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Add coptr module #17284

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Add coptr module

Add coptr module #17284

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Job Run time
pre-commit
36s
nf-test-changes
3m 53s
editorconfig
11s
prettier
30s
pytest-changes
5s
pytest
0s
nf-core-lint-modules (fasta_newick_epang_gappa)
42s
nf-core-lint-modules (abundance_differential_filter)
43s
nf-core-lint-modules (coptr/map)
1m 13s
nf-core-lint-modules (parabricks/fq2bam)
57s
nf-core-lint-modules (quartonotebook)
52s
nf-core-lint-modules (biscuit/align)
58s
nf-core-lint-modules (coptr/index)
1m 15s
nf-core-lint-modules (fgbio/callmolecularconsensusreads)
46s
nf-core-lint-modules (ganon/classify)
1m 4s
nf-core-lint-modules (ganon/buildcustom)
50s
nf-core-lint-modules (fcsgx/cleangenome)
45s
nf-core-lint-modules (biscuit/bsconv)
46s
nf-core-lint-modules (fgbio/callduplexconsensusreads)
45s
nf-core-lint-modules (fgbio/collectduplexseqmetrics)
42s
nf-core-lint-modules (biscuit/vcf2bed)
45s
nf-core-lint-modules (biscuit/epiread)
47s
nf-core-lint-modules (wittyer)
50s
nf-core-lint-modules (ganon/table)
1m 9s
nf-core-lint-modules (biscuit/pileup)
58s
nf-core-lint-modules (fgbio/fastqtobam)
44s
nf-core-lint-modules (clipkit)
45s
nf-test (modules/nf-core/coptr/map, conda)
2m 22s
nf-core-lint-modules (parabricks/applybqsr)
45s
nf-test (modules/nf-core/coptr/map, docker_self_hosted)
1m 4s
nf-core-lint-modules (biscuit/qc)
44s
nf-test (modules/nf-core/coptr/map, singularity)
1m 16s
nf-core-lint-modules (fgbio/groupreadsbyumi)
1m 4s
nf-test with GPUs (modules/nf-core/coptr/map, conda)
1s
nf-test (modules/nf-core/quartonotebook, docker_self_hosted)
2m 23s
nf-core-lint-modules (hmmer/hmmalign)
49s
nf-test with GPUs (modules/nf-core/coptr/map, docker_self_hosted)
1s
nf-test (modules/nf-core/quartonotebook, singularity)
3m 59s
nf-core-lint-modules (biscuit/mergecg)
44s
nf-test with GPUs (modules/nf-core/coptr/map, singularity)
1s
nf-test (modules/nf-core/biscuit/align, conda)
2m 11s
nf-core-lint-modules (fgbio/zipperbams)
1m 10s
nf-test with GPUs (modules/nf-core/parabricks/fq2bam, docker_self_hosted)
1s
nf-test (modules/nf-core/biscuit/align, docker_self_hosted)
58s
nf-core-lint-modules (hmmer/hmmbuild)
43s
nf-test with GPUs (modules/nf-core/parabricks/fq2bam, singularity)
1s
nf-test (modules/nf-core/biscuit/align, singularity)
54s
nf-core-lint-modules (fgbio/filterconsensusreads)
1m 1s
nf-test with GPUs (modules/nf-core/quartonotebook, conda)
1s
nf-test (modules/nf-core/coptr/index, conda)
2m 29s
nf-core-lint-modules (biscuit/biscuitblaster)
53s
nf-test with GPUs (modules/nf-core/quartonotebook, docker_self_hosted)
1s
nf-core-lint-modules (ashlar)
49s
nf-test with GPUs (modules/nf-core/quartonotebook, singularity)
1s
nf-core-lint-modules (biscuit/index)
44s
nf-test with GPUs (modules/nf-core/biscuit/align, conda)
1s
