337517d05e62c09dbb6cb11b88/work/69/40ae9baf63cb6af6846d845ab12974/PBMC_10K/outs/multi/count/raw_feature_bc_matrix/barcodes.tsv.gz, /home/runner/work/scrnaseq/scrnaseq/.nf-test/tests/c7d364337517d05e62c09dbb6cb11b88/work/69/40ae9baf63cb6af6846d845ab12974/PBMC_10K/outs/multi/count/raw_feature_bc_matrix/features.tsv.gz, /home/runner/work/scrnaseq/scrnaseq/.nf-test/tests/c7d364337517d05e62c09dbb6cb11b88/work/69/40ae9baf63cb6af6846d845ab12974/PBMC_10K/outs/multi/count/raw_feature_bc_matrix/matrix.mtx.gz])
Tip: you can replicate the issue by changing to the process work dir and entering the command `bash .command.run`
-- Check '/home/runner/work/scrnaseq/scrnaseq/.nf-test/tests/c7d364337517d05e62c09dbb6cb11b88/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/scrnaseq/scrnaseq/.nf-test/tests/c7d364337517d05e62c09dbb6cb11b88/meta/nextflow.log' file for details
Nextflow stderr:
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