From 963503eca825928d8a95e93f5f68f7b17cebca95 Mon Sep 17 00:00:00 2001 From: CI Date: Tue, 22 Apr 2025 09:13:11 +0000 Subject: [PATCH] Build branch main with version main (1efc026) Build pipeline: viash-hub.biobox.main-kvvc8 Source commit: https://github.com/viash-hub/biobox/commit/1efc0264ca674d8cff7729fcd0ad8f11ea06ee27 Source message: Use `meta_name` instead of `meta_functionality_name` (#174) --- CHANGELOG.md | 4 ++++ src/agat/agat_convert_mfannot2gff/test.sh | 2 +- src/agat/agat_sp_add_introns/test.sh | 2 +- src/agat/agat_sp_filter_feature_from_kill_list/test.sh | 2 +- src/agat/agat_sp_merge_annotations/test.sh | 2 +- src/agat/agat_sp_statistics/test.sh | 2 +- src/agat/agat_sq_stat_basic/test.sh | 2 +- src/bbmap/bbmap_bbsplit/test.sh | 2 +- src/falco/test.sh | 2 +- src/featurecounts/script.sh | 2 +- src/kallisto/kallisto_index/test.sh | 4 ++-- src/kallisto/kallisto_quant/test.sh | 2 +- src/rsem/rsem_prepare_reference/test.sh | 2 +- src/rseqc/rseqc_bamstat/test.sh | 4 ++-- src/rseqc/rseqc_inner_distance/test.sh | 4 ++-- src/salmon/salmon_index/script.sh | 2 +- src/samtools/samtools_collate/test.sh | 6 +++--- src/samtools/samtools_faidx/test.sh | 8 ++++---- src/samtools/samtools_flagstat/test.sh | 4 ++-- src/samtools/samtools_idxstats/test.sh | 4 ++-- src/samtools/samtools_index/test.sh | 2 +- src/samtools/samtools_stats/test.sh | 6 +++--- src/samtools/samtools_view/test.sh | 6 +++--- src/sortmerna/test.sh | 2 +- src/umi_tools/umi_tools_dedup/test.sh | 6 +++--- src/umi_tools/umi_tools_extract/test.sh | 2 +- .../executable/agat/agat_convert_bed2gff/.config.vsh.yaml | 4 ++-- .../agat/agat_convert_bed2gff/agat_convert_bed2gff | 4 ++-- .../agat/agat_convert_embl2gff/.config.vsh.yaml | 4 ++-- .../agat/agat_convert_embl2gff/agat_convert_embl2gff | 4 ++-- .../agat/agat_convert_genscan2gff/.config.vsh.yaml | 4 ++-- .../agat_convert_genscan2gff/agat_convert_genscan2gff | 4 ++-- .../agat/agat_convert_mfannot2gff/.config.vsh.yaml | 4 ++-- .../agat_convert_mfannot2gff/agat_convert_mfannot2gff | 4 ++-- .../agat/agat_convert_sp_gff2gtf/.config.vsh.yaml | 4 ++-- .../agat/agat_convert_sp_gff2gtf/agat_convert_sp_gff2gtf | 4 ++-- .../agat/agat_convert_sp_gff2tsv/.config.vsh.yaml | 4 ++-- .../agat/agat_convert_sp_gff2tsv/agat_convert_sp_gff2tsv | 4 ++-- .../agat/agat_convert_sp_gxf2gxf/.config.vsh.yaml | 4 ++-- .../agat/agat_convert_sp_gxf2gxf/agat_convert_sp_gxf2gxf | 4 ++-- .../executable/agat/agat_sp_add_introns/.config.vsh.yaml | 4 ++-- .../agat/agat_sp_add_introns/agat_sp_add_introns | 4 ++-- .../.config.vsh.yaml | 4 ++-- .../agat_sp_filter_feature_from_kill_list | 4 ++-- .../agat/agat_sp_merge_annotations/.config.vsh.yaml | 4 ++-- .../agat_sp_merge_annotations/agat_sp_merge_annotations | 4 ++-- .../executable/agat/agat_sp_statistics/.config.vsh.yaml | 4 ++-- .../executable/agat/agat_sp_statistics/agat_sp_statistics | 4 ++-- .../executable/agat/agat_sq_stat_basic/.config.vsh.yaml | 4 ++-- .../executable/agat/agat_sq_stat_basic/agat_sq_stat_basic | 4 ++-- target/executable/arriba/.config.vsh.yaml | 4 ++-- target/executable/arriba/arriba | 4 ++-- target/executable/bases2fastq/.config.vsh.yaml | 4 ++-- target/executable/bases2fastq/bases2fastq | 4 ++-- target/executable/bbmap/bbmap_bbsplit/.config.vsh.yaml | 4 ++-- target/executable/bbmap/bbmap_bbsplit/bbmap_bbsplit | 4 ++-- .../bcftools/bcftools_annotate/.config.vsh.yaml | 4 ++-- .../bcftools/bcftools_annotate/bcftools_annotate | 4 ++-- .../executable/bcftools/bcftools_concat/.config.vsh.yaml | 4 ++-- .../executable/bcftools/bcftools_concat/bcftools_concat | 4 ++-- target/executable/bcftools/bcftools_norm/.config.vsh.yaml | 4 ++-- target/executable/bcftools/bcftools_norm/bcftools_norm | 4 ++-- target/executable/bcftools/bcftools_sort/.config.vsh.yaml | 4 ++-- target/executable/bcftools/bcftools_sort/bcftools_sort | 4 ++-- .../executable/bcftools/bcftools_stats/.config.vsh.yaml | 4 ++-- target/executable/bcftools/bcftools_stats/bcftools_stats | 4 ++-- target/executable/bcl_convert/.config.vsh.yaml | 4 ++-- target/executable/bcl_convert/bcl_convert | 4 ++-- .../bd_rhapsody_make_reference/.config.vsh.yaml | 4 ++-- .../bd_rhapsody_make_reference/bd_rhapsody_make_reference | 4 ++-- .../bd_rhapsody_sequence_analysis/.config.vsh.yaml | 4 ++-- .../bd_rhapsody_sequence_analysis | 4 ++-- .../bedtools/bedtools_bamtobed/.config.vsh.yaml | 4 ++-- .../bedtools/bedtools_bamtobed/bedtools_bamtobed | 4 ++-- .../bedtools/bedtools_bamtofastq/.config.vsh.yaml | 4 ++-- .../bedtools/bedtools_bamtofastq/bedtools_bamtofastq | 4 ++-- .../bedtools/bedtools_bed12tobed6/.config.vsh.yaml | 4 ++-- .../bedtools/bedtools_bed12tobed6/bedtools_bed12tobed6 | 4 ++-- .../bedtools/bedtools_bedtobam/.config.vsh.yaml | 4 ++-- .../bedtools/bedtools_bedtobam/bedtools_bedtobam | 4 ++-- .../bedtools/bedtools_genomecov/.config.vsh.yaml | 4 ++-- .../bedtools/bedtools_genomecov/bedtools_genomecov | 4 ++-- .../bedtools/bedtools_getfasta/.config.vsh.yaml | 4 ++-- .../bedtools/bedtools_getfasta/bedtools_getfasta | 4 ++-- .../executable/bedtools/bedtools_groupby/.config.vsh.yaml | 4 ++-- .../executable/bedtools/bedtools_groupby/bedtools_groupby | 4 ++-- .../bedtools/bedtools_intersect/.config.vsh.yaml | 4 ++-- .../bedtools/bedtools_intersect/bedtools_intersect | 4 ++-- .../executable/bedtools/bedtools_links/.config.vsh.yaml | 4 ++-- target/executable/bedtools/bedtools_links/bedtools_links | 4 ++-- .../executable/bedtools/bedtools_merge/.config.vsh.yaml | 4 ++-- target/executable/bedtools/bedtools_merge/bedtools_merge | 4 ++-- target/executable/bedtools/bedtools_sort/.config.vsh.yaml | 4 ++-- target/executable/bedtools/bedtools_sort/bedtools_sort | 4 ++-- .../busco/busco_download_datasets/.config.vsh.yaml | 4 ++-- .../busco/busco_download_datasets/busco_download_datasets | 4 ++-- .../executable/busco/busco_list_datasets/.config.vsh.yaml | 4 ++-- .../busco/busco_list_datasets/busco_list_datasets | 4 ++-- target/executable/busco/busco_run/.config.vsh.yaml | 4 ++-- target/executable/busco/busco_run/busco_run | 4 ++-- .../cellranger/cellranger_mkref/.config.vsh.yaml | 4 ++-- .../cellranger/cellranger_mkref/cellranger_mkref | 4 ++-- target/executable/cutadapt/.config.vsh.yaml | 4 ++-- target/executable/cutadapt/cutadapt | 4 ++-- target/executable/falco/.config.vsh.yaml | 4 ++-- target/executable/falco/falco | 4 ++-- target/executable/fastp/.config.vsh.yaml | 4 ++-- target/executable/fastp/fastp | 4 ++-- target/executable/fastqc/.config.vsh.yaml | 4 ++-- target/executable/fastqc/fastqc | 4 ++-- target/executable/featurecounts/.config.vsh.yaml | 4 ++-- target/executable/featurecounts/featurecounts | 6 +++--- target/executable/fq_subsample/.config.vsh.yaml | 4 ++-- target/executable/fq_subsample/fq_subsample | 4 ++-- target/executable/gffread/.config.vsh.yaml | 4 ++-- target/executable/gffread/gffread | 4 ++-- .../executable/kallisto/kallisto_index/.config.vsh.yaml | 4 ++-- target/executable/kallisto/kallisto_index/kallisto_index | 4 ++-- .../executable/kallisto/kallisto_quant/.config.vsh.yaml | 4 ++-- target/executable/kallisto/kallisto_quant/kallisto_quant | 4 ++-- target/executable/lofreq/lofreq_call/.config.vsh.yaml | 4 ++-- target/executable/lofreq/lofreq_call/lofreq_call | 4 ++-- .../executable/lofreq/lofreq_indelqual/.config.vsh.yaml | 4 ++-- .../executable/lofreq/lofreq_indelqual/lofreq_indelqual | 4 ++-- target/executable/multiqc/.config.vsh.yaml | 4 ++-- target/executable/multiqc/multiqc | 4 ++-- target/executable/nanoplot/.config.vsh.yaml | 4 ++-- target/executable/nanoplot/nanoplot | 4 ++-- target/executable/pear/.config.vsh.yaml | 4 ++-- target/executable/pear/pear | 4 ++-- .../executable/qualimap/qualimap_rnaseq/.config.vsh.yaml | 4 ++-- .../executable/qualimap/qualimap_rnaseq/qualimap_rnaseq | 4 ++-- .../rsem/rsem_calculate_expression/.config.vsh.yaml | 4 ++-- .../rsem_calculate_expression/rsem_calculate_expression | 4 ++-- .../rsem/rsem_prepare_reference/.config.vsh.yaml | 4 ++-- .../rsem/rsem_prepare_reference/rsem_prepare_reference | 4 ++-- target/executable/rseqc/rseqc_bamstat/.config.vsh.yaml | 4 ++-- target/executable/rseqc/rseqc_bamstat/rseqc_bamstat | 4 ++-- .../rseqc/rseqc_inferexperiment/.config.vsh.yaml | 4 ++-- .../rseqc/rseqc_inferexperiment/rseqc_inferexperiment | 4 ++-- .../rseqc/rseqc_inner_distance/.config.vsh.yaml | 4 ++-- .../rseqc/rseqc_inner_distance/rseqc_inner_distance | 4 ++-- target/executable/salmon/salmon_index/.config.vsh.yaml | 4 ++-- target/executable/salmon/salmon_index/salmon_index | 6 +++--- target/executable/salmon/salmon_quant/.config.vsh.yaml | 4 ++-- target/executable/salmon/salmon_quant/salmon_quant | 4 ++-- .../executable/samtools/samtools_collate/.config.vsh.yaml | 4 ++-- .../executable/samtools/samtools_collate/samtools_collate | 4 ++-- .../executable/samtools/samtools_faidx/.config.vsh.yaml | 4 ++-- target/executable/samtools/samtools_faidx/samtools_faidx | 4 ++-- .../executable/samtools/samtools_fasta/.config.vsh.yaml | 4 ++-- target/executable/samtools/samtools_fasta/samtools_fasta | 4 ++-- .../executable/samtools/samtools_fastq/.config.vsh.yaml | 4 ++-- target/executable/samtools/samtools_fastq/samtools_fastq | 4 ++-- .../samtools/samtools_flagstat/.config.vsh.yaml | 4 ++-- .../samtools/samtools_flagstat/samtools_flagstat | 4 ++-- .../samtools/samtools_idxstats/.config.vsh.yaml | 4 ++-- .../samtools/samtools_idxstats/samtools_idxstats | 4 ++-- .../executable/samtools/samtools_index/.config.vsh.yaml | 4 ++-- target/executable/samtools/samtools_index/samtools_index | 4 ++-- target/executable/samtools/samtools_sort/.config.vsh.yaml | 4 ++-- target/executable/samtools/samtools_sort/samtools_sort | 4 ++-- .../executable/samtools/samtools_stats/.config.vsh.yaml | 4 ++-- target/executable/samtools/samtools_stats/samtools_stats | 4 ++-- target/executable/samtools/samtools_view/.config.vsh.yaml | 4 ++-- target/executable/samtools/samtools_view/samtools_view | 4 ++-- target/executable/seqtk/seqtk_sample/.config.vsh.yaml | 4 ++-- target/executable/seqtk/seqtk_sample/seqtk_sample | 4 ++-- target/executable/seqtk/seqtk_subseq/.config.vsh.yaml | 4 ++-- target/executable/seqtk/seqtk_subseq/seqtk_subseq | 4 ++-- target/executable/sgdemux/.config.vsh.yaml | 4 ++-- target/executable/sgdemux/sgdemux | 4 ++-- target/executable/snpeff/.config.vsh.yaml | 4 ++-- target/executable/snpeff/snpeff | 4 ++-- target/executable/sortmerna/.config.vsh.yaml | 4 ++-- target/executable/sortmerna/sortmerna | 4 ++-- target/executable/star/star_align_reads/.config.vsh.yaml | 4 ++-- target/executable/star/star_align_reads/star_align_reads | 4 ++-- .../executable/star/star_genome_generate/.config.vsh.yaml | 4 ++-- .../star/star_genome_generate/star_genome_generate | 4 ++-- target/executable/trimgalore/.config.vsh.yaml | 4 ++-- target/executable/trimgalore/trimgalore | 4 ++-- .../executable/umi_tools/umi_tools_dedup/.config.vsh.yaml | 4 ++-- .../executable/umi_tools/umi_tools_dedup/umi_tools_dedup | 4 ++-- .../umi_tools/umi_tools_extract/.config.vsh.yaml | 4 ++-- .../umi_tools/umi_tools_extract/umi_tools_extract | 4 ++-- .../umi_tools/umi_tools_prepareforrsem/.config.vsh.yaml | 4 ++-- .../umi_tools_prepareforrsem/umi_tools_prepareforrsem | 4 ++-- .../nextflow/agat/agat_convert_bed2gff/.config.vsh.yaml | 4 ++-- target/nextflow/agat/agat_convert_bed2gff/main.nf | 4 ++-- .../nextflow/agat/agat_convert_embl2gff/.config.vsh.yaml | 4 ++-- target/nextflow/agat/agat_convert_embl2gff/main.nf | 4 ++-- .../agat/agat_convert_genscan2gff/.config.vsh.yaml | 4 ++-- target/nextflow/agat/agat_convert_genscan2gff/main.nf | 4 ++-- .../agat/agat_convert_mfannot2gff/.config.vsh.yaml | 4 ++-- target/nextflow/agat/agat_convert_mfannot2gff/main.nf | 4 ++-- .../agat/agat_convert_sp_gff2gtf/.config.vsh.yaml | 4 ++-- target/nextflow/agat/agat_convert_sp_gff2gtf/main.nf | 4 ++-- .../agat/agat_convert_sp_gff2tsv/.config.vsh.yaml | 4 ++-- target/nextflow/agat/agat_convert_sp_gff2tsv/main.nf | 4 ++-- .../agat/agat_convert_sp_gxf2gxf/.config.vsh.yaml | 4 ++-- target/nextflow/agat/agat_convert_sp_gxf2gxf/main.nf | 4 ++-- target/nextflow/agat/agat_sp_add_introns/.config.vsh.yaml | 4 ++-- target/nextflow/agat/agat_sp_add_introns/main.nf | 4 ++-- .../.config.vsh.yaml | 4 ++-- .../agat/agat_sp_filter_feature_from_kill_list/main.nf | 4 ++-- .../agat/agat_sp_merge_annotations/.config.vsh.yaml | 4 ++-- target/nextflow/agat/agat_sp_merge_annotations/main.nf | 4 ++-- target/nextflow/agat/agat_sp_statistics/.config.vsh.yaml | 4 ++-- target/nextflow/agat/agat_sp_statistics/main.nf | 4 ++-- target/nextflow/agat/agat_sq_stat_basic/.config.vsh.yaml | 4 ++-- target/nextflow/agat/agat_sq_stat_basic/main.nf | 4 ++-- target/nextflow/arriba/.config.vsh.yaml | 4 ++-- target/nextflow/arriba/main.nf | 4 ++-- target/nextflow/bases2fastq/.config.vsh.yaml | 4 ++-- target/nextflow/bases2fastq/main.nf | 4 ++-- target/nextflow/bbmap/bbmap_bbsplit/.config.vsh.yaml | 4 ++-- target/nextflow/bbmap/bbmap_bbsplit/main.nf | 4 ++-- .../nextflow/bcftools/bcftools_annotate/.config.vsh.yaml | 4 ++-- target/nextflow/bcftools/bcftools_annotate/main.nf | 4 ++-- target/nextflow/bcftools/bcftools_concat/.config.vsh.yaml | 4 ++-- target/nextflow/bcftools/bcftools_concat/main.nf | 4 ++-- target/nextflow/bcftools/bcftools_norm/.config.vsh.yaml | 4 ++-- target/nextflow/bcftools/bcftools_norm/main.nf | 4 ++-- target/nextflow/bcftools/bcftools_sort/.config.vsh.yaml | 4 ++-- target/nextflow/bcftools/bcftools_sort/main.nf | 4 ++-- target/nextflow/bcftools/bcftools_stats/.config.vsh.yaml | 4 ++-- target/nextflow/bcftools/bcftools_stats/main.nf | 4 ++-- target/nextflow/bcl_convert/.config.vsh.yaml | 4 ++-- target/nextflow/bcl_convert/main.nf | 4 ++-- .../bd_rhapsody_make_reference/.config.vsh.yaml | 4 ++-- .../bd_rhapsody/bd_rhapsody_make_reference/main.nf | 4 ++-- .../bd_rhapsody_sequence_analysis/.config.vsh.yaml | 4 ++-- .../bd_rhapsody/bd_rhapsody_sequence_analysis/main.nf | 4 ++-- .../nextflow/bedtools/bedtools_bamtobed/.config.vsh.yaml | 4 ++-- target/nextflow/bedtools/bedtools_bamtobed/main.nf | 4 ++-- .../bedtools/bedtools_bamtofastq/.config.vsh.yaml | 4 ++-- target/nextflow/bedtools/bedtools_bamtofastq/main.nf | 4 ++-- .../bedtools/bedtools_bed12tobed6/.config.vsh.yaml | 4 ++-- target/nextflow/bedtools/bedtools_bed12tobed6/main.nf | 4 ++-- .../nextflow/bedtools/bedtools_bedtobam/.config.vsh.yaml | 4 ++-- target/nextflow/bedtools/bedtools_bedtobam/main.nf | 4 ++-- .../nextflow/bedtools/bedtools_genomecov/.config.vsh.yaml | 4 ++-- target/nextflow/bedtools/bedtools_genomecov/main.nf | 4 ++-- .../nextflow/bedtools/bedtools_getfasta/.config.vsh.yaml | 4 ++-- target/nextflow/bedtools/bedtools_getfasta/main.nf | 4 ++-- .../nextflow/bedtools/bedtools_groupby/.config.vsh.yaml | 4 ++-- target/nextflow/bedtools/bedtools_groupby/main.nf | 4 ++-- .../nextflow/bedtools/bedtools_intersect/.config.vsh.yaml | 4 ++-- target/nextflow/bedtools/bedtools_intersect/main.nf | 4 ++-- target/nextflow/bedtools/bedtools_links/.config.vsh.yaml | 4 ++-- target/nextflow/bedtools/bedtools_links/main.nf | 4 ++-- target/nextflow/bedtools/bedtools_merge/.config.vsh.yaml | 4 ++-- target/nextflow/bedtools/bedtools_merge/main.nf | 4 ++-- target/nextflow/bedtools/bedtools_sort/.config.vsh.yaml | 4 ++-- target/nextflow/bedtools/bedtools_sort/main.nf | 4 ++-- .../busco/busco_download_datasets/.config.vsh.yaml | 4 ++-- target/nextflow/busco/busco_download_datasets/main.nf | 4 ++-- .../nextflow/busco/busco_list_datasets/.config.vsh.yaml | 4 ++-- target/nextflow/busco/busco_list_datasets/main.nf | 4 ++-- target/nextflow/busco/busco_run/.config.vsh.yaml | 4 ++-- target/nextflow/busco/busco_run/main.nf | 4 ++-- .../nextflow/cellranger/cellranger_mkref/.config.vsh.yaml | 4 ++-- target/nextflow/cellranger/cellranger_mkref/main.nf | 4 ++-- target/nextflow/cutadapt/.config.vsh.yaml | 4 ++-- target/nextflow/cutadapt/main.nf | 4 ++-- target/nextflow/falco/.config.vsh.yaml | 4 ++-- target/nextflow/falco/main.nf | 4 ++-- target/nextflow/fastp/.config.vsh.yaml | 4 ++-- target/nextflow/fastp/main.nf | 4 ++-- target/nextflow/fastqc/.config.vsh.yaml | 4 ++-- target/nextflow/fastqc/main.nf | 4 ++-- target/nextflow/featurecounts/.config.vsh.yaml | 4 ++-- target/nextflow/featurecounts/main.nf | 6 +++--- target/nextflow/fq_subsample/.config.vsh.yaml | 4 ++-- target/nextflow/fq_subsample/main.nf | 4 ++-- target/nextflow/gffread/.config.vsh.yaml | 4 ++-- target/nextflow/gffread/main.nf | 4 ++-- target/nextflow/kallisto/kallisto_index/.config.vsh.yaml | 4 ++-- target/nextflow/kallisto/kallisto_index/main.nf | 4 ++-- target/nextflow/kallisto/kallisto_quant/.config.vsh.yaml | 4 ++-- target/nextflow/kallisto/kallisto_quant/main.nf | 4 ++-- target/nextflow/lofreq/lofreq_call/.config.vsh.yaml | 4 ++-- target/nextflow/lofreq/lofreq_call/main.nf | 4 ++-- target/nextflow/lofreq/lofreq_indelqual/.config.vsh.yaml | 4 ++-- target/nextflow/lofreq/lofreq_indelqual/main.nf | 4 ++-- target/nextflow/multiqc/.config.vsh.yaml | 4 ++-- target/nextflow/multiqc/main.nf | 4 ++-- target/nextflow/nanoplot/.config.vsh.yaml | 4 ++-- target/nextflow/nanoplot/main.nf | 4 ++-- target/nextflow/pear/.config.vsh.yaml | 4 ++-- target/nextflow/pear/main.nf | 4 ++-- target/nextflow/qualimap/qualimap_rnaseq/.config.vsh.yaml | 4 ++-- target/nextflow/qualimap/qualimap_rnaseq/main.nf | 4 ++-- .../rsem/rsem_calculate_expression/.config.vsh.yaml | 4 ++-- target/nextflow/rsem/rsem_calculate_expression/main.nf | 4 ++-- .../nextflow/rsem/rsem_prepare_reference/.config.vsh.yaml | 4 ++-- target/nextflow/rsem/rsem_prepare_reference/main.nf | 4 ++-- target/nextflow/rseqc/rseqc_bamstat/.config.vsh.yaml | 4 ++-- target/nextflow/rseqc/rseqc_bamstat/main.nf | 4 ++-- .../nextflow/rseqc/rseqc_inferexperiment/.config.vsh.yaml | 4 ++-- target/nextflow/rseqc/rseqc_inferexperiment/main.nf | 4 ++-- .../nextflow/rseqc/rseqc_inner_distance/.config.vsh.yaml | 4 ++-- target/nextflow/rseqc/rseqc_inner_distance/main.nf | 4 ++-- target/nextflow/salmon/salmon_index/.config.vsh.yaml | 4 ++-- target/nextflow/salmon/salmon_index/main.nf | 6 +++--- target/nextflow/salmon/salmon_quant/.config.vsh.yaml | 4 ++-- target/nextflow/salmon/salmon_quant/main.nf | 4 ++-- .../nextflow/samtools/samtools_collate/.config.vsh.yaml | 4 ++-- target/nextflow/samtools/samtools_collate/main.nf | 4 ++-- target/nextflow/samtools/samtools_faidx/.config.vsh.yaml | 4 ++-- target/nextflow/samtools/samtools_faidx/main.nf | 4 ++-- target/nextflow/samtools/samtools_fasta/.config.vsh.yaml | 4 ++-- target/nextflow/samtools/samtools_fasta/main.nf | 4 ++-- target/nextflow/samtools/samtools_fastq/.config.vsh.yaml | 4 ++-- target/nextflow/samtools/samtools_fastq/main.nf | 4 ++-- .../nextflow/samtools/samtools_flagstat/.config.vsh.yaml | 4 ++-- target/nextflow/samtools/samtools_flagstat/main.nf | 4 ++-- .../nextflow/samtools/samtools_idxstats/.config.vsh.yaml | 4 ++-- target/nextflow/samtools/samtools_idxstats/main.nf | 4 ++-- target/nextflow/samtools/samtools_index/.config.vsh.yaml | 4 ++-- target/nextflow/samtools/samtools_index/main.nf | 4 ++-- target/nextflow/samtools/samtools_sort/.config.vsh.yaml | 4 ++-- target/nextflow/samtools/samtools_sort/main.nf | 4 ++-- target/nextflow/samtools/samtools_stats/.config.vsh.yaml | 4 ++-- target/nextflow/samtools/samtools_stats/main.nf | 4 ++-- target/nextflow/samtools/samtools_view/.config.vsh.yaml | 4 ++-- target/nextflow/samtools/samtools_view/main.nf | 4 ++-- target/nextflow/seqtk/seqtk_sample/.config.vsh.yaml | 4 ++-- target/nextflow/seqtk/seqtk_sample/main.nf | 4 ++-- target/nextflow/seqtk/seqtk_subseq/.config.vsh.yaml | 4 ++-- target/nextflow/seqtk/seqtk_subseq/main.nf | 4 ++-- target/nextflow/sgdemux/.config.vsh.yaml | 4 ++-- target/nextflow/sgdemux/main.nf | 4 ++-- target/nextflow/snpeff/.config.vsh.yaml | 4 ++-- target/nextflow/snpeff/main.nf | 4 ++-- target/nextflow/sortmerna/.config.vsh.yaml | 4 ++-- target/nextflow/sortmerna/main.nf | 4 ++-- target/nextflow/star/star_align_reads/.config.vsh.yaml | 4 ++-- target/nextflow/star/star_align_reads/main.nf | 4 ++-- .../nextflow/star/star_genome_generate/.config.vsh.yaml | 4 ++-- target/nextflow/star/star_genome_generate/main.nf | 4 ++-- target/nextflow/trimgalore/.config.vsh.yaml | 4 ++-- target/nextflow/trimgalore/main.nf | 4 ++-- .../nextflow/umi_tools/umi_tools_dedup/.config.vsh.yaml | 4 ++-- target/nextflow/umi_tools/umi_tools_dedup/main.nf | 4 ++-- .../nextflow/umi_tools/umi_tools_extract/.config.vsh.yaml | 4 ++-- target/nextflow/umi_tools/umi_tools_extract/main.nf | 4 ++-- .../umi_tools/umi_tools_prepareforrsem/.config.vsh.yaml | 4 ++-- .../nextflow/umi_tools/umi_tools_prepareforrsem/main.nf | 4 ++-- 350 files changed, 697 insertions(+), 693 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 5821ece2..c91ab764 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -4,6 +4,10 @@ * `bcl_convert`: add `force` argument (PR #171). +## MINOR CHANGES + +* Replace the deprecated use of the meta variable `functionality_name` by just `name` (PR #174). + # biobox 0.3.0 ## NEW FUNCTIONALITY diff --git a/src/agat/agat_convert_mfannot2gff/test.sh b/src/agat/agat_convert_mfannot2gff/test.sh index 19f79b6d..bc976239 100644 --- a/src/agat/agat_convert_mfannot2gff/test.sh +++ b/src/agat/agat_convert_mfannot2gff/test.sh @@ -8,7 +8,7 @@ set -eo pipefail test_dir="${meta_resources_dir}/test_data" # create temporary directory and clean up on exit -TMPDIR=$(mktemp -d "$meta_temp_dir/$meta_functionality_name-XXXXXX") +TMPDIR=$(mktemp -d "$meta_temp_dir/$meta_name-XXXXXX") function clean_up { [[ -d "$TMPDIR" ]] && rm -rf "$TMPDIR" } diff --git a/src/agat/agat_sp_add_introns/test.sh b/src/agat/agat_sp_add_introns/test.sh index d7144d91..a4f5c59a 100644 --- a/src/agat/agat_sp_add_introns/test.sh +++ b/src/agat/agat_sp_add_introns/test.sh @@ -8,7 +8,7 @@ set -eo pipefail test_dir="${meta_resources_dir}/test_data" # create temporary directory and clean up on exit -TMPDIR=$(mktemp -d "$meta_temp_dir/$meta_functionality_name-XXXXXX") +TMPDIR=$(mktemp -d "$meta_temp_dir/$meta_name-XXXXXX") function clean_up { [[ -d "$TMPDIR" ]] && rm -rf "$TMPDIR" } diff --git a/src/agat/agat_sp_filter_feature_from_kill_list/test.sh b/src/agat/agat_sp_filter_feature_from_kill_list/test.sh index d9d775d5..88cacbb1 100644 --- a/src/agat/agat_sp_filter_feature_from_kill_list/test.sh +++ b/src/agat/agat_sp_filter_feature_from_kill_list/test.sh @@ -8,7 +8,7 @@ set -eo pipefail test_dir="${meta_resources_dir}/test_data" # create temporary directory and clean up on exit -TMPDIR=$(mktemp -d "$meta_temp_dir/$meta_functionality_name-XXXXXX") +TMPDIR=$(mktemp -d "$meta_temp_dir/$meta_name-XXXXXX") function clean_up { [[ -d "$TMPDIR" ]] && rm -rf "$TMPDIR" } diff --git a/src/agat/agat_sp_merge_annotations/test.sh b/src/agat/agat_sp_merge_annotations/test.sh index 7b882717..eb35c327 100644 --- a/src/agat/agat_sp_merge_annotations/test.sh +++ b/src/agat/agat_sp_merge_annotations/test.sh @@ -8,7 +8,7 @@ set -eo pipefail test_dir="${meta_resources_dir}/test_data" # create temporary directory and clean up on exit -TMPDIR=$(mktemp -d "$meta_temp_dir/$meta_functionality_name-XXXXXX") +TMPDIR=$(mktemp -d "$meta_temp_dir/$meta_name-XXXXXX") function clean_up { [[ -d "$TMPDIR" ]] && rm -rf "$TMPDIR" } diff --git a/src/agat/agat_sp_statistics/test.sh b/src/agat/agat_sp_statistics/test.sh index 35f42ee0..1d7aa419 100644 --- a/src/agat/agat_sp_statistics/test.sh +++ b/src/agat/agat_sp_statistics/test.sh @@ -5,7 +5,7 @@ set -eo pipefail test_dir="${meta_resources_dir}/test_data" # create temporary directory and clean up on exit -TMPDIR=$(mktemp -d "$meta_temp_dir/$meta_functionality_name-XXXXXX") +TMPDIR=$(mktemp -d "$meta_temp_dir/$meta_name-XXXXXX") function clean_up { [[ -d "$TMPDIR" ]] && rm -rf "$TMPDIR" } diff --git a/src/agat/agat_sq_stat_basic/test.sh b/src/agat/agat_sq_stat_basic/test.sh index 12bd28cd..db3f021d 100644 --- a/src/agat/agat_sq_stat_basic/test.sh +++ b/src/agat/agat_sq_stat_basic/test.sh @@ -8,7 +8,7 @@ set -eo pipefail test_dir="${meta_resources_dir}/test_data" # create temporary directory and clean up on exit -TMPDIR=$(mktemp -d "$meta_temp_dir/$meta_functionality_name-XXXXXX") +TMPDIR=$(mktemp -d "$meta_temp_dir/$meta_name-XXXXXX") function clean_up { [[ -d "$TMPDIR" ]] && rm -rf "$TMPDIR" } diff --git a/src/bbmap/bbmap_bbsplit/test.sh b/src/bbmap/bbmap_bbsplit/test.sh index e0fe00d8..d913fc2c 100644 --- a/src/bbmap/bbmap_bbsplit/test.sh +++ b/src/bbmap/bbmap_bbsplit/test.sh @@ -1,6 +1,6 @@ #!/bin/bash -echo ">>> Test $meta_functionality_name" +echo ">>> Test $meta_name" echo "> Prepare test data" diff --git a/src/falco/test.sh b/src/falco/test.sh index 3f1dc47a..d8a11ee2 100644 --- a/src/falco/test.sh +++ b/src/falco/test.sh @@ -8,7 +8,7 @@ echo "> Prepare test data" echo ">> Fetching and preparing test data" fastq1="https://github.com/hartwigmedical/testdata/raw/master/100k_reads_hiseq/TESTX/TESTX_H7YRLADXX_S1_L001_R1_001.fastq.gz" fastq2="https://github.com/hartwigmedical/testdata/raw/master/100k_reads_hiseq/TESTX/TESTX_H7YRLADXX_S1_L001_R2_001.fastq.gz" -TMPDIR=$(mktemp -d "$meta_temp_dir/$meta_functionality_name-XXXXXX") +TMPDIR=$(mktemp -d "$meta_temp_dir/$meta_name-XXXXXX") function clean_up { [[ -d "$TMPDIR" ]] && rm -r "$TMPDIR" } diff --git a/src/featurecounts/script.sh b/src/featurecounts/script.sh index 53f8c63f..065aaae7 100644 --- a/src/featurecounts/script.sh +++ b/src/featurecounts/script.sh @@ -6,7 +6,7 @@ set -e ## VIASH END # create temporary directory -tmp_dir=$(mktemp -d -p "$meta_temp_dir" "${meta_functionality_name}_XXXXXX") +tmp_dir=$(mktemp -d -p "$meta_temp_dir" "${meta_name}_XXXXXX") mkdir -p "$tmp_dir/temp" # create detailed_results directory if variable is set and directory does not exist diff --git a/src/kallisto/kallisto_index/test.sh b/src/kallisto/kallisto_index/test.sh index 2646dcd8..93390016 100644 --- a/src/kallisto/kallisto_index/test.sh +++ b/src/kallisto/kallisto_index/test.sh @@ -1,6 +1,6 @@ #!/bin/bash -echo ">>>Test 1: Testing $meta_functionality_name with non-default k-mer size" +echo ">>>Test 1: Testing $meta_name with non-default k-mer size" "$meta_executable" \ --input "$meta_resources_dir/test_data/transcriptome.fasta" \ @@ -17,7 +17,7 @@ grep "number of k-mers: 989" test.txt || { echo "The content of the index seems ################################################################################ -echo ">>>Test 2: Testing $meta_functionality_name with d_list argument" +echo ">>>Test 2: Testing $meta_name with d_list argument" "$meta_executable" \ --input "$meta_resources_dir/test_data/transcriptome.fasta" \ diff --git a/src/kallisto/kallisto_quant/test.sh b/src/kallisto/kallisto_quant/test.sh index 28e2e3ad..15b9be91 100644 --- a/src/kallisto/kallisto_quant/test.sh +++ b/src/kallisto/kallisto_quant/test.sh @@ -1,6 +1,6 @@ #!/bin/bash -echo ">>> Testing $meta_functionality_name" +echo ">>> Testing $meta_name" echo ">>> Test 1: Testing for paired-end reads" "$meta_executable" \ diff --git a/src/rsem/rsem_prepare_reference/test.sh b/src/rsem/rsem_prepare_reference/test.sh index b38dd0a9..a1090b21 100644 --- a/src/rsem/rsem_prepare_reference/test.sh +++ b/src/rsem/rsem_prepare_reference/test.sh @@ -3,7 +3,7 @@ set -e pipefail -echo ">>> Testing $meta_functionality_name" +echo ">>> Testing $meta_name" cat > genome.fasta <<'EOF' >Sheila diff --git a/src/rseqc/rseqc_bamstat/test.sh b/src/rseqc/rseqc_bamstat/test.sh index f9180da8..cd07cea4 100644 --- a/src/rseqc/rseqc_bamstat/test.sh +++ b/src/rseqc/rseqc_bamstat/test.sh @@ -6,7 +6,7 @@ input_bam="sample.bam" output_summary="mapping_quality.txt" # run executable and tests -echo "> Running $meta_functionality_name." +echo "> Running $meta_name." "$meta_executable" \ --input_file "$meta_resources_dir/test_data/$input_bam" \ @@ -29,7 +29,7 @@ echo ">>> Test 2: Test with non-default mapping quality threshold" output_summary="mapping_quality_mapq_50.txt" # run executable and tests -echo "> Running $meta_functionality_name." +echo "> Running $meta_name." "$meta_executable" \ --input_file "$meta_resources_dir/test_data/$input_bam" \ diff --git a/src/rseqc/rseqc_inner_distance/test.sh b/src/rseqc/rseqc_inner_distance/test.sh index 927a69a9..d430d3b9 100644 --- a/src/rseqc/rseqc_inner_distance/test.sh +++ b/src/rseqc/rseqc_inner_distance/test.sh @@ -12,7 +12,7 @@ output_plot_r="inner_distance_plot.r" output_freq="inner_distance_freq.txt" # Run executable -echo "> Running $meta_functionality_name" +echo "> Running $meta_name" "$meta_executable" \ --input_file $input_bam \ @@ -48,7 +48,7 @@ diff "$output_dist" "$meta_resources_dir/test_data/test1.inner_distance.txt" || rm "$output_stats" "$output_dist" "$output_plot" "$output_plot_r" "$output_freq" ################################################################################ -echo "> Running $meta_functionality_name with non-default parameters and default output file names" +echo "> Running $meta_name with non-default parameters and default output file names" "$meta_executable" \ --input_file $input_bam \ --refgene $input_bed \ diff --git a/src/salmon/salmon_index/script.sh b/src/salmon/salmon_index/script.sh index 5b1c4d76..bbf8578a 100644 --- a/src/salmon/salmon_index/script.sh +++ b/src/salmon/salmon_index/script.sh @@ -19,7 +19,7 @@ for par in ${unset_if_false[@]}; do [[ "$test_val" == "false" ]] && unset $par done -tmp_dir=$(mktemp -d -p "$meta_temp_dir" "${meta_functionality_name}_XXXXXX") +tmp_dir=$(mktemp -d -p "$meta_temp_dir" "${meta_name}_XXXXXX") mkdir -p "$tmp_dir/temp" if [[ -f "$par_genome" ]] && [[ ! "$par_decoys" ]]; then diff --git a/src/samtools/samtools_collate/test.sh b/src/samtools/samtools_collate/test.sh index c5a2e6e6..18d34a96 100644 --- a/src/samtools/samtools_collate/test.sh +++ b/src/samtools/samtools_collate/test.sh @@ -5,7 +5,7 @@ out_dir="${meta_resources_dir}/out" ############################################################################################ -echo ">>> Test 1: $meta_functionality_name" +echo ">>> Test 1: $meta_name" "$meta_executable" \ --input "$test_dir/test.paired_end.sorted.bam" \ --output "$out_dir/collated.bam" @@ -23,7 +23,7 @@ diff <(samtools view "$out_dir/collated.bam") \ ############################################################################################ -echo ">>> Test 2: $meta_functionality_name with --fast option" +echo ">>> Test 2: $meta_name with --fast option" "$meta_executable" \ --fast \ --input "$test_dir/test.paired_end.sorted.bam" \ @@ -43,7 +43,7 @@ diff <(samtools view "$test_dir/fast_collated.bam") \ ############################################################################################ -echo ">>> Test 3: $meta_functionality_name with compression" +echo ">>> Test 3: $meta_name with compression" "$meta_executable" \ --compression 8 \ --input "$test_dir/test.paired_end.sorted.bam" \ diff --git a/src/samtools/samtools_faidx/test.sh b/src/samtools/samtools_faidx/test.sh index 10627c16..33202a1a 100644 --- a/src/samtools/samtools_faidx/test.sh +++ b/src/samtools/samtools_faidx/test.sh @@ -1,7 +1,7 @@ #!