nf-test (modules/nf-core/coptr/index, docker_self_hosted)
55s
nf-core-lint-modules (fgbio/sortbam)
55s
nf-test (modules/nf-core/coptr/index, singularity)
1m 45s
nf-test with GPUs (modules/nf-core/biscuit/align, docker_self_hosted)
1s
nf-core-lint-modules (ganon/report)
47s
nf-test (modules/nf-core/fgbio/callmolecularconsensusreads, conda)
3m 6s
nf-test with GPUs (modules/nf-core/biscuit/align, singularity)
1s
nf-test (modules/nf-core/fgbio/callmolecularconsensusreads, docker_self_hosted)
1m 38s
nf-test with GPUs (modules/nf-core/coptr/index, conda)
1s
nf-test (modules/nf-core/fgbio/callmolecularconsensusreads, singularity)
1m 9s
nf-test with GPUs (modules/nf-core/coptr/index, docker_self_hosted)
1s
nf-test with GPUs (modules/nf-core/coptr/index, singularity)
1s
nf-test (modules/nf-core/ganon/classify, docker_self_hosted)
1m 53s
nf-test with GPUs (modules/nf-core/fgbio/callmolecularconsensusreads, conda)
1s
nf-test (modules/nf-core/ganon/classify, singularity)
1m 43s
nf-test with GPUs (modules/nf-core/fgbio/callmolecularconsensusreads, docker_self_hosted)
1s
nf-test (modules/nf-core/ganon/buildcustom, docker_self_hosted)
1m 19s
nf-test with GPUs (modules/nf-core/fgbio/callmolecularconsensusreads, singularity)
1s
nf-test (modules/nf-core/ganon/buildcustom, singularity)
1m 20s
nf-test with GPUs (modules/nf-core/ganon/classify, conda)
1s
nf-test (modules/nf-core/fcsgx/cleangenome, conda)
4m 23s
nf-test with GPUs (modules/nf-core/ganon/classify, docker_self_hosted)
1s
nf-test (modules/nf-core/fcsgx/cleangenome, docker_self_hosted)
2m 44s
nf-test with GPUs (modules/nf-core/ganon/classify, singularity)
1s
nf-test (modules/nf-core/fcsgx/cleangenome, singularity)
2m 40s
nf-test with GPUs (modules/nf-core/ganon/buildcustom, conda)
1s
nf-test (modules/nf-core/biscuit/bsconv, conda)
2m 0s
nf-test with GPUs (modules/nf-core/ganon/buildcustom, docker_self_hosted)
1s
nf-test (modules/nf-core/biscuit/bsconv, docker_self_hosted)
43s
nf-test with GPUs (modules/nf-core/ganon/buildcustom, singularity)
1s
nf-test (modules/nf-core/biscuit/bsconv, singularity)
1m 27s
nf-test with GPUs (modules/nf-core/fcsgx/cleangenome, conda)
1s
nf-test (modules/nf-core/fgbio/callduplexconsensusreads, conda)
2m 18s
nf-test with GPUs (modules/nf-core/fcsgx/cleangenome, docker_self_hosted)
1s
nf-test (modules/nf-core/fgbio/callduplexconsensusreads, docker_self_hosted)
1m 18s
nf-test with GPUs (modules/nf-core/fcsgx/cleangenome, singularity)
1s
nf-test (modules/nf-core/fgbio/callduplexconsensusreads, singularity)
1m 0s
nf-test with GPUs (modules/nf-core/biscuit/bsconv, conda)
1s
nf-test (modules/nf-core/fgbio/collectduplexseqmetrics, conda)
2m 36s
nf-test with GPUs (modules/nf-core/biscuit/bsconv, docker_self_hosted)
1s
nf-test (modules/nf-core/fgbio/collectduplexseqmetrics, docker_self_hosted)
1m 19s
nf-test with GPUs (modules/nf-core/biscuit/bsconv, singularity)
1s
nf-test with GPUs (modules/nf-core/fgbio/callduplexconsensusreads, conda)
