Skip to content

Explore
By company size
By use case
By industry
View all solutions
Topics
- AI
- DevOps
- Security
- Software Development
- View all
Explore
- GitHub Sponsors
  Fund open source developers
- The ReadME Project
  GitHub community articles
Repositories
- Enterprise platform
  AI-powered developer platform
Available add-ons
Pricing

Search code, repositories, users, issues, pull requests...

Search

Clear

Search syntax tips

Provide feedback

We read every piece of feedback, and take your input very seriously.

Include my email address so I can be contacted

Saved searches

Use saved searches to filter your results more quickly

Name

Query

To see all available qualifiers, see our documentation.

Sign in

Sign up

You signed in with another tab or window. Reload to refresh your session. You signed out in another tab or window. Reload to refresh your session. You switched accounts on another tab or window. Reload to refresh your session.

Dismiss alert

viash-hub / biobox Public

Notifications You must be signed in to change notification settings
Fork 6
Star 4

Code
Issues 3
Pull requests 19
Discussions
Actions
Projects 1
Security
Insights

Additional navigation options

Code
Issues
Pull requests
Discussions
Actions
Projects
Security
Insights

Test components

Add cellranger_mkref (#164) #1435

Sign in to view logs

Sign in to view logs

Add cellranger_mkref (#164)

Add cellranger_mkref (#164) #1435

Summary
Jobs
- List components to test
  
  Test (rsem_calculate_expression, rsem, src/rsem/rsem_calculate_expression/config.vsh.yaml, src/rs...
  
  Test (rsem_prepare_reference, rsem, src/rsem/rsem_prepare_reference/config.vsh.yaml, src/rsem/rse...
  
  Test (trimgalore, src/trimgalore/config.vsh.yaml, src/trimgalore/, bash_script, trimgalore)
  
  Test (snpeff, src/snpeff/config.vsh.yaml, src/snpeff/, bash_script, snpeff)
  
  Test (nanoplot, src/nanoplot/config.vsh.yaml, src/nanoplot/, bash_script, nanoplot)
  
  Test (bbmap_bbsplit, bbmap, src/bbmap/bbmap_bbsplit/config.vsh.yaml, src/bbmap/bbmap_bbsplit/, ba...
  
  Test (salmon_quant, salmon, src/salmon/salmon_quant/config.vsh.yaml, src/salmon/salmon_quant/, ba...
  
  Test (salmon_index, salmon, src/salmon/salmon_index/config.vsh.yaml, src/salmon/salmon_index/, ba...
  
  Test (seqtk_subseq, seqtk, src/seqtk/seqtk_subseq/config.vsh.yaml, src/seqtk/seqtk_subseq/, bash_...
  
  Test (seqtk_sample, seqtk, src/seqtk/seqtk_sample/config.vsh.yaml, src/seqtk/seqtk_sample/, bash_...
  
  Test (qualimap_rnaseq, qualimap, src/qualimap/qualimap_rnaseq/config.vsh.yaml, src/qualimap/quali...
  
  Test (rseqc_inferexperiment, rseqc, src/rseqc/rseqc_inferexperiment/config.vsh.yaml, src/rseqc/rs...
  
  Test (rseqc_inner_distance, rseqc, src/rseqc/rseqc_inner_distance/config.vsh.yaml, src/rseqc/rseq...
  
  Test (rseqc_bamstat, rseqc, src/rseqc/rseqc_bamstat/config.vsh.yaml, src/rseqc/rseqc_bamstat/, ba...
  
  Test (cutadapt, src/cutadapt/config.vsh.yaml, src/cutadapt/, bash_script, cutadapt)
  
  Test (bedtools_links, bedtools, src/bedtools/bedtools_links/config.vsh.yaml, src/bedtools/bedtool...
  
  Test (bedtools_bed12tobed6, bedtools, src/bedtools/bedtools_bed12tobed6/config.vsh.yaml, src/bedt...
  
  Test (bedtools_genomecov, bedtools, src/bedtools/bedtools_genomecov/config.vsh.yaml, src/bedtools...
  
  Test (bedtools_sort, bedtools, src/bedtools/bedtools_sort/config.vsh.yaml, src/bedtools/bedtools_...
  