/bin/bash test_dir="${meta_resources_dir}/test_data" -echo ">>> Testing $meta_functionality_name" +echo ">>> Testing $meta_name" "$meta_executable" \ --input "$test_dir/test.fasta" \ @@ -24,7 +24,7 @@ rm "$test_dir/test.fasta.fai" #################################################################################################### -echo ">>> Test 2: ${meta_functionality_name} with bgzipped input" +echo ">>> Test 2: ${meta_name} with bgzipped input" "$meta_executable" \ --input "$test_dir/test.fasta.gz" \ @@ -49,7 +49,7 @@ rm "$test_dir/test.fasta.gz.gzi" #################################################################################################### -echo ">>> Test 3: ${meta_functionality_name} with fastq input" +echo ">>> Test 3: ${meta_name} with fastq input" "$meta_executable" \ --input "$test_dir/test.fastq" \ @@ -69,7 +69,7 @@ rm "$test_dir/test.fastq.fai" #################################################################################################### -echo ">>> Test 4: ${meta_functionality_name} with region file containing non-existent regions and +echo ">>> Test 4: ${meta_name} with region file containing non-existent regions and specific fasta line wrap length" "$meta_executable" \ diff --git a/src/samtools/samtools_flagstat/test.sh b/src/samtools/samtools_flagstat/test.sh index 647c64af..29672e42 100644 --- a/src/samtools/samtools_flagstat/test.sh +++ b/src/samtools/samtools_flagstat/test.sh @@ -1,7 +1,7 @@ #!/bin/bash test_dir="${meta_resources_dir}/test_data" -echo ">>> Testing $meta_functionality_name" +echo ">>> Testing $meta_name" "$meta_executable" \ --bam "$test_dir/a.bam" \ @@ -22,7 +22,7 @@ rm "$test_dir/a.flagstat" ############################################################################################ -echo ">>> Testing $meta_functionality_name with singletons in the input" +echo ">>> Testing $meta_name with singletons in the input" "$meta_executable" \ --bam "$test_dir/test.paired_end.sorted.bam" \ diff --git a/src/samtools/samtools_idxstats/test.sh b/src/samtools/samtools_idxstats/test.sh index 1459ec08..89e69949 100644 --- a/src/samtools/samtools_idxstats/test.sh +++ b/src/samtools/samtools_idxstats/test.sh @@ -1,7 +1,7 @@ #!/bin/bash test_dir="${meta_resources_dir}/test_data" -echo ">>> Testing $meta_functionality_name" +echo ">>> Testing $meta_name" "$meta_executable" \ --bam "$test_dir/a.sorted.bam" \ @@ -22,7 +22,7 @@ rm "$test_dir/a.sorted.idxstats" ############################################################################################ -echo ">>> Testing $meta_functionality_name with singletons in the input" +echo ">>> Testing $meta_name with singletons in the input" "$meta_executable" \ --bam "$test_dir/test.paired_end.sorted.bam" \ diff --git a/src/samtools/samtools_index/test.sh b/src/samtools/samtools_index/test.sh index f4b1d3b6..44b9db59 100644 --- a/src/samtools/samtools_index/test.sh +++ b/src/samtools/samtools_index/test.sh @@ -2,7 +2,7 @@ test_dir="${meta_resources_dir}/test_data" -echo ">>> Testing $meta_functionality_name" +echo ">>> Testing $meta_name" echo ">>> Generating BAM index" "$meta_executable" \ diff --git a/src/samtools/samtools_stats/test.sh b/src/samtools/samtools_stats/test.sh index b515100e..2cc77ad6 100644 --- a/src/samtools/samtools_stats/test.sh +++ b/src/samtools/samtools_stats/test.sh @@ -4,7 +4,7 @@ test_dir="${meta_resources_dir}/test_data" ############################################################################################ -echo ">>> Test 1: $meta_functionality_name" +echo ">>> Test 1: $meta_name" "$meta_executable" \ --input "$test_dir/test.paired_end.sorted.bam" \ --bai "$test_dir/test.paired_end.sorted.bam.bai" \ @@ -26,7 +26,7 @@ rm "$test_dir/test.paired_end.sorted.txt" ############################################################################################ -echo ">>> Test 2: $meta_functionality_name with --remove_dups" +echo ">>> Test 2: $meta_name with --remove_dups" "$meta_executable" \ --remove_dups \ --input "$test_dir/test.paired_end.sorted.bam" \ @@ -49,7 +49,7 @@ rm "$test_dir/test.d.paired_end.sorted.txt" ############################################################################################ -echo ">>> Test 3: $meta_functionality_name with --remove_overlaps" +echo ">>> Test 3: $meta_name with --remove_overlaps" "$meta_executable" \ --remove_overlaps \ --input "$test_dir/test.paired_end.sorted.bam" \ diff --git a/src/samtools/samtools_view/test.sh b/src/samtools/samtools_view/test.sh index 1de29a7c..feeb7dec 100644 --- a/src/samtools/samtools_view/test.sh +++ b/src/samtools/samtools_view/test.sh @@ -24,7 +24,7 @@ diff <(samtools view "$temp_dir/a.bam") <(samtools view "$test_dir/a.bam") || \ ############################################################################################ -echo ">>> Test 2: ${meta_functionality_name} with CRAM format output" +echo ">>> Test 2: ${meta_name} with CRAM format output" "$meta_executable" \ --cram \ @@ -44,7 +44,7 @@ diff <(samtools view "$temp_dir/a.cram") <(samtools view "$test_dir/a.cram") || ############################################################################################ -echo ">>> Test 3: ${meta_functionality_name} with --count option" +echo ">>> Test 3: ${meta_name} with --count option" "$meta_executable" \ --count \ @@ -63,7 +63,7 @@ diff "$temp_dir/a.count" "$test_dir/a.count" || \ ############################################################################################ -echo ">>> Test 4: ${meta_functionality_name} including only the forward reads from read pairs" +echo ">>> Test 4: ${meta_name} including only the forward reads from read pairs" "$meta_executable" \ --output "$temp_dir/a.forward" \ diff --git a/src/sortmerna/test.sh b/src/sortmerna/test.sh index 4c5b3e4e..74480be5 100644 --- a/src/sortmerna/test.sh +++ b/src/sortmerna/test.sh @@ -1,6 +1,6 @@ #!/bin/bash -echo ">>> Testing $meta_functionality_name" +echo ">>> Testing $meta_name" find $meta_resources_dir/test_data/rRNA -type f > test_data/rrna-db.txt diff --git a/src/umi_tools/umi_tools_dedup/test.sh b/src/umi_tools/umi_tools_dedup/test.sh index adadb410..68733a80 100644 --- a/src/umi_tools/umi_tools_dedup/test.sh +++ b/src/umi_tools/umi_tools_dedup/test.sh @@ -7,7 +7,7 @@ mkdir -p "$out_dir" ############################################################################################ -echo ">>> Test 1: Basic usage of $meta_functionality_name with statistics output" +echo ">>> Test 1: Basic usage of $meta_name with statistics output" "$meta_executable" \ --paired \ @@ -34,7 +34,7 @@ diff "$out_dir/dedup_edit_distance.tsv" "$test_dir/dedup_edit_distance.tsv" || \ ############################################################################################ -echo ">>> Test 2: $meta_functionality_name with random subset selection" +echo ">>> Test 2: $meta_name with random subset selection" "$meta_executable" \ --paired \ @@ -58,7 +58,7 @@ diff "$out_dir/deduped_fraction.sam" "$test_dir/deduped_fraction.sam" || \ ############################################################################################ -echo ">>> Test 3: $meta_functionality_name with --method unique" +echo ">>> Test 3: $meta_name with --method unique" "$meta_executable" \ --paired \ diff --git a/src/umi_tools/umi_tools_extract/test.sh b/src/umi_tools/umi_tools_extract/test.sh index 0de5d5b3..10a5b5d5 100644 --- a/src/umi_tools/umi_tools_extract/test.sh +++ b/src/umi_tools/umi_tools_extract/test.sh @@ -2,7 +2,7 @@ test_dir="${meta_resources_dir}/test_data" -echo ">>> Testing $meta_functionality_name" +echo ">>> Testing $meta_name" ############################################################################################################ diff --git a/target/executable/agat/agat_convert_bed2gff/.config.vsh.yaml b/target/executable/agat/agat_convert_bed2gff/.config.vsh.yaml index 0e5072fd..4007a6d6 100644 --- a/target/executable/agat/agat_convert_bed2gff/.config.vsh.yaml +++ b/target/executable/agat/agat_convert_bed2gff/.config.vsh.yaml @@ -238,9 +238,9 @@ build_info: output: "target/executable/agat/agat_convert_bed2gff" executable: "target/executable/agat/agat_convert_bed2gff/agat_convert_bed2gff" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/agat/agat_convert_bed2gff/agat_convert_bed2gff b/target/executable/agat/agat_convert_bed2gff/agat_convert_bed2gff index a04c9e6a..aa0e9f00 100755 --- a/target/executable/agat/agat_convert_bed2gff/agat_convert_bed2gff +++ b/target/executable/agat/agat_convert_bed2gff/agat_convert_bed2gff @@ -452,9 +452,9 @@ RUN agat --version | sed 's/AGAT\s\(.*\)/agat: "\1"/' > /var/software_versions.t LABEL org.opencontainers.image.authors="Leïla Paquay" LABEL org.opencontainers.image.description="Companion container for running component agat agat_convert_bed2gff" -LABEL org.opencontainers.image.created="2025-03-06T09:19:38Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:22Z" LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/agat/agat_convert_embl2gff/.config.vsh.yaml b/target/executable/agat/agat_convert_embl2gff/.config.vsh.yaml index 2ecc8e80..d4a09725 100644 --- a/target/executable/agat/agat_convert_embl2gff/.config.vsh.yaml +++ b/target/executable/agat/agat_convert_embl2gff/.config.vsh.yaml @@ -228,9 +228,9 @@ build_info: output: "target/executable/agat/agat_convert_embl2gff" executable: "target/executable/agat/agat_convert_embl2gff/agat_convert_embl2gff" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/agat/agat_convert_embl2gff/agat_convert_embl2gff b/target/executable/agat/agat_convert_embl2gff/agat_convert_embl2gff index a4e89183..0b5025ee 100755 --- a/target/executable/agat/agat_convert_embl2gff/agat_convert_embl2gff +++ b/target/executable/agat/agat_convert_embl2gff/agat_convert_embl2gff @@ -452,9 +452,9 @@ RUN agat --version | sed 's/AGAT\s\(.*\)/agat: "\1"/' > /var/software_versions.t LABEL org.opencontainers.image.authors="Leïla Paquay" LABEL org.opencontainers.image.description="Companion container for running component agat agat_convert_embl2gff" -LABEL org.opencontainers.image.created="2025-03-06T09:19:37Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:23Z" LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/agat/agat_convert_genscan2gff/.config.vsh.yaml b/target/executable/agat/agat_convert_genscan2gff/.config.vsh.yaml index ebc23a02..e1f3014c 100644 --- a/target/executable/agat/agat_convert_genscan2gff/.config.vsh.yaml +++ b/target/executable/agat/agat_convert_genscan2gff/.config.vsh.yaml @@ -233,9 +233,9 @@ build_info: output: "target/executable/agat/agat_convert_genscan2gff" executable: "target/executable/agat/agat_convert_genscan2gff/agat_convert_genscan2gff" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/agat/agat_convert_genscan2gff/agat_convert_genscan2gff b/target/executable/agat/agat_convert_genscan2gff/agat_convert_genscan2gff index 1d16e2e2..2a047c7f 100755 --- a/target/executable/agat/agat_convert_genscan2gff/agat_convert_genscan2gff +++ b/target/executable/agat/agat_convert_genscan2gff/agat_convert_genscan2gff @@ -452,9 +452,9 @@ RUN agat --version | sed 's/AGAT\s\(.*\)/agat: "\1"/' > /var/software_versions.t LABEL org.opencontainers.image.authors="Leïla Paquay" LABEL org.opencontainers.image.description="Companion container for running component agat agat_convert_genscan2gff" -LABEL org.opencontainers.image.created="2025-03-06T09:19:37Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:22Z" LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/agat/agat_convert_mfannot2gff/.config.vsh.yaml b/target/executable/agat/agat_convert_mfannot2gff/.config.vsh.yaml index 75a84f3d..26cca4a0 100644 --- a/target/executable/agat/agat_convert_mfannot2gff/.config.vsh.yaml +++ b/target/executable/agat/agat_convert_mfannot2gff/.config.vsh.yaml @@ -189,9 +189,9 @@ build_info: output: "target/executable/agat/agat_convert_mfannot2gff" executable: "target/executable/agat/agat_convert_mfannot2gff/agat_convert_mfannot2gff" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/agat/agat_convert_mfannot2gff/agat_convert_mfannot2gff b/target/executable/agat/agat_convert_mfannot2gff/agat_convert_mfannot2gff index d451fd0c..cf92d3e2 100755 --- a/target/executable/agat/agat_convert_mfannot2gff/agat_convert_mfannot2gff +++ b/target/executable/agat/agat_convert_mfannot2gff/agat_convert_mfannot2gff @@ -452,9 +452,9 @@ RUN agat --version | sed 's/AGAT\s\(.*\)/agat: "\1"/' > /var/software_versions.t LABEL org.opencontainers.image.authors="Leïla Paquay" LABEL org.opencontainers.image.description="Companion container for running component agat agat_convert_mfannot2gff" -LABEL org.opencontainers.image.created="2025-03-06T09:19:39Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:23Z" LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/agat/agat_convert_sp_gff2gtf/.config.vsh.yaml b/target/executable/agat/agat_convert_sp_gff2gtf/.config.vsh.yaml index 46b7793a..234b0f36 100644 --- a/target/executable/agat/agat_convert_sp_gff2gtf/.config.vsh.yaml +++ b/target/executable/agat/agat_convert_sp_gff2gtf/.config.vsh.yaml @@ -231,9 +231,9 @@ build_info: output: "target/executable/agat/agat_convert_sp_gff2gtf" executable: "target/executable/agat/agat_convert_sp_gff2gtf/agat_convert_sp_gff2gtf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/agat/agat_convert_sp_gff2gtf/agat_convert_sp_gff2gtf b/target/executable/agat/agat_convert_sp_gff2gtf/agat_convert_sp_gff2gtf index 81c39676..b149c2b1 100755 --- a/target/executable/agat/agat_convert_sp_gff2gtf/agat_convert_sp_gff2gtf +++ b/target/executable/agat/agat_convert_sp_gff2gtf/agat_convert_sp_gff2gtf @@ -452,9 +452,9 @@ RUN agat --version | sed 's/AGAT\s\(.