1s
nf-test (modules/nf-core/fgbio/collectduplexseqmetrics, singularity)
1m 7s
nf-test (modules/nf-core/biscuit/vcf2bed, conda)
1m 41s
nf-test with GPUs (modules/nf-core/fgbio/callduplexconsensusreads, docker_self_hosted)
1s
nf-test (modules/nf-core/biscuit/vcf2bed, docker_self_hosted)
58s
nf-test with GPUs (modules/nf-core/fgbio/callduplexconsensusreads, singularity)
1s
nf-test (modules/nf-core/biscuit/vcf2bed, singularity)
36s
nf-test with GPUs (modules/nf-core/fgbio/collectduplexseqmetrics, conda)
1s
nf-test (modules/nf-core/biscuit/epiread, conda)
2m 25s
nf-test with GPUs (modules/nf-core/fgbio/collectduplexseqmetrics, docker_self_hosted)
1s
nf-test (modules/nf-core/biscuit/epiread, docker_self_hosted)
1m 6s
nf-test with GPUs (modules/nf-core/fgbio/collectduplexseqmetrics, singularity)
1s
nf-test (modules/nf-core/biscuit/epiread, singularity)
1m 16s
nf-test (modules/nf-core/wittyer, docker_self_hosted)
1m 13s
nf-test (modules/nf-core/wittyer, singularity)
1m 59s
nf-test with GPUs (modules/nf-core/biscuit/vcf2bed, conda)
1s
nf-test (modules/nf-core/ganon/table, docker_self_hosted)
1m 30s
nf-test with GPUs (modules/nf-core/biscuit/vcf2bed, docker_self_hosted)
1s
nf-test (modules/nf-core/ganon/table, singularity)
1m 21s
nf-test with GPUs (modules/nf-core/biscuit/vcf2bed, singularity)
1s
nf-test (modules/nf-core/biscuit/pileup, conda)
2m 2s
nf-test (modules/nf-core/biscuit/pileup, docker_self_hosted)
1m 10s
nf-test with GPUs (modules/nf-core/biscuit/epiread, conda)
1s
nf-test (modules/nf-core/biscuit/pileup, singularity)
51s
nf-test with GPUs (modules/nf-core/biscuit/epiread, docker_self_hosted)
1s
nf-test (modules/nf-core/fgbio/fastqtobam, conda)
4m 57s
nf-test with GPUs (modules/nf-core/biscuit/epiread, singularity)
1s
nf-test (modules/nf-core/fgbio/fastqtobam, docker_self_hosted)
2m 31s
nf-test with GPUs (modules/nf-core/wittyer, conda)
1s
nf-test (modules/nf-core/fgbio/fastqtobam, singularity)
2m 1s
nf-test with GPUs (modules/nf-core/wittyer, docker_self_hosted)
1s
nf-test (subworkflows/nf-core/fasta_newick_epang_gappa, docker_self_hosted)
1m 41s
nf-test with GPUs (modules/nf-core/wittyer, singularity)
1s
nf-test with GPUs (modules/nf-core/ganon/table, conda)
1s
nf-test (subworkflows/nf-core/fasta_newick_epang_gappa, singularity)
1m 0s
nf-test with GPUs (modules/nf-core/ganon/table, docker_self_hosted)
1s
nf-test (modules/nf-core/clipkit, conda)
1m 59s
nf-test with GPUs (modules/nf-core/ganon/table, singularity)
1s
nf-test (modules/nf-core/clipkit, docker_self_hosted)
56s
nf-test with GPUs (modules/nf-core/biscuit/pileup, conda)
1s
nf-test (modules/nf-core/clipkit, singularity)
41s
nf-test with GPUs (modules/nf-core/biscuit/pileup, docker_self_hosted)
1m 19s
nf-test (modules/nf-core/biscuit/qc, conda)
1m 27s
nf-test with GPUs (modules/nf-core/biscuit/pileup, singularity)
1m 20s
nf-test (modules/nf-core/biscuit/qc, docker_self_hosted)
56s