  Test (bedtools_groupby, bedtools, src/bedtools/bedtools_groupby/config.vsh.yaml, src/bedtools/bed...
  
  Test (bedtools_merge, bedtools, src/bedtools/bedtools_merge/config.vsh.yaml, src/bedtools/bedtool...
  
  Test (bedtools_bamtofastq, bedtools, src/bedtools/bedtools_bamtofastq/config.vsh.yaml, src/bedtoo...
  
  Test (bedtools_getfasta, bedtools, src/bedtools/bedtools_getfasta/config.vsh.yaml, src/bedtools/b...
  
  Test (bedtools_bedtobam, bedtools, src/bedtools/bedtools_bedtobam/config.vsh.yaml, src/bedtools/b...
  
  Test (bedtools_intersect, bedtools, src/bedtools/bedtools_intersect/config.vsh.yaml, src/bedtools...
  
  Test (bedtools_bamtobed, bedtools, src/bedtools/bedtools_bamtobed/config.vsh.yaml, src/bedtools/b...
  
  Test (featurecounts, src/featurecounts/config.vsh.yaml, src/featurecounts/, bash_script, featurec...
  
  Test (fastqc, src/fastqc/config.vsh.yaml, src/fastqc/, bash_script, fastqc)
  
  Test (multiqc, src/multiqc/config.vsh.yaml, src/multiqc/, bash_script, multiqc)
  
  Test (fq_subsample, src/fq_subsample/config.vsh.yaml, src/fq_subsample/, bash_script, fq_subsample)
  
  Test (falco, src/falco/config.vsh.yaml, src/falco/, bash_script, falco)
  
  Test (bd_rhapsody_sequence_analysis, bd_rhapsody, src/bd_rhapsody/bd_rhapsody_sequence_analysis/c...
  
  Test (bd_rhapsody_make_reference, bd_rhapsody, src/bd_rhapsody/bd_rhapsody_make_reference/config....
  
  Test (agat_convert_sp_gxf2gxf, agat, src/agat/agat_convert_sp_gxf2gxf/config.vsh.yaml, src/agat/a...
  
  Test (agat_sp_merge_annotations, agat, src/agat/agat_sp_merge_annotations/config.vsh.yaml, src/ag...
  
  Test (agat_convert_sp_gff2tsv, agat, src/agat/agat_convert_sp_gff2tsv/config.vsh.yaml, src/agat/a...
  
  Test (agat_convert_genscan2gff, agat, src/agat/agat_convert_genscan2gff/config.vsh.yaml, src/agat...
  
  Test (agat_sp_filter_feature_from_kill_list, agat, src/agat/agat_sp_filter_feature_from_kill_list...
  
  Test (agat_sp_add_introns, agat, src/agat/agat_sp_add_introns/config.vsh.yaml, src/agat/agat_sp_a...
  
  Test (agat_convert_bed2gff, agat, src/agat/agat_convert_bed2gff/config.vsh.yaml, src/agat/agat_co...
  
  Test (agat_sp_statistics, agat, src/agat/agat_sp_statistics/config.vsh.yaml, src/agat/agat_sp_sta...
  
  Test (agat_convert_mfannot2gff, agat, src/agat/agat_convert_mfannot2gff/config.vsh.yaml, src/agat...
  
  Test (agat_convert_embl2gff, agat, src/agat/agat_convert_embl2gff/config.vsh.yaml, src/agat/agat_...
  
  Test (agat_sq_stat_basic, agat, src/agat/agat_sq_stat_basic/config.vsh.yaml, src/agat/agat_sq_sta...
  
  Test (agat_convert_sp_gff2gtf, agat, src/agat/agat_convert_sp_gff2gtf/config.vsh.yaml, src/agat/a...
  
  Test (cellranger_mkref, cellranger, src/cellranger/cellranger_mkref/config.vsh.yaml, src/cellrang...
  
  Test (umi_tools_prepareforrsem, umi_tools, src/umi_tools/umi_tools_prepareforrsem/config.vsh.yaml...
  
  Test (umi_tools_extract, umi_tools, src/umi_tools/umi_tools_extract/config.vsh.yaml, src/umi_tool...
  
  Test (umi_tools_dedup, umi_tools, src/umi_tools/umi_tools_dedup/config.vsh.yaml, src/umi_tools/um...
  