*\)/agat: "\1"/' > /var/software_versions.t LABEL org.opencontainers.image.authors="Leïla Paquay" LABEL org.opencontainers.image.description="Companion container for running component agat agat_convert_sp_gff2gtf" -LABEL org.opencontainers.image.created="2025-03-06T09:19:37Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:21Z" LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/agat/agat_convert_sp_gff2tsv/.config.vsh.yaml b/target/executable/agat/agat_convert_sp_gff2tsv/.config.vsh.yaml index 727d00b6..c221a85b 100644 --- a/target/executable/agat/agat_convert_sp_gff2tsv/.config.vsh.yaml +++ b/target/executable/agat/agat_convert_sp_gff2tsv/.config.vsh.yaml @@ -191,9 +191,9 @@ build_info: output: "target/executable/agat/agat_convert_sp_gff2tsv" executable: "target/executable/agat/agat_convert_sp_gff2tsv/agat_convert_sp_gff2tsv" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/agat/agat_convert_sp_gff2tsv/agat_convert_sp_gff2tsv b/target/executable/agat/agat_convert_sp_gff2tsv/agat_convert_sp_gff2tsv index bf09bfe4..c7198955 100755 --- a/target/executable/agat/agat_convert_sp_gff2tsv/agat_convert_sp_gff2tsv +++ b/target/executable/agat/agat_convert_sp_gff2tsv/agat_convert_sp_gff2tsv @@ -452,9 +452,9 @@ RUN agat --version | sed 's/AGAT\s\(.*\)/agat: "\1"/' > /var/software_versions.t LABEL org.opencontainers.image.authors="Leïla Paquay" LABEL org.opencontainers.image.description="Companion container for running component agat agat_convert_sp_gff2tsv" -LABEL org.opencontainers.image.created="2025-03-06T09:19:38Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:22Z" LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/agat/agat_convert_sp_gxf2gxf/.config.vsh.yaml b/target/executable/agat/agat_convert_sp_gxf2gxf/.config.vsh.yaml index 7af73d04..eb10f4cd 100644 --- a/target/executable/agat/agat_convert_sp_gxf2gxf/.config.vsh.yaml +++ b/target/executable/agat/agat_convert_sp_gxf2gxf/.config.vsh.yaml @@ -198,9 +198,9 @@ build_info: output: "target/executable/agat/agat_convert_sp_gxf2gxf" executable: "target/executable/agat/agat_convert_sp_gxf2gxf/agat_convert_sp_gxf2gxf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/agat/agat_convert_sp_gxf2gxf/agat_convert_sp_gxf2gxf b/target/executable/agat/agat_convert_sp_gxf2gxf/agat_convert_sp_gxf2gxf index 2a6e8d10..9f1f8bf2 100755 --- a/target/executable/agat/agat_convert_sp_gxf2gxf/agat_convert_sp_gxf2gxf +++ b/target/executable/agat/agat_convert_sp_gxf2gxf/agat_convert_sp_gxf2gxf @@ -452,9 +452,9 @@ RUN agat --version | sed 's/AGAT\s\(.*\)/agat: "\1"/' > /var/software_versions.t LABEL org.opencontainers.image.authors="Leïla Paquay" LABEL org.opencontainers.image.description="Companion container for running component agat agat_convert_sp_gxf2gxf" -LABEL org.opencontainers.image.created="2025-03-06T09:19:39Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:24Z" LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/agat/agat_sp_add_introns/.config.vsh.yaml b/target/executable/agat/agat_sp_add_introns/.config.vsh.yaml index a6fe77a7..f946317b 100644 --- a/target/executable/agat/agat_sp_add_introns/.config.vsh.yaml +++ b/target/executable/agat/agat_sp_add_introns/.config.vsh.yaml @@ -189,9 +189,9 @@ build_info: output: "target/executable/agat/agat_sp_add_introns" executable: "target/executable/agat/agat_sp_add_introns/agat_sp_add_introns" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/agat/agat_sp_add_introns/agat_sp_add_introns b/target/executable/agat/agat_sp_add_introns/agat_sp_add_introns index 4d6be9e8..0ef2268a 100755 --- a/target/executable/agat/agat_sp_add_introns/agat_sp_add_introns +++ b/target/executable/agat/agat_sp_add_introns/agat_sp_add_introns @@ -452,9 +452,9 @@ RUN agat --version | sed 's/AGAT\s\(.*\)/agat: "\1"/' > /var/software_versions.t LABEL org.opencontainers.image.authors="Leïla Paquay" LABEL org.opencontainers.image.description="Companion container for running component agat agat_sp_add_introns" -LABEL org.opencontainers.image.created="2025-03-06T09:19:38Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:21Z" LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/agat/agat_sp_filter_feature_from_kill_list/.config.vsh.yaml b/target/executable/agat/agat_sp_filter_feature_from_kill_list/.config.vsh.yaml index b9ba57ae..0c32cb66 100644 --- a/target/executable/agat/agat_sp_filter_feature_from_kill_list/.config.vsh.yaml +++ b/target/executable/agat/agat_sp_filter_feature_from_kill_list/.config.vsh.yaml @@ -239,9 +239,9 @@ build_info: output: "target/executable/agat/agat_sp_filter_feature_from_kill_list" executable: "target/executable/agat/agat_sp_filter_feature_from_kill_list/agat_sp_filter_feature_from_kill_list" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/agat/agat_sp_filter_feature_from_kill_list/agat_sp_filter_feature_from_kill_list b/target/executable/agat/agat_sp_filter_feature_from_kill_list/agat_sp_filter_feature_from_kill_list index efd68e17..e8b73a4c 100755 --- a/target/executable/agat/agat_sp_filter_feature_from_kill_list/agat_sp_filter_feature_from_kill_list +++ b/target/executable/agat/agat_sp_filter_feature_from_kill_list/agat_sp_filter_feature_from_kill_list @@ -452,9 +452,9 @@ RUN agat --version | sed 's/AGAT\s\(.*\)/agat: "\1"/' > /var/software_versions.t LABEL org.opencontainers.image.authors="Leïla Paquay" LABEL org.opencontainers.image.description="Companion container for running component agat agat_sp_filter_feature_from_kill_list" -LABEL org.opencontainers.image.created="2025-03-06T09:19:39Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:22Z" LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/agat/agat_sp_merge_annotations/.config.vsh.yaml b/target/executable/agat/agat_sp_merge_annotations/.config.vsh.yaml index ca364083..246e6fef 100644 --- a/target/executable/agat/agat_sp_merge_annotations/.config.vsh.yaml +++ b/target/executable/agat/agat_sp_merge_annotations/.config.vsh.yaml @@ -187,9 +187,9 @@ build_info: output: "target/executable/agat/agat_sp_merge_annotations" executable: "target/executable/agat/agat_sp_merge_annotations/agat_sp_merge_annotations" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/agat/agat_sp_merge_annotations/agat_sp_merge_annotations b/target/executable/agat/agat_sp_merge_annotations/agat_sp_merge_annotations index 6cff0377..a4181acf 100755 --- a/target/executable/agat/agat_sp_merge_annotations/agat_sp_merge_annotations +++ b/target/executable/agat/agat_sp_merge_annotations/agat_sp_merge_annotations @@ -452,9 +452,9 @@ RUN agat --version | sed 's/AGAT\s\(.*\)/agat: "\1"/' > /var/software_versions.t LABEL org.opencontainers.image.authors="Leïla Paquay" LABEL org.opencontainers.image.description="Companion container for running component agat agat_sp_merge_annotations" -LABEL org.opencontainers.image.created="2025-03-06T09:19:37Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:23Z" LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/agat/agat_sp_statistics/.config.vsh.yaml b/target/executable/agat/agat_sp_statistics/.config.vsh.yaml index eace4c83..bed7284f 100644 --- a/target/executable/agat/agat_sp_statistics/.config.vsh.yaml +++ b/target/executable/agat/agat_sp_statistics/.config.vsh.yaml @@ -234,9 +234,9 @@ build_info: output: "target/executable/agat/agat_sp_statistics" executable: "target/executable/agat/agat_sp_statistics/agat_sp_statistics" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/agat/agat_sp_statistics/agat_sp_statistics b/target/executable/agat/agat_sp_statistics/agat_sp_statistics index c9c3bea6..30fc9004 100755 --- a/target/executable/agat/agat_sp_statistics/agat_sp_statistics +++ b/target/executable/agat/agat_sp_statistics/agat_sp_statistics @@ -452,9 +452,9 @@ RUN agat --version | sed 's/.*v\.//; s/\s.*//' | sed 's/^/AGAT: /' > /var/softwa LABEL org.opencontainers.image.authors="Leïla Paquay" LABEL org.opencontainers.image.description="Companion container for running component agat agat_sp_statistics" -LABEL org.opencontainers.image.created="2025-03-06T09:19:38Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:23Z" LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/agat/agat_sq_stat_basic/.config.vsh.yaml b/target/executable/agat/agat_sq_stat_basic/.config.vsh.yaml index 23df60d5..08ede155 100644 --- a/target/executable/agat/agat_sq_stat_basic/.config.vsh.yaml +++ b/target/executable/agat/agat_sq_stat_basic/.config.vsh.yaml @@ -230,9 +230,9 @@ build_info: output: "target/executable/agat/agat_sq_stat_basic" executable: "target/executable/agat/agat_sq_stat_basic/agat_sq_stat_basic" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/agat/agat_sq_stat_basic/agat_sq_stat_basic b/target/executable/agat/agat_sq_stat_basic/agat_sq_stat_basic index 12b33fc9..83fcd21c 100755 --- a/target/executable/agat/agat_sq_stat_basic/agat_sq_stat_basic +++ b/target/executable/agat/agat_sq_stat_basic/agat_sq_stat_basic @@ -452,9 +452,9 @@ RUN agat --version | sed 's/AGAT\s\(.*\)/agat: "\1"/' > /var/software_versions.t LABEL org.opencontainers.image.authors="Leïla Paquay" LABEL org.opencontainers.image.description="Companion container for running component agat agat_sq_stat_basic" -LABEL org.opencontainers.image.created="2025-03-06T09:19:39Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:21Z" LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/arriba/.config.vsh.yaml b/target/executable/arriba/.config.vsh.yaml index 3d4e2c8e..5aedf8ef 100644 --- a/target/executable/arriba/.config.vsh.yaml +++ b/target/executable/arriba/.config.vsh.yaml @@ -709,9 +709,9 @@ build_info: output: "target/executable/arriba" executable: "target/executable/arriba/arriba" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/arriba/arriba b/target/executable/arriba/arriba index 533e7052..e1c39f13 100755 --- a/target/executable/arriba/arriba +++ b/target/executable/arriba/arriba @@ -452,9 +452,9 @@ RUN arriba -h | grep 'Version:' 2>&1 | sed 's/Version:\s\(.*\)/arriba: "\1"/' > LABEL org.opencontainers.image.authors="Robrecht Cannoodt" LABEL org.opencontainers.image.description="Companion container for running component arriba" -LABEL org.opencontainers.image.created="2025-03-06T09:19:44Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:25Z" LABEL org.opencontainers.image.source="https://github.com/suhrig/arriba" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bases2fastq/.config.vsh.yaml b/target/executable/bases2fastq/.config.vsh.yaml index 14c3d4bb..d9e33b79 100644 --- a/target/executable/bases2fastq/.config.vsh.yaml +++ b/target/executable/bases2fastq/.config.vsh.yaml @@ -397,9 +397,9 @@ build_info: output: "target/executable/bases2fastq" executable: "target/executable/bases2fastq/bases2fastq" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bases2fastq/bases2fastq b/target/executable/bases2fastq/bases2fastq index 59b5e102..2108ab57 100755 --- a/target/executable/bases2fastq/bases2fastq +++ b/target/executable/bases2fastq/bases2fastq @@ -456,9 +456,9 @@ RUN echo "bases2fastq: $(bases2fastq --version | cut -d' ' -f3)" > /var/software LABEL org.opencontainers.image.authors="Dries Schaumont" LABEL org.opencontainers.image.description="Companion container for running component bases2fastq" -LABEL org.opencontainers.image.created="2025-03-06T09:19:42Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:21Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/biobox" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bbmap/bbmap_bbsplit/.config.vsh.yaml b/target/executable/bbmap/bbmap_bbsplit/.config.vsh.yaml index d73c1076..a9fd7d02 100644 --- a/target/executable/bbmap/bbmap_bbsplit/.config.vsh.yaml +++ b/target/executable/bbmap/bbmap_bbsplit/.config.vsh.yaml @@ -371,9 +371,9 @@ build_info: output: "target/executable/bbmap/bbmap_bbsplit" executable: "target/executable/bbmap/bbmap_bbsplit/bbmap_bbsplit" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bbmap/bbmap_bbsplit/bbmap_bbsplit b/target/executable/bbmap/bbmap_bbsplit/bbmap_bbsplit index 34429cf2..4b90993d 100755 --- a/target/executable/bbmap/bbmap_bbsplit/bbmap_bbsplit +++ b/target/executable/bbmap/bbmap_bbsplit/bbmap_bbsplit @@ -454,9 +454,9 @@ cp -r bbmap/* /usr/local/bin RUN bbsplit.sh --version 2>&1 | awk '/BBMap version/{print "BBMAP:", $NF}' > /var/software_versions.txt LABEL org.opencontainers.image.description="Companion container for running component bbmap bbmap_bbsplit" -LABEL org.opencontainers.image.created="2025-03-06T09:19:45Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:18Z" LABEL org.opencontainers.image.source="https://github.com/BioInfoTools/BBMap/blob/master/sh/bbsplit.sh" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bcftools/bcftools_annotate/.config.vsh.yaml b/target/executable/bcftools/bcftools_annotate/.config.vsh.yaml index 95410503..44168493 100644 --- a/target/executable/bcftools/bcftools_annotate/.config.vsh.yaml +++ b/target/executable/bcftools/bcftools_annotate/.config.vsh.yaml @@ -472,9 +472,9 @@ build_info: output: "target/executable/bcftools/bcftools_annotate" executable: "target/executable/bcftools/bcftools_annotate/bcftools_annotate" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bcftools/bcftools_annotate/bcftools_annotate b/target/executable/bcftools/bcftools_annotate/bcftools_annotate index 22fff05b..e4f79d15 100755 --- a/target/executable/bcftools/bcftools_annotate/bcftools_annotate +++ b/target/executable/bcftools/bcftools_annotate/bcftools_annotate @@ -456,9 +456,9 @@ RUN echo "bcftools: \"$(bcftools --version | grep 'bcftools' | sed -n 's/^bcftoo LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component bcftools bcftools_annotate" -LABEL org.opencontainers.image.created="2025-03-06T09:19:35Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:17Z" LABEL org.opencontainers.image.source="https://github.com/samtools/bcftools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bcftools/bcftools_concat/.config.vsh.yaml b/target/executable/bcftools/bcftools_concat/.config.vsh.yaml index f2b99752..f76abd47 100644 --- a/target/executable/bcftools/bcftools_concat/.config.vsh.yaml +++ b/target/executable/bcftools/bcftools_concat/.config.vsh.yaml @@ -338,9 +338,9 @@ build_info: output: "target/executable/bcftools/bcftools_concat" executable: "target/executable/bcftools/bcftools_concat/bcftools_concat" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bcftools/bcftools_concat/bcftools_concat b/target/executable/bcftools/bcftools_concat/bcftools_concat index 6ffb3bd7..51960234 100755 --- a/target/executable/bcftools/bcftools_concat/bcftools_concat +++ b/target/executable/bcftools/bcftools_concat/bcftools_concat @@ -456,9 +456,9 @@ RUN echo "bcftools: \"$(bcftools --version | grep 'bcftools' | sed -n 's/^bcftoo LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component bcftools bcftools_concat" -LABEL org.opencontainers.image.created="2025-03-06T09:19:36Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:17Z" LABEL org.opencontainers.image.source="https://github.com/samtools/bcftools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bcftools/bcftools_norm/.config.vsh.yaml b/target/executable/bcftools/bcftools_norm/.config.vsh.yaml index a203a903..2754aac0 100644 --- a/target/executable/bcftools/bcftools_norm/.config.vsh.yaml +++ b/target/executable/bcftools/bcftools_norm/.config.vsh.yaml @@ -419,9 +419,9 @@ build_info: output: "target/executable/bcftools/bcftools_norm" executable: "target/executable/bcftools/bcftools_norm/bcftools_norm" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bcftools/bcftools_norm/bcftools_norm b/target/executable/bcftools/bcftools_norm/bcftools_norm index 72c0c76a..90903608 100755 --- a/target/executable/bcftools/bcftools_norm/bcftools_norm +++ b/target/executable/bcftools/bcftools_norm/bcftools_norm @@ -456,9 +456,9 @@ RUN echo "bcftools: \"$(bcftools --version | grep 'bcftools' | sed -n 's/^bcftoo LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component bcftools bcftools_norm" -LABEL org.opencontainers.image.created="2025-03-06T09:19:46Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:16Z" LABEL org.opencontainers.image.source="https://github.com/samtools/bcftools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bcftools/bcftools_sort/.config.vsh.yaml b/target/executable/bcftools/bcftools_sort/.config.vsh.yaml index 48d0ff9d..7591f9e6 100644 --- a/target/executable/bcftools/bcftools_sort/.config.vsh.yaml +++ b/target/executable/bcftools/bcftools_sort/.config.vsh.yaml @@ -188,9 +188,9 @@ build_info: output: "target/executable/bcftools/bcftools_sort" executable: "target/executable/bcftools/bcftools_sort/bcftools_sort" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bcftools/bcftools_sort/bcftools_sort b/target/executable/bcftools/bcftools_sort/bcftools_sort index 7d17c81e..181741cb 100755 --- a/target/executable/bcftools/bcftools_sort/bcftools_sort +++ b/target/executable/bcftools/bcftools_sort/bcftools_sort @@ -456,9 +456,9 @@ RUN echo "bcftools: \"$(bcftools --version | grep 'bcftools' | sed -n 's/^bcftoo LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component bcftools bcftools_sort" -LABEL org.opencontainers.image.created="2025-03-06T09:19:35Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:17Z" LABEL org.opencontainers.image.source="https://github.com/samtools/bcftools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bcftools/bcftools_stats/.config.vsh.yaml b/target/executable/bcftools/bcftools_stats/.config.vsh.yaml index 9625263c..403eb72e 100644 --- a/target/executable/bcftools/bcftools_stats/.config.vsh.yaml +++ b/target/executable/bcftools/bcftools_stats/.config.vsh.yaml @@ -461,9 +461,9 @@ build_info: output: "target/executable/bcftools/bcftools_stats" executable: "target/executable/bcftools/bcftools_stats/bcftools_stats" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bcftools/bcftools_stats/bcftools_stats b/target/executable/bcftools/bcftools_stats/bcftools_stats index 6097790f..03c4d1c7 100755 --- a/target/executable/bcftools/bcftools_stats/bcftools_stats +++ b/target/executable/bcftools/bcftools_stats/bcftools_stats @@ -456,9 +456,9 @@ RUN echo "bcftools: \"$(bcftools --version | grep 'bcftools' | sed -n 's/^bcftoo LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component bcftools bcftools_stats" -LABEL org.opencontainers.image.created="2025-03-06T09:19:35Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:16Z" LABEL org.opencontainers.image.source="https://github.com/samtools/bcftools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bcl_convert/.config.vsh.yaml b/target/executable/bcl_convert/.config.vsh.yaml index 66821963..a8928f61 100644 --- a/target/executable/bcl_convert/.config.vsh.yaml +++ b/target/executable/bcl_convert/.config.vsh.yaml @@ -431,9 +431,9 @@ build_info: output: "target/executable/bcl_convert" executable: "target/executable/bcl_convert/bcl_convert" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bcl_convert/bcl_convert b/target/executable/bcl_convert/bcl_convert index d73d6552..fc0019be 100755 --- a/target/executable/bcl_convert/bcl_convert +++ b/target/executable/bcl_convert/bcl_convert @@ -462,9 +462,9 @@ RUN echo "bcl-convert: \"$(bcl-convert -V 2>&1 >/dev/null | sed -n '/Version/ s/ LABEL org.opencontainers.image.authors="Toni Verbeiren, Dorien Roosen" LABEL org.opencontainers.image.description="Companion container for running component bcl_convert" -LABEL org.opencontainers.image.created="2025-03-06T09:19:44Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:18Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/biobox" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bd_rhapsody/bd_rhapsody_make_reference/.config.vsh.yaml b/target/executable/bd_rhapsody/bd_rhapsody_make_reference/.config.vsh.yaml index 225fbbf3..23eb8fdf 100644 --- a/target/executable/bd_rhapsody/bd_rhapsody_make_reference/.config.vsh.yaml +++ b/target/executable/bd_rhapsody/bd_rhapsody_make_reference/.config.vsh.yaml @@ -277,9 +277,9 @@ build_info: output: "target/executable/bd_rhapsody/bd_rhapsody_make_reference" executable: "target/executable/bd_rhapsody/bd_rhapsody_make_reference/bd_rhapsody_make_reference" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bd_rhapsody/bd_rhapsody_make_reference/bd_rhapsody_make_reference b/target/executable/bd_rhapsody/bd_rhapsody_make_reference/bd_rhapsody_make_reference index be802d32..7176b966 100755 --- a/target/executable/bd_rhapsody/bd_rhapsody_make_reference/bd_rhapsody_make_reference +++ b/target/executable/bd_rhapsody/bd_rhapsody_make_reference/bd_rhapsody_make_reference @@ -465,9 +465,9 @@ RUN VERSION=$(ls -v /var/bd_rhapsody_cwl | grep '^v' | sed 's#v##' | tail -1) RUN echo "bdgenomics/rhapsody: \"$VERSION\"" > /var/software_versions.txt LABEL org.opencontainers.image.authors="Robrecht Cannoodt, Weiwei Schultz" LABEL org.opencontainers.image.description="Companion container for running component bd_rhapsody bd_rhapsody_make_reference" -LABEL org.opencontainers.image.created="2025-03-06T09:19:41Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:19Z" LABEL org.opencontainers.image.source="https://bitbucket.org/CRSwDev/cwl/src/master/v2.2.1/Extra_Utilities/" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bd_rhapsody/bd_rhapsody_sequence_analysis/.config.vsh.yaml b/target/executable/bd_rhapsody/bd_rhapsody_sequence_analysis/.config.vsh.yaml index bb09ea18..f6e22673 100644 --- a/target/executable/bd_rhapsody/bd_rhapsody_sequence_analysis/.config.vsh.yaml +++ b/target/executable/bd_rhapsody/bd_rhapsody_sequence_analysis/.config.vsh.yaml @@ -1118,9 +1118,9 @@ build_info: output: "target/executable/bd_rhapsody/bd_rhapsody_sequence_analysis" executable: "target/executable/bd_rhapsody/bd_rhapsody_sequence_analysis/bd_rhapsody_sequence_analysis" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bd_rhapsody/bd_rhapsody_sequence_analysis/bd_rhapsody_sequence_analysis b/target/executable/bd_rhapsody/bd_rhapsody_sequence_analysis/bd_rhapsody_sequence_analysis index 7cda8bae..7996e399 100755 --- a/target/executable/bd_rhapsody/bd_rhapsody_sequence_analysis/bd_rhapsody_sequence_analysis +++ b/target/executable/bd_rhapsody/bd_rhapsody_sequence_analysis/bd_rhapsody_sequence_analysis @@ -465,9 +465,9 @@ RUN VERSION=$(ls -v /var/bd_rhapsody_cwl | grep '^v' | sed 's#v##' | tail -1) RUN echo "bdgenomics/rhapsody: \"$VERSION\"" > /var/software_versions.txt LABEL org.opencontainers.image.authors="Robrecht Cannoodt, Weiwei Schultz" LABEL org.opencontainers.image.description="Companion container for running component bd_rhapsody bd_rhapsody_sequence_analysis" -LABEL org.opencontainers.image.created="2025-03-06T09:19:41Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:19Z" LABEL org.opencontainers.image.source="https://bitbucket.org/CRSwDev/cwl/src/master/v2.2.1" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bedtools/bedtools_bamtobed/.config.vsh.yaml b/target/executable/bedtools/bedtools_bamtobed/.config.vsh.yaml index 88ef0fcc..5e250d11 100644 --- a/target/executable/bedtools/bedtools_bamtobed/.config.vsh.yaml +++ b/target/executable/bedtools/bedtools_bamtobed/.config.vsh.yaml @@ -238,9 +238,9 @@ build_info: output: "target/executable/bedtools/bedtools_bamtobed" executable: "target/executable/bedtools/bedtools_bamtobed/bedtools_bamtobed" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bedtools/bedtools_bamtobed/bedtools_bamtobed b/target/executable/bedtools/bedtools_bamtobed/bedtools_bamtobed index 9770fb9b..f84d25cb 100755 --- a/target/executable/bedtools/bedtools_bamtobed/bedtools_bamtobed +++ b/target/executable/bedtools/bedtools_bamtobed/bedtools_bamtobed @@ -456,9 +456,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_bamtobed" -LABEL org.opencontainers.image.created="2025-03-06T09:19:42Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:22Z" LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bedtools/bedtools_bamtofastq/.config.vsh.yaml b/target/executable/bedtools/bedtools_bamtofastq/.config.vsh.yaml index 15ae4813..1d69b68e 100644 --- a/target/executable/bedtools/bedtools_bamtofastq/.config.vsh.yaml +++ b/target/executable/bedtools/bedtools_bamtofastq/.config.vsh.yaml @@ -190,9 +190,9 @@ build_info: output: "target/executable/bedtools/bedtools_bamtofastq" executable: "target/executable/bedtools/bedtools_bamtofastq/bedtools_bamtofastq" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bedtools/bedtools_bamtofastq/bedtools_bamtofastq b/target/executable/bedtools/bedtools_bamtofastq/bedtools_bamtofastq index 5e970cd2..cdc8096c 100755 --- a/target/executable/bedtools/bedtools_bamtofastq/bedtools_bamtofastq +++ b/target/executable/bedtools/bedtools_bamtofastq/bedtools_bamtofastq @@ -456,9 +456,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_bamtofastq" -LABEL org.opencontainers.image.created="2025-03-06T09:19:42Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:24Z" LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bedtools/bedtools_bed12tobed6/.config.vsh.yaml b/target/executable/bedtools/bedtools_bed12tobed6/.config.vsh.yaml index ef96e839..33734882 100644 --- a/target/executable/bedtools/bedtools_bed12tobed6/.config.vsh.yaml +++ b/target/executable/bedtools/bedtools_bed12tobed6/.config.vsh.yaml @@ -179,9 +179,9 @@ build_info: output: "target/executable/bedtools/bedtools_bed12tobed6" executable: "target/executable/bedtools/bedtools_bed12tobed6/bedtools_bed12tobed6" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bedtools/bedtools_bed12tobed6/bedtools_bed12tobed6 b/target/executable/bedtools/bedtools_bed12tobed6/bedtools_bed12tobed6 index a4b878d0..48086234 100755 --- a/target/executable/bedtools/bedtools_bed12tobed6/bedtools_bed12tobed6 +++ b/target/executable/bedtools/bedtools_bed12tobed6/bedtools_bed12tobed6 @@ -456,9 +456,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_bed12tobed6" -LABEL org.opencontainers.image.created="2025-03-06T09:19:44Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:24Z" LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bedtools/bedtools_bedtobam/.config.vsh.yaml b/target/executable/bedtools/bedtools_bedtobam/.config.vsh.yaml index 5ef81590..7de6d5da 100644 --- a/target/executable/bedtools/bedtools_bedtobam/.config.vsh.yaml +++ b/target/executable/bedtools/bedtools_bedtobam/.config.vsh.yaml @@ -217,9 +217,9 @@ build_info: output: "target/executable/bedtools/bedtools_bedtobam" executable: "target/executable/bedtools/bedtools_bedtobam/bedtools_bedtobam" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bedtools/bedtools_bedtobam/bedtools_bedtobam b/target/executable/bedtools/bedtools_bedtobam/bedtools_bedtobam index c550c110..9955c9e0 100755 --- a/target/executable/bedtools/bedtools_bedtobam/bedtools_bedtobam +++ b/target/executable/bedtools/bedtools_bedtobam/bedtools_bedtobam @@ -456,9 +456,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_bedtobam" -LABEL org.opencontainers.image.created="2025-03-06T09:19:43Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:24Z" LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bedtools/bedtools_genomecov/.config.vsh.yaml b/target/executable/bedtools/bedtools_genomecov/.config.vsh.yaml index 10960ab1..38d03d01 100644 --- a/target/executable/bedtools/bedtools_genomecov/.config.vsh.yaml +++ b/target/executable/bedtools/bedtools_genomecov/.config.vsh.yaml @@ -340,9 +340,9 @@ build_info: output: "target/executable/bedtools/bedtools_genomecov" executable: "target/executable/bedtools/bedtools_genomecov/bedtools_genomecov" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bedtools/bedtools_genomecov/bedtools_genomecov b/target/executable/bedtools/bedtools_genomecov/bedtools_genomecov index 6c91a29b..c043ab6d 100755 --- a/target/executable/bedtools/bedtools_genomecov/bedtools_genomecov +++ b/target/executable/bedtools/bedtools_genomecov/bedtools_genomecov @@ -456,9 +456,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_genomecov" -LABEL org.opencontainers.image.created="2025-03-06T09:19:42Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:22Z" LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bedtools/bedtools_getfasta/.config.vsh.yaml b/target/executable/bedtools/bedtools_getfasta/.config.vsh.yaml index 9998ae82..cc614960 100644 --- a/target/executable/bedtools/bedtools_getfasta/.config.vsh.yaml +++ b/target/executable/bedtools/bedtools_getfasta/.config.vsh.yaml @@ -235,9 +235,9 @@ build_info: output: "target/executable/bedtools/bedtools_getfasta" executable: "target/executable/bedtools/bedtools_getfasta/bedtools_getfasta" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bedtools/bedtools_getfasta/bedtools_getfasta b/target/executable/bedtools/bedtools_getfasta/bedtools_getfasta index c4677746..d6b30911 100755 --- a/target/executable/bedtools/bedtools_getfasta/bedtools_getfasta +++ b/target/executable/bedtools/bedtools_getfasta/bedtools_getfasta @@ -456,9 +456,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var LABEL org.opencontainers.image.authors="Dries Schaumont" LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_getfasta" -LABEL org.opencontainers.image.created="2025-03-06T09:19:43Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:22Z" LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bedtools/bedtools_groupby/.config.vsh.yaml b/target/executable/bedtools/bedtools_groupby/.config.vsh.yaml index 24183173..a97732ac 100644 --- a/target/executable/bedtools/bedtools_groupby/.config.vsh.yaml +++ b/target/executable/bedtools/bedtools_groupby/.config.vsh.yaml @@ -276,9 +276,9 @@ build_info: output: "target/executable/bedtools/bedtools_groupby" executable: "target/executable/bedtools/bedtools_groupby/bedtools_groupby" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bedtools/bedtools_groupby/bedtools_groupby b/target/executable/bedtools/bedtools_groupby/bedtools_groupby index d367f977..e1fde84c 100755 --- a/target/executable/bedtools/bedtools_groupby/bedtools_groupby +++ b/target/executable/bedtools/bedtools_groupby/bedtools_groupby @@ -456,9 +456,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_groupby" -LABEL org.opencontainers.image.created="2025-03-06T09:19:44Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:23Z" LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bedtools/bedtools_intersect/.config.vsh.yaml b/target/executable/bedtools/bedtools_intersect/.config.vsh.yaml