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Update/testpaths and removed conda defaults #64

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Update/testpaths and removed conda defaults

Update/testpaths and removed conda defaults #64

Run time

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Job Run time
pre-commit
54s
nf-test-changes
21s
prettier
7s
editorconfig
8s
nf-core-lint-modules (fasta_ltrretriever_lai)
45s
nf-core-lint-modules (fasta_edta_lai)
49s
nf-core-lint-modules (fasta_gxf_busco_plot)
54s
nf-core-lint-modules (gt/stat)
40s
nf-core-lint-modules (gff3_gt_gff3_gff3validator_stat)
43s
nf-core-lint-modules (custom/shortenfastaids)
49s
nf-core-lint-modules (gxf_fasta_agat_spaddintrons_spextractsequences)
45s
nf-core-lint-modules (cat/cat)
40s
nf-core-lint-modules (custom/relabelfasta)
39s
nf-core-lint-modules (edta/edta)
52s
nf-core-lint-modules (fastq_bwa_mem_samblaster)
52s
nf-core-lint-modules (gt/gff3validator)
40s
nf-test (nf-core-modules/modules/nf-core/busco/generateplot, conda)
3m 47s
nf-core-lint-modules (gunzip)
40s
nf-test (nf-core-modules/modules/nf-core/busco/generateplot, docker)
1m 37s
nf-core-lint-modules (busco/busco)
40s
nf-test (nf-core-modules/modules/nf-core/busco/generateplot, singularity)
2m 7s
nf-core-lint-modules (agat/spaddintrons)
38s
nf-test (modules/gallvp/gt/stat, conda)
1m 33s
nf-core-lint-modules (plotsr)
49s
nf-test (modules/gallvp/gt/stat, docker)
42s
nf-core-lint-modules (repeatmasker/repeatmasker)
38s
nf-test (modules/gallvp/gt/stat, singularity)
1m 15s
nf-core-lint-modules (bwa/index)
39s
nf-test (modules/gallvp/custom/shortenfastaids, conda)
2m 23s
nf-core-lint-modules (gffread)
45s
nf-test (modules/gallvp/custom/shortenfastaids, docker)
1m 0s
nf-core-lint-modules (syri)
49s
nf-test (modules/gallvp/custom/shortenfastaids, singularity)
1m 5s
nf-core-lint-modules (custom/restoregffids)
53s
nf-test (modules/gallvp/cat/cat, conda)
2m 20s
nf-core-lint-modules (ltrretriever/lai)
42s
nf-test (modules/gallvp/cat/cat, docker)
1m 14s
nf-core-lint-modules (bwa/mem)
50s
nf-test (modules/gallvp/cat/cat, singularity)
1m 15s
nf-core-lint-modules (repeatmasker/rmouttogff3)
35s
nf-test (modules/gallvp/custom/relabelfasta, conda)
2m 35s
nf-core-lint-modules (samblaster)
36s
nf-test (modules/gallvp/custom/relabelfasta, docker)
1m 17s
nf-core-lint-modules (seqkit/seq)
44s
nf-test (modules/gallvp/custom/relabelfasta, singularity)
1m 15s
nf-core-lint-modules (agat/spextractsequences)
45s
nf-test (modules/gallvp/edta/edta, docker)
21m 50s
nf-core-lint-modules (annosine)
44s
nf-test (modules/gallvp/edta/edta, singularity)
27m 41s
nf-test (modules/gallvp/gt/gff3validator, conda)
2m 3s
nf-test (modules/gallvp/gt/gff3validator, docker)
52s
nf-core-lint-modules (ltrretriever/ltrretriever)
38s
nf-test (modules/gallvp/gt/gff3validator, singularity)
25m 43s
nf-core-lint-modules (busco/generateplot)
40s
nf-test (modules/gallvp/gunzip, conda)
1m 38s
nf-core-lint-modules (ltrharvest)
53s
nf-test (modules/gallvp/gunzip, docker)
59s
nf-core-lint-modules (gt/gff3)
44s
nf-test (modules/gallvp/gunzip, singularity)
48s
nf-core-lint-modules (minimap2/align)