nf-test with GPUs (modules/nf-core/fgbio/fastqtobam, conda)
1s
nf-test (modules/nf-core/biscuit/qc, singularity)
1m 1s
nf-test with GPUs (modules/nf-core/fgbio/fastqtobam, docker_self_hosted)
1s
nf-test (modules/nf-core/fgbio/groupreadsbyumi, conda)
2m 37s
nf-test with GPUs (modules/nf-core/fgbio/fastqtobam, singularity)
1s
nf-test (modules/nf-core/fgbio/groupreadsbyumi, docker_self_hosted)
1m 23s
nf-test with GPUs (subworkflows/nf-core/fasta_newick_epang_gappa, conda)
1s
nf-test (modules/nf-core/fgbio/groupreadsbyumi, singularity)
1m 2s
nf-test with GPUs (subworkflows/nf-core/fasta_newick_epang_gappa, docker_self_hosted)
1s
nf-test (modules/nf-core/hmmer/hmmalign, conda)
1m 19s
nf-test with GPUs (subworkflows/nf-core/fasta_newick_epang_gappa, singularity)
1s
nf-test (modules/nf-core/hmmer/hmmalign, docker_self_hosted)
1m 5s
nf-test with GPUs (modules/nf-core/clipkit, conda)
1s
nf-test (modules/nf-core/hmmer/hmmalign, singularity)
1m 3s
nf-test with GPUs (modules/nf-core/clipkit, docker_self_hosted)
1s
nf-test (modules/nf-core/biscuit/mergecg, conda)
1m 48s
nf-test with GPUs (modules/nf-core/clipkit, singularity)
1s
nf-test (modules/nf-core/biscuit/mergecg, docker_self_hosted)
1m 8s
nf-test with GPUs (modules/nf-core/parabricks/applybqsr, docker_self_hosted)
1s
nf-test (modules/nf-core/biscuit/mergecg, singularity)
1m 29s
nf-test with GPUs (modules/nf-core/parabricks/applybqsr, singularity)
1s
nf-test (modules/nf-core/fgbio/zipperbams, conda)
2m 39s
nf-test with GPUs (modules/nf-core/biscuit/qc, conda)
1s
nf-test (modules/nf-core/fgbio/zipperbams, docker_self_hosted)
1m 32s
nf-test with GPUs (modules/nf-core/biscuit/qc, docker_self_hosted)
1m 4s
nf-test (modules/nf-core/fgbio/zipperbams, singularity)
1m 1s
nf-test with GPUs (modules/nf-core/biscuit/qc, singularity)
22s
nf-test (modules/nf-core/hmmer/hmmbuild, conda)
1m 36s
nf-test with GPUs (modules/nf-core/fgbio/groupreadsbyumi, conda)
1s
nf-test (modules/nf-core/hmmer/hmmbuild, docker_self_hosted)
1m 2s
nf-test with GPUs (modules/nf-core/fgbio/groupreadsbyumi, docker_self_hosted)
1s
nf-test (modules/nf-core/hmmer/hmmbuild, singularity)
38s
nf-test with GPUs (modules/nf-core/fgbio/groupreadsbyumi, singularity)
1s
nf-test (modules/nf-core/fgbio/filterconsensusreads, conda)
2m 27s
nf-test with GPUs (modules/nf-core/hmmer/hmmalign, conda)
1s
nf-test (modules/nf-core/fgbio/filterconsensusreads, docker_self_hosted)
1m 10s
nf-test with GPUs (modules/nf-core/hmmer/hmmalign, docker_self_hosted)
1s
nf-test (modules/nf-core/fgbio/filterconsensusreads, singularity)
2m 31s
nf-test with GPUs (modules/nf-core/hmmer/hmmalign, singularity)
1s
nf-test (modules/nf-core/biscuit/biscuitblaster, conda)
2m 40s
nf-test with GPUs (modules/nf-core/biscuit/mergecg, conda)
1s
nf-test (modules/nf-core/biscuit/biscuitblaster, docker_self_hosted)
1m 15s
nf-test with GPUs (modules/nf-core/biscuit/mergecg, docker_self_hosted)
1m 10s
nf-test (modules/nf-core/biscuit/biscuitblaster, singularity)