index 132c6869..2f323f17 100644 --- a/target/executable/bedtools/bedtools_intersect/.config.vsh.yaml +++ b/target/executable/bedtools/bedtools_intersect/.config.vsh.yaml @@ -413,9 +413,9 @@ build_info: output: "target/executable/bedtools/bedtools_intersect" executable: "target/executable/bedtools/bedtools_intersect/bedtools_intersect" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bedtools/bedtools_intersect/bedtools_intersect b/target/executable/bedtools/bedtools_intersect/bedtools_intersect index b116bd59..68f7c1d4 100755 --- a/target/executable/bedtools/bedtools_intersect/bedtools_intersect +++ b/target/executable/bedtools/bedtools_intersect/bedtools_intersect @@ -456,9 +456,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_intersect" -LABEL org.opencontainers.image.created="2025-03-06T09:19:41Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:23Z" LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bedtools/bedtools_links/.config.vsh.yaml b/target/executable/bedtools/bedtools_links/.config.vsh.yaml index 7037157a..742c0cf8 100644 --- a/target/executable/bedtools/bedtools_links/.config.vsh.yaml +++ b/target/executable/bedtools/bedtools_links/.config.vsh.yaml @@ -213,9 +213,9 @@ build_info: output: "target/executable/bedtools/bedtools_links" executable: "target/executable/bedtools/bedtools_links/bedtools_links" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bedtools/bedtools_links/bedtools_links b/target/executable/bedtools/bedtools_links/bedtools_links index 613d51be..004e6190 100755 --- a/target/executable/bedtools/bedtools_links/bedtools_links +++ b/target/executable/bedtools/bedtools_links/bedtools_links @@ -456,9 +456,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_links" -LABEL org.opencontainers.image.created="2025-03-06T09:19:43Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:24Z" LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bedtools/bedtools_merge/.config.vsh.yaml b/target/executable/bedtools/bedtools_merge/.config.vsh.yaml index d574fd8a..8baf1870 100644 --- a/target/executable/bedtools/bedtools_merge/.config.vsh.yaml +++ b/target/executable/bedtools/bedtools_merge/.config.vsh.yaml @@ -282,9 +282,9 @@ build_info: output: "target/executable/bedtools/bedtools_merge" executable: "target/executable/bedtools/bedtools_merge/bedtools_merge" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bedtools/bedtools_merge/bedtools_merge b/target/executable/bedtools/bedtools_merge/bedtools_merge index 1aafa88a..10a0c4b5 100755 --- a/target/executable/bedtools/bedtools_merge/bedtools_merge +++ b/target/executable/bedtools/bedtools_merge/bedtools_merge @@ -456,9 +456,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_merge" -LABEL org.opencontainers.image.created="2025-03-06T09:19:42Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:23Z" LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/bedtools/bedtools_sort/.config.vsh.yaml b/target/executable/bedtools/bedtools_sort/.config.vsh.yaml index a341b1dc..8d4ca88d 100644 --- a/target/executable/bedtools/bedtools_sort/.config.vsh.yaml +++ b/target/executable/bedtools/bedtools_sort/.config.vsh.yaml @@ -225,9 +225,9 @@ build_info: output: "target/executable/bedtools/bedtools_sort" executable: "target/executable/bedtools/bedtools_sort/bedtools_sort" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/bedtools/bedtools_sort/bedtools_sort b/target/executable/bedtools/bedtools_sort/bedtools_sort index 0d67a470..875da0d9 100755 --- a/target/executable/bedtools/bedtools_sort/bedtools_sort +++ b/target/executable/bedtools/bedtools_sort/bedtools_sort @@ -456,9 +456,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_sort" -LABEL org.opencontainers.image.created="2025-03-06T09:19:43Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:23Z" LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/busco/busco_download_datasets/.config.vsh.yaml b/target/executable/busco/busco_download_datasets/.config.vsh.yaml index 12b8f47c..fd72cd12 100644 --- a/target/executable/busco/busco_download_datasets/.config.vsh.yaml +++ b/target/executable/busco/busco_download_datasets/.config.vsh.yaml @@ -161,9 +161,9 @@ build_info: output: "target/executable/busco/busco_download_datasets" executable: "target/executable/busco/busco_download_datasets/busco_download_datasets" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/busco/busco_download_datasets/busco_download_datasets b/target/executable/busco/busco_download_datasets/busco_download_datasets index d8dc2fb7..d0ff1e77 100755 --- a/target/executable/busco/busco_download_datasets/busco_download_datasets +++ b/target/executable/busco/busco_download_datasets/busco_download_datasets @@ -452,9 +452,9 @@ RUN busco --version | sed 's/BUSCO\s\(.*\)/busco: "\1"/' > /var/software_version LABEL org.opencontainers.image.authors="Dorien Roosen" LABEL org.opencontainers.image.description="Companion container for running component busco busco_download_datasets" -LABEL org.opencontainers.image.created="2025-03-06T09:19:40Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:20Z" LABEL org.opencontainers.image.source="https://gitlab.com/ezlab/busco" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/busco/busco_list_datasets/.config.vsh.yaml b/target/executable/busco/busco_list_datasets/.config.vsh.yaml index 41b1f542..80471222 100644 --- a/target/executable/busco/busco_list_datasets/.config.vsh.yaml +++ b/target/executable/busco/busco_list_datasets/.config.vsh.yaml @@ -148,9 +148,9 @@ build_info: output: "target/executable/busco/busco_list_datasets" executable: "target/executable/busco/busco_list_datasets/busco_list_datasets" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/busco/busco_list_datasets/busco_list_datasets b/target/executable/busco/busco_list_datasets/busco_list_datasets index dd7f56de..e7efd61d 100755 --- a/target/executable/busco/busco_list_datasets/busco_list_datasets +++ b/target/executable/busco/busco_list_datasets/busco_list_datasets @@ -452,9 +452,9 @@ RUN busco --version | sed 's/BUSCO\s\(.*\)/busco: "\1"/' > /var/software_version LABEL org.opencontainers.image.authors="Dorien Roosen" LABEL org.opencontainers.image.description="Companion container for running component busco busco_list_datasets" -LABEL org.opencontainers.image.created="2025-03-06T09:19:40Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:19Z" LABEL org.opencontainers.image.source="https://gitlab.com/ezlab/busco" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/busco/busco_run/.config.vsh.yaml b/target/executable/busco/busco_run/.config.vsh.yaml index facb6b7c..5cfde4de 100644 --- a/target/executable/busco/busco_run/.config.vsh.yaml +++ b/target/executable/busco/busco_run/.config.vsh.yaml @@ -426,9 +426,9 @@ build_info: output: "target/executable/busco/busco_run" executable: "target/executable/busco/busco_run/busco_run" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/busco/busco_run/busco_run b/target/executable/busco/busco_run/busco_run index b0ce61c5..6c33fa93 100755 --- a/target/executable/busco/busco_run/busco_run +++ b/target/executable/busco/busco_run/busco_run @@ -452,9 +452,9 @@ RUN busco --version | sed 's/BUSCO\s\(.*\)/busco: "\1"/' > /var/software_version LABEL org.opencontainers.image.authors="Dorien Roosen" LABEL org.opencontainers.image.description="Companion container for running component busco busco_run" -LABEL org.opencontainers.image.created="2025-03-06T09:19:40Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:20Z" LABEL org.opencontainers.image.source="https://gitlab.com/ezlab/busco" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/cellranger/cellranger_mkref/.config.vsh.yaml b/target/executable/cellranger/cellranger_mkref/.config.vsh.yaml index 2c03bf3b..8b83ace4 100644 --- a/target/executable/cellranger/cellranger_mkref/.config.vsh.yaml +++ b/target/executable/cellranger/cellranger_mkref/.config.vsh.yaml @@ -198,9 +198,9 @@ build_info: output: "target/executable/cellranger/cellranger_mkref" executable: "target/executable/cellranger/cellranger_mkref/cellranger_mkref" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/cellranger/cellranger_mkref/cellranger_mkref b/target/executable/cellranger/cellranger_mkref/cellranger_mkref index 18e76d38..3ab5ccd1 100755 --- a/target/executable/cellranger/cellranger_mkref/cellranger_mkref +++ b/target/executable/cellranger/cellranger_mkref/cellranger_mkref @@ -454,9 +454,9 @@ RUN apt-get update && \ LABEL org.opencontainers.image.authors="Emma Rousseau" LABEL org.opencontainers.image.description="Companion container for running component cellranger cellranger_mkref" -LABEL org.opencontainers.image.created="2025-03-06T09:19:45Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:24Z" LABEL org.opencontainers.image.source="https://github.com/10XGenomics/cellranger/blob/main/lib/python/cellranger/reference_builder.py" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/cutadapt/.config.vsh.yaml b/target/executable/cutadapt/.config.vsh.yaml index af54c8e4..701636ac 100644 --- a/target/executable/cutadapt/.config.vsh.yaml +++ b/target/executable/cutadapt/.config.vsh.yaml @@ -743,9 +743,9 @@ build_info: output: "target/executable/cutadapt" executable: "target/executable/cutadapt/cutadapt" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/cutadapt/cutadapt b/target/executable/cutadapt/cutadapt index 934ad898..9ed31da7 100755 --- a/target/executable/cutadapt/cutadapt +++ b/target/executable/cutadapt/cutadapt @@ -455,9 +455,9 @@ RUN cutadapt --version | sed 's/\(.*\)/cutadapt: "\1"/' > /var/software_versions LABEL org.opencontainers.image.authors="Toni Verbeiren" LABEL org.opencontainers.image.description="Companion container for running component cutadapt" -LABEL org.opencontainers.image.created="2025-03-06T09:19:35Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:21Z" LABEL org.opencontainers.image.source="https://github.com/marcelm/cutadapt" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/falco/.config.vsh.yaml b/target/executable/falco/.config.vsh.yaml index 8ef28831..b2b4ee24 100644 --- a/target/executable/falco/.config.vsh.yaml +++ b/target/executable/falco/.config.vsh.yaml @@ -320,9 +320,9 @@ build_info: output: "target/executable/falco" executable: "target/executable/falco/falco" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/falco/falco b/target/executable/falco/falco index 24635cb2..46840b82 100755 --- a/target/executable/falco/falco +++ b/target/executable/falco/falco @@ -464,9 +464,9 @@ RUN echo "falco: \"$(falco -v | sed -n 's/^falco //p')\"" > /var/software_versio LABEL org.opencontainers.image.authors="Toni Verbeiren" LABEL org.opencontainers.image.description="Companion container for running component falco" -LABEL org.opencontainers.image.created="2025-03-06T09:19:42Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:26Z" LABEL org.opencontainers.image.source="https://github.com/smithlabcode/falco" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/fastp/.config.vsh.yaml b/target/executable/fastp/.config.vsh.yaml index 23ee81e8..524404ce 100644 --- a/target/executable/fastp/.config.vsh.yaml +++ b/target/executable/fastp/.config.vsh.yaml @@ -1086,9 +1086,9 @@ build_info: output: "target/executable/fastp" executable: "target/executable/fastp/fastp" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/fastp/fastp b/target/executable/fastp/fastp index cc8d95de..ab09a6e4 100755 --- a/target/executable/fastp/fastp +++ b/target/executable/fastp/fastp @@ -452,9 +452,9 @@ RUN fastp --version 2>&1 | sed 's# #: "#;s#$#"#' > /var/software_versions.txt LABEL org.opencontainers.image.authors="Robrecht Cannoodt" LABEL org.opencontainers.image.description="Companion container for running component fastp" -LABEL org.opencontainers.image.created="2025-03-06T09:19:40Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:18Z" LABEL org.opencontainers.image.source="https://github.com/OpenGene/fastp" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/fastqc/.config.vsh.yaml b/target/executable/fastqc/.config.vsh.yaml index 43ae634a..c5f5b44f 100644 --- a/target/executable/fastqc/.config.vsh.yaml +++ b/target/executable/fastqc/.config.vsh.yaml @@ -343,9 +343,9 @@ build_info: output: "target/executable/fastqc" executable: "target/executable/fastqc/fastqc" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/fastqc/fastqc b/target/executable/fastqc/fastqc index d8b185ba..8d7adf63 100755 --- a/target/executable/fastqc/fastqc +++ b/target/executable/fastqc/fastqc @@ -452,9 +452,9 @@ RUN echo "fastqc: $(fastqc --version | sed -n 's/^FastQC //p')" > /var/software_ LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component fastqc" -LABEL org.opencontainers.image.created="2025-03-06T09:19:44Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:27Z" LABEL org.opencontainers.image.source="https://github.com/s-andrews/FastQC" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/featurecounts/.config.vsh.yaml b/target/executable/featurecounts/.config.vsh.yaml index ebac86cd..e9009f37 100644 --- a/target/executable/featurecounts/.config.vsh.yaml +++ b/target/executable/featurecounts/.config.vsh.yaml @@ -648,9 +648,9 @@ build_info: output: "target/executable/featurecounts" executable: "target/executable/featurecounts/featurecounts" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/featurecounts/featurecounts b/target/executable/featurecounts/featurecounts index 0980c026..b77db0b6 100755 --- a/target/executable/featurecounts/featurecounts +++ b/target/executable/featurecounts/featurecounts @@ -452,9 +452,9 @@ RUN featureCounts -v 2>&1 | sed 's/featureCounts v\([0-9.]