46s
nf-test (nf-core-modules/modules/nf-core/ltrfinder, conda)
2m 33s
nf-core-lint-modules (samtools/faidx)
39s
nf-test (nf-core-modules/modules/nf-core/ltrfinder, docker)
1m 31s
nf-core-lint-modules (ltrfinder)
42s
nf-test (nf-core-modules/modules/nf-core/ltrfinder, singularity)
1m 41s
nf-test (nf-core-modules/modules/nf-core/gt/gff3validator, conda)
1m 57s
nf-test (nf-core-modules/modules/nf-core/gt/gff3validator, docker)
57s
nf-test (nf-core-modules/modules/nf-core/gt/gff3validator, singularity)
1m 0s
nf-test (modules/gallvp/busco/busco, conda)
8m 10s
nf-test (modules/gallvp/busco/busco, docker)
4m 37s
nf-test (modules/gallvp/busco/busco, singularity)
13m 1s
nf-test (subworkflows/gallvp/fasta_ltrretriever_lai, conda)
14m 29s
nf-test (subworkflows/gallvp/fasta_ltrretriever_lai, docker)
8m 35s
nf-test (subworkflows/gallvp/fasta_ltrretriever_lai, singularity)
14m 18s
nf-test (modules/nf-core/gunzip, conda)
1m 37s
nf-test (modules/nf-core/gunzip, docker)
46s
nf-test (modules/nf-core/gunzip, singularity)
57s
nf-test (modules/gallvp/agat/spaddintrons, conda)
2m 13s
nf-test (modules/gallvp/agat/spaddintrons, docker)
56s
nf-test (modules/gallvp/agat/spaddintrons, singularity)
3m 3s
nf-test (modules/gallvp/plotsr, conda)
2m 27s
nf-test (modules/gallvp/plotsr, docker)
1m 36s
nf-test (modules/gallvp/plotsr, singularity)
1m 12s
nf-test (nf-core-modules/modules/nf-core/ltrretriever/lai, conda)
5m 49s
nf-test (nf-core-modules/modules/nf-core/ltrretriever/lai, docker)
3m 24s
nf-test (nf-core-modules/modules/nf-core/ltrretriever/lai, singularity)
3m 47s
nf-test (subworkflows/gallvp/fasta_edta_lai, docker)
16m 36s
nf-test (subworkflows/gallvp/fasta_edta_lai, singularity)
33m 25s
nf-test (modules/gallvp/repeatmasker/repeatmasker, conda)
12m 41s
nf-test (modules/gallvp/repeatmasker/repeatmasker, docker)
1m 43s
nf-test (modules/gallvp/repeatmasker/repeatmasker, singularity)
1m 56s
nf-test (subworkflows/gallvp/fasta_gxf_busco_plot, conda)
4m 29s
nf-test (subworkflows/gallvp/fasta_gxf_busco_plot, docker)
2m 40s
nf-test (subworkflows/gallvp/fasta_gxf_busco_plot, singularity)
8m 2s
nf-test (modules/gallvp/bwa/index, conda)
1m 13s
nf-test (modules/gallvp/bwa/index, docker)
28s
nf-test (modules/gallvp/bwa/index, singularity)
1m 5s
nf-test (modules/gallvp/gffread, conda)
2m 14s
nf-test (modules/gallvp/gffread, docker)
1m 20s
nf-test (modules/gallvp/gffread, singularity)
1m 45s
nf-test (modules/gallvp/syri, conda)
1m 58s
nf-test (modules/gallvp/syri, docker)
58s
nf-test (modules/gallvp/syri, singularity)
3m 18s
nf-test (modules/gallvp/custom/restoregffids, conda)
1m 38s
nf-test (modules/gallvp/custom/restoregffids, docker)
1m 2s
nf-test (modules/gallvp/custom/restoregffids, singularity)
39s
nf-test (subworkflows/gallvp/gff3_gt_gff3_gff3validator_stat, conda)
2m 58s
nf-test (subworkflows/gallvp/gff3_gt_gff3_gff3validator_stat, docker)
1m 1s
nf-test (subworkflows/gallvp/gff3_gt_gff3_gff3validator_stat, singularity)
1m 9s
nf-test (modules/gallvp/ltrretriever/lai, conda)
5m 33s
nf-test (modules/gallvp/ltrretriever/lai, docker)
3m 32s
nf-test (modules/gallvp/ltrretriever/lai, singularity)
4m 2s