  Test (arriba, src/arriba/config.vsh.yaml, src/arriba/, bash_script, arriba)
  
  Test (gffread, src/gffread/config.vsh.yaml, src/gffread/, bash_script, gffread)
  
  Test (lofreq_indelqual, lofreq, src/lofreq/indelqual/config.vsh.yaml, src/lofreq/indelqual/, bash...
  
  Test (lofreq_call, lofreq, src/lofreq/call/config.vsh.yaml, src/lofreq/call/, bash_script, lofreq...
  
  Test (bcl_convert, src/bcl_convert/config.vsh.yaml, src/bcl_convert/, bash_script, bcl_convert)
  
  Test (samtools_faidx, samtools, src/samtools/samtools_faidx/config.vsh.yaml, src/samtools/samtool...
  
  Test (samtools_collate, samtools, src/samtools/samtools_collate/config.vsh.yaml, src/samtools/sam...
  
  Test (samtools_sort, samtools, src/samtools/samtools_sort/config.vsh.yaml, src/samtools/samtools_...
  
  Test (samtools_flagstat, samtools, src/samtools/samtools_flagstat/config.vsh.yaml, src/samtools/s...
  
  Test (samtools_fastq, samtools, src/samtools/samtools_fastq/config.vsh.yaml, src/samtools/samtool...
  
  Test (samtools_view, samtools, src/samtools/samtools_view/config.vsh.yaml, src/samtools/samtools_...
  
  Test (samtools_idxstats, samtools, src/samtools/samtools_idxstats/config.vsh.yaml, src/samtools/s...
  
  Test (samtools_fasta, samtools, src/samtools/samtools_fasta/config.vsh.yaml, src/samtools/samtool...
  
  Test (samtools_stats, samtools, src/samtools/samtools_stats/config.vsh.yaml, src/samtools/samtool...
  
  Test (samtools_index, samtools, src/samtools/samtools_index/config.vsh.yaml, src/samtools/samtool...
  
  Test (pear, src/pear/config.vsh.yaml, src/pear/, bash_script, pear)
  
  Test (kallisto_index, kallisto, src/kallisto/kallisto_index/config.vsh.yaml, src/kallisto/kallist...
  
  Test (kallisto_quant, kallisto, src/kallisto/kallisto_quant/config.vsh.yaml, src/kallisto/kallist...
  
  Test (star_genome_generate, star, src/star/star_genome_generate/config.vsh.yaml, src/star/star_ge...
  
  Test (star_align_reads, star, src/star/star_align_reads/config.vsh.yaml, src/star/star_align_read...
  
  Test (busco_list_datasets, busco, src/busco/busco_list_datasets/config.vsh.yaml, src/busco/busco_...
  
  Test (busco_download_datasets, busco, src/busco/busco_download_datasets/config.vsh.yaml, src/busc...
  
  Test (busco_run, busco, src/busco/busco_run/config.vsh.yaml, src/busco/busco_run/, bash_script, b...
  
  Test (fastp, src/fastp/config.vsh.yaml, src/fastp/, bash_script, fastp)
  
  Test (bcftools_norm, bcftools, src/bcftools/bcftools_norm/config.vsh.yaml, src/bcftools/bcftools_...
  
  Test (bcftools_annotate, bcftools, src/bcftools/bcftools_annotate/config.vsh.yaml, src/bcftools/b...
  
  Test (bcftools_concat, bcftools, src/bcftools/bcftools_concat/config.vsh.yaml, src/bcftools/bcfto...
  
  Test (bcftools_stats, bcftools, src/bcftools/bcftools_stats/config.vsh.yaml, src/bcftools/bcftool...
  
  Test (bcftools_sort, bcftools, src/bcftools/bcftools_sort/config.vsh.yaml, src/bcftools/bcftools_...
  
  Test (sortmerna, src/sortmerna/config.vsh.yaml, src/sortmerna/, bash_script, sortmerna)
Run details
- Usage
- Workflow file

Usage Workflow file

test / Test (umi_tools_dedup, umi_tools, src/umi_tools/umi_tools_dedup/config.vsh.yaml, src/umi_tools/um...

succeeded Nov 8, 2024 in 2m 42s

Loading

Re-running jobs...

You can’t perform that action at this time.