*\)/featureCounts: \1/ LABEL org.opencontainers.image.authors="Sai Nirmayi Yasa" LABEL org.opencontainers.image.description="Companion container for running component featurecounts" -LABEL org.opencontainers.image.created="2025-03-06T09:19:35Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:21Z" LABEL org.opencontainers.image.source="https://github.com/ShiLab-Bioinformatics/subread" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER @@ -2295,7 +2295,7 @@ $( if [ ! -z ${VIASH_META_MEMORY_PIB+x} ]; then echo "${VIASH_META_MEMORY_PIB}" ## VIASH END # create temporary directory -tmp_dir=\$(mktemp -d -p "\$meta_temp_dir" "\${meta_functionality_name}_XXXXXX") +tmp_dir=\$(mktemp -d -p "\$meta_temp_dir" "\${meta_name}_XXXXXX") mkdir -p "\$tmp_dir/temp" # create detailed_results directory if variable is set and directory does not exist diff --git a/target/executable/fq_subsample/.config.vsh.yaml b/target/executable/fq_subsample/.config.vsh.yaml index e432c498..6eaf8169 100644 --- a/target/executable/fq_subsample/.config.vsh.yaml +++ b/target/executable/fq_subsample/.config.vsh.yaml @@ -193,9 +193,9 @@ build_info: output: "target/executable/fq_subsample" executable: "target/executable/fq_subsample/fq_subsample" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/fq_subsample/fq_subsample b/target/executable/fq_subsample/fq_subsample index 9c3264ec..9d4414ec 100755 --- a/target/executable/fq_subsample/fq_subsample +++ b/target/executable/fq_subsample/fq_subsample @@ -453,9 +453,9 @@ mv target/release/fq /usr/local/bin/ && \ cd / && rm -rf /fq LABEL org.opencontainers.image.description="Companion container for running component fq_subsample" -LABEL org.opencontainers.image.created="2025-03-06T09:19:44Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:26Z" LABEL org.opencontainers.image.source="https://github.com/stjude-rust-labs/fq" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/gffread/.config.vsh.yaml b/target/executable/gffread/.config.vsh.yaml index 8329026d..d748fb61 100644 --- a/target/executable/gffread/.config.vsh.yaml +++ b/target/executable/gffread/.config.vsh.yaml @@ -688,9 +688,9 @@ build_info: output: "target/executable/gffread" executable: "target/executable/gffread/gffread" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/gffread/gffread b/target/executable/gffread/gffread index b23177a7..d4f0eec0 100755 --- a/target/executable/gffread/gffread +++ b/target/executable/gffread/gffread @@ -452,9 +452,9 @@ RUN echo "gffread: \"$(gffread --version 2>&1)\"" > /var/software_versions.txt LABEL org.opencontainers.image.authors="Emma Rousseau" LABEL org.opencontainers.image.description="Companion container for running component gffread" -LABEL org.opencontainers.image.created="2025-03-06T09:19:42Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:18Z" LABEL org.opencontainers.image.source="https://github.com/gpertea/gffread" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/kallisto/kallisto_index/.config.vsh.yaml b/target/executable/kallisto/kallisto_index/.config.vsh.yaml index 8f7e7725..628ecaca 100644 --- a/target/executable/kallisto/kallisto_index/.config.vsh.yaml +++ b/target/executable/kallisto/kallisto_index/.config.vsh.yaml @@ -221,9 +221,9 @@ build_info: output: "target/executable/kallisto/kallisto_index" executable: "target/executable/kallisto/kallisto_index/kallisto_index" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/kallisto/kallisto_index/kallisto_index b/target/executable/kallisto/kallisto_index/kallisto_index index 13e01f32..7828dbf6 100755 --- a/target/executable/kallisto/kallisto_index/kallisto_index +++ b/target/executable/kallisto/kallisto_index/kallisto_index @@ -452,9 +452,9 @@ tar -xzf kallisto_linux-v0.50.1.tar.gz && \ mv kallisto/kallisto /usr/local/bin/ LABEL org.opencontainers.image.description="Companion container for running component kallisto kallisto_index" -LABEL org.opencontainers.image.created="2025-03-06T09:19:45Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:25Z" LABEL org.opencontainers.image.source="https://github.com/pachterlab/kallisto" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/kallisto/kallisto_quant/.config.vsh.yaml b/target/executable/kallisto/kallisto_quant/.config.vsh.yaml index a7905ede..4fec901a 100644 --- a/target/executable/kallisto/kallisto_quant/.config.vsh.yaml +++ b/target/executable/kallisto/kallisto_quant/.config.vsh.yaml @@ -249,9 +249,9 @@ build_info: output: "target/executable/kallisto/kallisto_quant" executable: "target/executable/kallisto/kallisto_quant/kallisto_quant" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/kallisto/kallisto_quant/kallisto_quant b/target/executable/kallisto/kallisto_quant/kallisto_quant index 49416512..95ae1568 100755 --- a/target/executable/kallisto/kallisto_quant/kallisto_quant +++ b/target/executable/kallisto/kallisto_quant/kallisto_quant @@ -454,9 +454,9 @@ mv kallisto/kallisto /usr/local/bin/ RUN echo "kallisto: $(kallisto version | sed 's/kallisto, version //')" > /var/software_versions.txt LABEL org.opencontainers.image.description="Companion container for running component kallisto kallisto_quant" -LABEL org.opencontainers.image.created="2025-03-06T09:19:44Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:25Z" LABEL org.opencontainers.image.source="https://github.com/pachterlab/kallisto" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/lofreq/lofreq_call/.config.vsh.yaml b/target/executable/lofreq/lofreq_call/.config.vsh.yaml index 6b60791a..72583f2a 100644 --- a/target/executable/lofreq/lofreq_call/.config.vsh.yaml +++ b/target/executable/lofreq/lofreq_call/.config.vsh.yaml @@ -510,9 +510,9 @@ build_info: output: "target/executable/lofreq/lofreq_call" executable: "target/executable/lofreq/lofreq_call/lofreq_call" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/lofreq/lofreq_call/lofreq_call b/target/executable/lofreq/lofreq_call/lofreq_call index 5520d8aa..2b8ac95a 100755 --- a/target/executable/lofreq/lofreq_call/lofreq_call +++ b/target/executable/lofreq/lofreq_call/lofreq_call @@ -453,9 +453,9 @@ echo "lofreq: $version" > /var/software_versions.txt LABEL org.opencontainers.image.authors="Kai Waldrant" LABEL org.opencontainers.image.description="Companion container for running component lofreq lofreq_call" -LABEL org.opencontainers.image.created="2025-03-06T09:19:43Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:20Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/biobox" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/lofreq/lofreq_indelqual/.config.vsh.yaml b/target/executable/lofreq/lofreq_indelqual/.config.vsh.yaml index 216c0ea3..a6569b30 100644 --- a/target/executable/lofreq/lofreq_indelqual/.config.vsh.yaml +++ b/target/executable/lofreq/lofreq_indelqual/.config.vsh.yaml @@ -218,9 +218,9 @@ build_info: output: "target/executable/lofreq/lofreq_indelqual" executable: "target/executable/lofreq/lofreq_indelqual/lofreq_indelqual" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/lofreq/lofreq_indelqual/lofreq_indelqual b/target/executable/lofreq/lofreq_indelqual/lofreq_indelqual index b612b1d5..eb161372 100755 --- a/target/executable/lofreq/lofreq_indelqual/lofreq_indelqual +++ b/target/executable/lofreq/lofreq_indelqual/lofreq_indelqual @@ -453,9 +453,9 @@ echo "lofreq: $version" > /var/software_versions.txt LABEL org.opencontainers.image.authors="Kai Waldrant" LABEL org.opencontainers.image.description="Companion container for running component lofreq lofreq_indelqual" -LABEL org.opencontainers.image.created="2025-03-06T09:19:43Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:19Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/biobox" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/multiqc/.config.vsh.yaml b/target/executable/multiqc/.config.vsh.yaml index 8826f0ae..37323166 100644 --- a/target/executable/multiqc/.config.vsh.yaml +++ b/target/executable/multiqc/.config.vsh.yaml @@ -459,9 +459,9 @@ build_info: output: "target/executable/multiqc" executable: "target/executable/multiqc/multiqc" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/multiqc/multiqc b/target/executable/multiqc/multiqc index debdcfd8..7f234991 100755 --- a/target/executable/multiqc/multiqc +++ b/target/executable/multiqc/multiqc @@ -452,9 +452,9 @@ RUN multiqc --version | sed 's/multiqc, version\s\(.*\)/multiqc: "\1"/' > /var/s LABEL org.opencontainers.image.authors="Dorien Roosen" LABEL org.opencontainers.image.description="Companion container for running component multiqc" -LABEL org.opencontainers.image.created="2025-03-06T09:19:44Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:26Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/biobox" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/nanoplot/.config.vsh.yaml b/target/executable/nanoplot/.config.vsh.yaml index 79b4f912..8d4d2aae 100644 --- a/target/executable/nanoplot/.config.vsh.yaml +++ b/target/executable/nanoplot/.config.vsh.yaml @@ -495,9 +495,9 @@ build_info: output: "target/executable/nanoplot" executable: "target/executable/nanoplot/nanoplot" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/nanoplot/nanoplot b/target/executable/nanoplot/nanoplot index 69db380f..f94d6676 100755 --- a/target/executable/nanoplot/nanoplot +++ b/target/executable/nanoplot/nanoplot @@ -449,9 +449,9 @@ RUN version=$(NanoPlot --version) && \ echo "$version" > /var/software_versions.txt LABEL org.opencontainers.image.description="Companion container for running component nanoplot" -LABEL org.opencontainers.image.created="2025-03-06T09:19:37Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:24Z" LABEL org.opencontainers.image.source="https://github.com/wdecoster/NanoPlot" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/pear/.config.vsh.yaml b/target/executable/pear/.config.vsh.yaml index 8194853a..ca174843 100644 --- a/target/executable/pear/.config.vsh.yaml +++ b/target/executable/pear/.config.vsh.yaml @@ -401,9 +401,9 @@ build_info: output: "target/executable/pear" executable: "target/executable/pear/pear" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/pear/pear b/target/executable/pear/pear index 0efc9bed..2684fe5d 100755 --- a/target/executable/pear/pear +++ b/target/executable/pear/pear @@ -453,9 +453,9 @@ echo "pear: $version" > /var/software_versions.txt LABEL org.opencontainers.image.authors="Kai Waldrant" LABEL org.opencontainers.image.description="Companion container for running component pear" -LABEL org.opencontainers.image.created="2025-03-06T09:19:36Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:26Z" LABEL org.opencontainers.image.source="https://github.com/tseemann/PEAR" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/qualimap/qualimap_rnaseq/.config.vsh.yaml b/target/executable/qualimap/qualimap_rnaseq/.config.vsh.yaml index d97d6cae..40b4bc9d 100644 --- a/target/executable/qualimap/qualimap_rnaseq/.config.vsh.yaml +++ b/target/executable/qualimap/qualimap_rnaseq/.config.vsh.yaml @@ -267,9 +267,9 @@ build_info: output: "target/executable/qualimap/qualimap_rnaseq" executable: "target/executable/qualimap/qualimap_rnaseq/qualimap_rnaseq" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/qualimap/qualimap_rnaseq/qualimap_rnaseq b/target/executable/qualimap/qualimap_rnaseq/qualimap_rnaseq index ac1eca89..add3545e 100755 --- a/target/executable/qualimap/qualimap_rnaseq/qualimap_rnaseq +++ b/target/executable/qualimap/qualimap_rnaseq/qualimap_rnaseq @@ -452,9 +452,9 @@ RUN echo QualiMap: $(qualimap 2>&1 | grep QualiMap | sed 's/^.*QualiMap//') > /v LABEL org.opencontainers.image.authors="Dorien Roosen" LABEL org.opencontainers.image.description="Companion container for running component qualimap qualimap_rnaseq" -LABEL org.opencontainers.image.created="2025-03-06T09:19:45Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:20Z" LABEL org.opencontainers.image.source="https://bitbucket.org/kokonech/qualimap/commits/branch/master" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/rsem/rsem_calculate_expression/.config.vsh.yaml b/target/executable/rsem/rsem_calculate_expression/.config.vsh.yaml index c1edd507..b65eaf50 100644 --- a/target/executable/rsem/rsem_calculate_expression/.config.vsh.yaml +++ b/target/executable/rsem/rsem_calculate_expression/.config.vsh.yaml @@ -855,9 +855,9 @@ build_info: output: "target/executable/rsem/rsem_calculate_expression" executable: "target/executable/rsem/rsem_calculate_expression/rsem_calculate_expression" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/rsem/rsem_calculate_expression/rsem_calculate_expression b/target/executable/rsem/rsem_calculate_expression/rsem_calculate_expression index 4ad46d89..1a83a42e 100755 --- a/target/executable/rsem/rsem_calculate_expression/rsem_calculate_expression +++ b/target/executable/rsem/rsem_calculate_expression/rsem_calculate_expression @@ -470,9 +470,9 @@ echo "bowtie: `bowtie --version | grep -oP 'bowtie-align-s version \K\d+\.\d+\.\ echo "HISAT2: `hisat2 --version | grep -oP 'hisat2-align-s version \K\d+\.\d+\.\d+'`" >> /var/software_versions.txt LABEL org.opencontainers.image.description="Companion container for running component rsem rsem_calculate_expression" -LABEL org.opencontainers.image.created="2025-03-06T09:19:41Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:20Z" LABEL org.opencontainers.image.source="https://github.com/deweylab/RSEM" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/rsem/rsem_prepare_reference/.config.vsh.yaml b/target/executable/rsem/rsem_prepare_reference/.config.vsh.yaml index a96f3460..35c097de 100644 --- a/target/executable/rsem/rsem_prepare_reference/.config.vsh.yaml +++ b/target/executable/rsem/rsem_prepare_reference/.config.vsh.yaml @@ -419,9 +419,9 @@ build_info: output: "target/executable/rsem/rsem_prepare_reference" executable: "target/executable/rsem/rsem_prepare_reference/rsem_prepare_reference" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/rsem/rsem_prepare_reference/rsem_prepare_reference b/target/executable/rsem/rsem_prepare_reference/rsem_prepare_reference index 44a05792..6bd20f27 100755 --- a/target/executable/rsem/rsem_prepare_reference/rsem_prepare_reference +++ b/target/executable/rsem/rsem_prepare_reference/rsem_prepare_reference @@ -494,9 +494,9 @@ echo "HISAT2: `hisat2 --version | grep -oP 'hisat2-align-s version \K\d+\.\d+\.