nf-test (modules/gallvp/bwa/mem, conda)
2m 46s
nf-test (modules/gallvp/bwa/mem, docker)
1m 20s
nf-test (modules/gallvp/bwa/mem, singularity)
1m 27s
nf-test (modules/gallvp/repeatmasker/rmouttogff3, conda)
29m 52s
nf-test (modules/gallvp/repeatmasker/rmouttogff3, docker)
1m 29s
nf-test (modules/gallvp/repeatmasker/rmouttogff3, singularity)
1m 43s
nf-test (subworkflows/gallvp/gxf_fasta_agat_spaddintrons_spextractsequences, conda)
3m 22s
nf-test (subworkflows/gallvp/gxf_fasta_agat_spaddintrons_spextractsequences, docker)
1m 6s
nf-test (subworkflows/gallvp/gxf_fasta_agat_spaddintrons_spextractsequences, singularity)
1m 4s
nf-test (modules/gallvp/samblaster, conda)
1m 24s
nf-test (modules/gallvp/samblaster, docker)
39s
nf-test (modules/gallvp/samblaster, singularity)
48s
nf-test (nf-core-modules/modules/nf-core/ltrretriever/ltrretriever, conda)
5m 30s
nf-test (nf-core-modules/modules/nf-core/ltrretriever/ltrretriever, docker)
3m 36s
nf-test (nf-core-modules/modules/nf-core/ltrretriever/ltrretriever, singularity)
5m 38s
nf-test (modules/gallvp/seqkit/seq, conda)
1m 50s
nf-test (modules/gallvp/seqkit/seq, docker)
58s
nf-test (modules/gallvp/seqkit/seq, singularity)
1m 17s
nf-test (modules/gallvp/agat/spextractsequences, conda)
2m 22s
nf-test (modules/gallvp/agat/spextractsequences, docker)
53s
nf-test (modules/gallvp/agat/spextractsequences, singularity)
59s
nf-test (nf-core-modules/modules/nf-core/bwa/mem, conda)
2m 58s
nf-test (nf-core-modules/modules/nf-core/bwa/mem, docker)
1m 17s
nf-test (nf-core-modules/modules/nf-core/bwa/mem, singularity)
1m 23s
nf-test (modules/gallvp/annosine, conda)
24m 38s
nf-test (modules/gallvp/annosine, docker)
1m 54s
nf-test (modules/gallvp/annosine, singularity)
2m 19s
nf-test (modules/gallvp/ltrretriever/ltrretriever, conda)
5m 34s
nf-test (modules/gallvp/ltrretriever/ltrretriever, docker)
3m 41s
nf-test (modules/gallvp/ltrretriever/ltrretriever, singularity)
5m 39s
nf-test (modules/gallvp/busco/generateplot, conda)
3m 48s
nf-test (modules/gallvp/busco/generateplot, docker)
1m 45s
nf-test (modules/gallvp/busco/generateplot, singularity)
8m 4s
nf-test (subworkflows/gallvp/fastq_bwa_mem_samblaster, conda)
1m 44s
nf-test (subworkflows/gallvp/fastq_bwa_mem_samblaster, docker)
45s
nf-test (subworkflows/gallvp/fastq_bwa_mem_samblaster, singularity)
54s
nf-test (modules/gallvp/ltrharvest, conda)
2m 23s
nf-test (modules/gallvp/ltrharvest, docker)
58s
nf-test (modules/gallvp/ltrharvest, singularity)
1m 10s
nf-test (modules/gallvp/gt/gff3, conda)
1m 36s
nf-test (modules/gallvp/gt/gff3, docker)
1m 29s
nf-test (modules/gallvp/gt/gff3, singularity)
47s
nf-test (modules/gallvp/minimap2/align, conda)
3m 46s
nf-test (modules/gallvp/minimap2/align, docker)
1m 52s
nf-test (modules/gallvp/minimap2/align, singularity)
1m 53s
nf-test (modules/gallvp/samtools/faidx, conda)
2m 2s
nf-test (modules/gallvp/samtools/faidx, docker)
1m 2s
nf-test (modules/gallvp/samtools/faidx, singularity)
1m 6s
nf-test (modules/gallvp/ltrfinder, conda)
2m 43s
nf-test (modules/gallvp/ltrfinder, docker)
1m 36s
nf-test (modules/gallvp/ltrfinder, singularity)
1m 38s
confirm-pass
10s
8h 34m 44s