1m 19s
nf-test with GPUs (modules/nf-core/biscuit/mergecg, singularity)
20s
nf-test (modules/nf-core/ashlar, conda)
3m 46s
nf-test with GPUs (modules/nf-core/fgbio/zipperbams, conda)
1s
nf-test (modules/nf-core/ashlar, docker_self_hosted)
1m 58s
nf-test with GPUs (modules/nf-core/fgbio/zipperbams, docker_self_hosted)
1s
nf-test (modules/nf-core/ashlar, singularity)
1m 58s
nf-test with GPUs (modules/nf-core/fgbio/zipperbams, singularity)
1s
nf-test (subworkflows/nf-core/abundance_differential_filter, conda)
5m 46s
nf-test with GPUs (modules/nf-core/hmmer/hmmbuild, conda)
1s
nf-test (subworkflows/nf-core/abundance_differential_filter, docker_self_hosted)
3m 4s
nf-test with GPUs (modules/nf-core/hmmer/hmmbuild, docker_self_hosted)
1s
nf-test (subworkflows/nf-core/abundance_differential_filter, singularity)
4m 23s
nf-test with GPUs (modules/nf-core/hmmer/hmmbuild, singularity)
1s
nf-test (modules/nf-core/biscuit/index, conda)
1m 43s
nf-test with GPUs (modules/nf-core/fgbio/filterconsensusreads, conda)
1s
nf-test (modules/nf-core/biscuit/index, docker_self_hosted)
52s
nf-test with GPUs (modules/nf-core/fgbio/filterconsensusreads, docker_self_hosted)
1s
nf-test (modules/nf-core/biscuit/index, singularity)
45s
nf-test with GPUs (modules/nf-core/fgbio/filterconsensusreads, singularity)
1s
nf-test (modules/nf-core/fgbio/sortbam, conda)
2m 24s
nf-test with GPUs (modules/nf-core/biscuit/biscuitblaster, conda)
2m 59s
nf-test (modules/nf-core/fgbio/sortbam, docker_self_hosted)
1m 13s
nf-test with GPUs (modules/nf-core/biscuit/biscuitblaster, docker_self_hosted)
1m 23s
nf-test with GPUs (modules/nf-core/biscuit/biscuitblaster, singularity)
1s
nf-test (modules/nf-core/fgbio/sortbam, singularity)
1m 16s
nf-test with GPUs (modules/nf-core/ashlar, conda)
5m 36s
nf-test with GPUs (modules/nf-core/ashlar, docker_self_hosted)
2m 30s
nf-test (modules/nf-core/ganon/report, docker_self_hosted)
1m 6s
nf-test with GPUs (modules/nf-core/ashlar, singularity)
3m 33s
nf-test (modules/nf-core/ganon/report, singularity)
1m 53s
nf-test with GPUs (subworkflows/nf-core/abundance_differential_filter, conda)
1s
nf-test with GPUs (subworkflows/nf-core/abundance_differential_filter, docker_self_hosted)
1s
nf-test with GPUs (subworkflows/nf-core/abundance_differential_filter, singularity)
1s
nf-test with GPUs (modules/nf-core/biscuit/index, conda)
1s
nf-test with GPUs (modules/nf-core/biscuit/index, docker_self_hosted)
56s
nf-test with GPUs (modules/nf-core/biscuit/index, singularity)
1s
nf-test with GPUs (modules/nf-core/fgbio/sortbam, conda)
1s
nf-test with GPUs (modules/nf-core/fgbio/sortbam, docker_self_hosted)
1s
nf-test with GPUs (modules/nf-core/fgbio/sortbam, singularity)
1s
nf-test with GPUs (modules/nf-core/ganon/report, conda)
1s
nf-test with GPUs (modules/nf-core/ganon/report, docker_self_hosted)
1s
nf-test with GPUs (modules/nf-core/ganon/report, singularity)
1s
confirm-pass
3s
3h 36m 50s