\ LABEL org.opencontainers.image.authors="Sai Nirmayi Yasa" LABEL org.opencontainers.image.description="Companion container for running component rsem rsem_prepare_reference" -LABEL org.opencontainers.image.created="2025-03-06T09:19:41Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:20Z" LABEL org.opencontainers.image.source="https://github.com/deweylab/RSEM" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/rseqc/rseqc_bamstat/.config.vsh.yaml b/target/executable/rseqc/rseqc_bamstat/.config.vsh.yaml index 6d73df43..9befbf70 100644 --- a/target/executable/rseqc/rseqc_bamstat/.config.vsh.yaml +++ b/target/executable/rseqc/rseqc_bamstat/.config.vsh.yaml @@ -178,9 +178,9 @@ build_info: output: "target/executable/rseqc/rseqc_bamstat" executable: "target/executable/rseqc/rseqc_bamstat/rseqc_bamstat" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/rseqc/rseqc_bamstat/rseqc_bamstat b/target/executable/rseqc/rseqc_bamstat/rseqc_bamstat index c44379e3..02991afe 100755 --- a/target/executable/rseqc/rseqc_bamstat/rseqc_bamstat +++ b/target/executable/rseqc/rseqc_bamstat/rseqc_bamstat @@ -455,9 +455,9 @@ RUN echo "RSeQC bam_stat.py: $(bam_stat.py --version | cut -d' ' -f2-)" > /var/s LABEL org.opencontainers.image.authors="Emma Rousseau" LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_bamstat" -LABEL org.opencontainers.image.created="2025-03-06T09:19:37Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:26Z" LABEL org.opencontainers.image.source="https://github.com/MonashBioinformaticsPlatform/RSeQC" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/rseqc/rseqc_inferexperiment/.config.vsh.yaml b/target/executable/rseqc/rseqc_inferexperiment/.config.vsh.yaml index b5d69d14..2aac972a 100644 --- a/target/executable/rseqc/rseqc_inferexperiment/.config.vsh.yaml +++ b/target/executable/rseqc/rseqc_inferexperiment/.config.vsh.yaml @@ -204,9 +204,9 @@ build_info: output: "target/executable/rseqc/rseqc_inferexperiment" executable: "target/executable/rseqc/rseqc_inferexperiment/rseqc_inferexperiment" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/rseqc/rseqc_inferexperiment/rseqc_inferexperiment b/target/executable/rseqc/rseqc_inferexperiment/rseqc_inferexperiment index 21255b62..369c525a 100755 --- a/target/executable/rseqc/rseqc_inferexperiment/rseqc_inferexperiment +++ b/target/executable/rseqc/rseqc_inferexperiment/rseqc_inferexperiment @@ -455,9 +455,9 @@ RUN echo "RSeQC - infer_experiment.py: $(infer_experiment.py --version | cut -d' LABEL org.opencontainers.image.authors="Emma Rousseau" LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_inferexperiment" -LABEL org.opencontainers.image.created="2025-03-06T09:19:36Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:25Z" LABEL org.opencontainers.image.source="https://github.com/MonashBioinformaticsPlatform/RSeQC" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/rseqc/rseqc_inner_distance/.config.vsh.yaml b/target/executable/rseqc/rseqc_inner_distance/.config.vsh.yaml index 7e003aad..a8be0ae3 100644 --- a/target/executable/rseqc/rseqc_inner_distance/.config.vsh.yaml +++ b/target/executable/rseqc/rseqc_inner_distance/.config.vsh.yaml @@ -297,9 +297,9 @@ build_info: output: "target/executable/rseqc/rseqc_inner_distance" executable: "target/executable/rseqc/rseqc_inner_distance/rseqc_inner_distance" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/rseqc/rseqc_inner_distance/rseqc_inner_distance b/target/executable/rseqc/rseqc_inner_distance/rseqc_inner_distance index 79cb0882..314820dc 100755 --- a/target/executable/rseqc/rseqc_inner_distance/rseqc_inner_distance +++ b/target/executable/rseqc/rseqc_inner_distance/rseqc_inner_distance @@ -459,9 +459,9 @@ RUN echo "RSeQC - inner_distance.py: $(inner_distance.py --version | cut -d' ' - LABEL org.opencontainers.image.authors="Emma Rousseau" LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_inner_distance" -LABEL org.opencontainers.image.created="2025-03-06T09:19:36Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:26Z" LABEL org.opencontainers.image.source="https://github.com/MonashBioinformaticsPlatform/RSeQC" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/salmon/salmon_index/.config.vsh.yaml b/target/executable/salmon/salmon_index/.config.vsh.yaml index 6c0cf5ea..b572329e 100644 --- a/target/executable/salmon/salmon_index/.config.vsh.yaml +++ b/target/executable/salmon/salmon_index/.config.vsh.yaml @@ -280,9 +280,9 @@ build_info: output: "target/executable/salmon/salmon_index" executable: "target/executable/salmon/salmon_index/salmon_index" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/salmon/salmon_index/salmon_index b/target/executable/salmon/salmon_index/salmon_index index 9eb84369..186a8571 100755 --- a/target/executable/salmon/salmon_index/salmon_index +++ b/target/executable/salmon/salmon_index/salmon_index @@ -452,9 +452,9 @@ RUN salmon index -v 2>&1 | sed 's/salmon \([0-9.]*\)/salmon: \1/' > /var/softwar LABEL org.opencontainers.image.authors="Sai Nirmayi Yasa" LABEL org.opencontainers.image.description="Companion container for running component salmon salmon_index" -LABEL org.opencontainers.image.created="2025-03-06T09:19:41Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:16Z" LABEL org.opencontainers.image.source="https://github.com/COMBINE-lab/salmon" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER @@ -1373,7 +1373,7 @@ for par in \${unset_if_false[@]}; do [[ "\$test_val" == "false" ]] && unset \$par done -tmp_dir=\$(mktemp -d -p "\$meta_temp_dir" "\${meta_functionality_name}_XXXXXX") +tmp_dir=\$(mktemp -d -p "\$meta_temp_dir" "\${meta_name}_XXXXXX") mkdir -p "\$tmp_dir/temp" if [[ -f "\$par_genome" ]] && [[ ! "\$par_decoys" ]]; then diff --git a/target/executable/salmon/salmon_quant/.config.vsh.yaml b/target/executable/salmon/salmon_quant/.config.vsh.yaml index 859a4d82..938e9919 100644 --- a/target/executable/salmon/salmon_quant/.config.vsh.yaml +++ b/target/executable/salmon/salmon_quant/.config.vsh.yaml @@ -1176,9 +1176,9 @@ build_info: output: "target/executable/salmon/salmon_quant" executable: "target/executable/salmon/salmon_quant/salmon_quant" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/salmon/salmon_quant/salmon_quant b/target/executable/salmon/salmon_quant/salmon_quant index b999158d..a80dbefb 100755 --- a/target/executable/salmon/salmon_quant/salmon_quant +++ b/target/executable/salmon/salmon_quant/salmon_quant @@ -452,9 +452,9 @@ RUN salmon index -v 2>&1 | sed 's/salmon \([0-9.]*\)/salmon: \1/' > /var/softwar LABEL org.opencontainers.image.authors="Sai Nirmayi Yasa" LABEL org.opencontainers.image.description="Companion container for running component salmon salmon_quant" -LABEL org.opencontainers.image.created="2025-03-06T09:19:41Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:16Z" LABEL org.opencontainers.image.source="https://github.com/COMBINE-lab/salmon" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/samtools/samtools_collate/.config.vsh.yaml b/target/executable/samtools/samtools_collate/.config.vsh.yaml index 86e95721..956261e7 100644 --- a/target/executable/samtools/samtools_collate/.config.vsh.yaml +++ b/target/executable/samtools/samtools_collate/.config.vsh.yaml @@ -267,9 +267,9 @@ build_info: output: "target/executable/samtools/samtools_collate" executable: "target/executable/samtools/samtools_collate/samtools_collate" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/samtools/samtools_collate/samtools_collate b/target/executable/samtools/samtools_collate/samtools_collate index 4ab294f1..2cd383f8 100755 --- a/target/executable/samtools/samtools_collate/samtools_collate +++ b/target/executable/samtools/samtools_collate/samtools_collate @@ -453,9 +453,9 @@ sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt LABEL org.opencontainers.image.authors="Emma Rousseau" LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_collate" -LABEL org.opencontainers.image.created="2025-03-06T09:19:39Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:15Z" LABEL org.opencontainers.image.source="https://github.com/samtools/samtools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/samtools/samtools_faidx/.config.vsh.yaml b/target/executable/samtools/samtools_faidx/.config.vsh.yaml index 8b83baae..4a995abb 100644 --- a/target/executable/samtools/samtools_faidx/.config.vsh.yaml +++ b/target/executable/samtools/samtools_faidx/.config.vsh.yaml @@ -246,9 +246,9 @@ build_info: output: "target/executable/samtools/samtools_faidx" executable: "target/executable/samtools/samtools_faidx/samtools_faidx" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/samtools/samtools_faidx/samtools_faidx b/target/executable/samtools/samtools_faidx/samtools_faidx index c5fdc0b1..53a9a601 100755 --- a/target/executable/samtools/samtools_faidx/samtools_faidx +++ b/target/executable/samtools/samtools_faidx/samtools_faidx @@ -453,9 +453,9 @@ sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt LABEL org.opencontainers.image.authors="Emma Rousseau" LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_faidx" -LABEL org.opencontainers.image.created="2025-03-06T09:19:37Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:18Z" LABEL org.opencontainers.image.source="https://github.com/samtools/samtools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/samtools/samtools_fasta/.config.vsh.yaml b/target/executable/samtools/samtools_fasta/.config.vsh.yaml index 337aa2e8..ba62b81e 100644 --- a/target/executable/samtools/samtools_fasta/.config.vsh.yaml +++ b/target/executable/samtools/samtools_fasta/.config.vsh.yaml @@ -436,9 +436,9 @@ build_info: output: "target/executable/samtools/samtools_fasta" executable: "target/executable/samtools/samtools_fasta/samtools_fasta" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/samtools/samtools_fasta/samtools_fasta b/target/executable/samtools/samtools_fasta/samtools_fasta index cc12c0fe..709bdefc 100755 --- a/target/executable/samtools/samtools_fasta/samtools_fasta +++ b/target/executable/samtools/samtools_fasta/samtools_fasta @@ -453,9 +453,9 @@ sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt LABEL org.opencontainers.image.authors="Emma Rousseau" LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_fasta" -LABEL org.opencontainers.image.created="2025-03-06T09:19:39Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:17Z" LABEL org.opencontainers.image.source="https://github.com/samtools/samtools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/samtools/samtools_fastq/.config.vsh.yaml b/target/executable/samtools/samtools_fastq/.config.vsh.yaml index a157fd0c..6e165d9c 100644 --- a/target/executable/samtools/samtools_fastq/.config.vsh.yaml +++ b/target/executable/samtools/samtools_fastq/.config.vsh.yaml @@ -436,9 +436,9 @@ build_info: output: "target/executable/samtools/samtools_fastq" executable: "target/executable/samtools/samtools_fastq/samtools_fastq" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/samtools/samtools_fastq/samtools_fastq b/target/executable/samtools/samtools_fastq/samtools_fastq index 35a89d58..8da794b9 100755 --- a/target/executable/samtools/samtools_fastq/samtools_fastq +++ b/target/executable/samtools/samtools_fastq/samtools_fastq @@ -453,9 +453,9 @@ sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt LABEL org.opencontainers.image.authors="Emma Rousseau" LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_fastq" -LABEL org.opencontainers.image.created="2025-03-06T09:19:37Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:16Z" LABEL org.opencontainers.image.source="https://github.com/samtools/samtools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/samtools/samtools_flagstat/.config.vsh.yaml b/target/executable/samtools/samtools_flagstat/.config.vsh.yaml index 7be99a25..0282f153 100644 --- a/target/executable/samtools/samtools_flagstat/.config.vsh.yaml +++ b/target/executable/samtools/samtools_flagstat/.config.vsh.yaml @@ -176,9 +176,9 @@ build_info: output: "target/executable/samtools/samtools_flagstat" executable: "target/executable/samtools/samtools_flagstat/samtools_flagstat" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/samtools/samtools_flagstat/samtools_flagstat b/target/executable/samtools/samtools_flagstat/samtools_flagstat index 67f28cab..aa17e94b 100755 --- a/target/executable/samtools/samtools_flagstat/samtools_flagstat +++ b/target/executable/samtools/samtools_flagstat/samtools_flagstat @@ -453,9 +453,9 @@ sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt LABEL org.opencontainers.image.authors="Emma Rousseau" LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_flagstat" -LABEL org.opencontainers.image.created="2025-03-06T09:19:39Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:16Z" LABEL org.opencontainers.image.source="https://github.com/samtools/samtools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/samtools/samtools_idxstats/.config.vsh.yaml b/target/executable/samtools/samtools_idxstats/.config.vsh.yaml index 2f8322db..9f663675 100644 --- a/target/executable/samtools/samtools_idxstats/.config.vsh.yaml +++ b/target/executable/samtools/samtools_idxstats/.config.vsh.yaml @@ -186,9 +186,9 @@ build_info: output: "target/executable/samtools/samtools_idxstats" executable: "target/executable/samtools/samtools_idxstats/samtools_idxstats" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/samtools/samtools_idxstats/samtools_idxstats b/target/executable/samtools/samtools_idxstats/samtools_idxstats index 76df52e4..ab94e17f 100755 --- a/target/executable/samtools/samtools_idxstats/samtools_idxstats +++ b/target/executable/samtools/samtools_idxstats/samtools_idxstats @@ -453,9 +453,9 @@ sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt LABEL org.opencontainers.image.authors="Emma Rousseau" LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_idxstats" -LABEL org.opencontainers.image.created="2025-03-06T09:19:39Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:16Z" LABEL org.opencontainers.image.source="https://github.com/samtools/samtools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/samtools/samtools_index/.config.vsh.yaml b/target/executable/samtools/samtools_index/.config.vsh.yaml index 40351902..9d693ff7 100644 --- a/target/executable/samtools/samtools_index/.config.vsh.yaml +++ b/target/executable/samtools/samtools_index/.config.vsh.yaml @@ -192,9 +192,9 @@ build_info: output: "target/executable/samtools/samtools_index" executable: "target/executable/samtools/samtools_index/samtools_index" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/samtools/samtools_index/samtools_index b/target/executable/samtools/samtools_index/samtools_index index 3d89c0d4..44f6abba 100755 --- a/target/executable/samtools/samtools_index/samtools_index +++ b/target/executable/samtools/samtools_index/samtools_index @@ -453,9 +453,9 @@ sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt LABEL org.opencontainers.image.authors="Emma Rousseau" LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_index" -LABEL org.opencontainers.image.created="2025-03-06T09:19:38Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:17Z" LABEL org.opencontainers.image.source="https://github.com/samtools/samtools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/samtools/samtools_sort/.config.vsh.yaml b/target/executable/samtools/samtools_sort/.config.vsh.yaml index 5487ae1e..cc887d6e 100644 --- a/target/executable/samtools/samtools_sort/.config.vsh.yaml +++ b/target/executable/samtools/samtools_sort/.config.vsh.yaml @@ -335,9 +335,9 @@ build_info: output: "target/executable/samtools/samtools_sort" executable: "target/executable/samtools/samtools_sort/samtools_sort" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/samtools/samtools_sort/samtools_sort b/target/executable/samtools/samtools_sort/samtools_sort index 24b4b039..84bfb42b 100755 --- a/target/executable/samtools/samtools_sort/samtools_sort +++ b/target/executable/samtools/samtools_sort/samtools_sort @@ -453,9 +453,9 @@ sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt LABEL org.opencontainers.image.authors="Emma Rousseau" LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_sort" -LABEL org.opencontainers.image.created="2025-03-06T09:19:38Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:18Z" LABEL org.opencontainers.image.source="https://github.com/samtools/samtools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/samtools/samtools_stats/.config.vsh.yaml b/target/executable/samtools/samtools_stats/.config.vsh.yaml index 208337de..6c2e00d0 100644 --- a/target/executable/samtools/samtools_stats/.config.vsh.yaml +++ b/target/executable/samtools/samtools_stats/.config.vsh.yaml @@ -404,9 +404,9 @@ build_info: output: "target/executable/samtools/samtools_stats" executable: "target/executable/samtools/samtools_stats/samtools_stats" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/samtools/samtools_stats/samtools_stats b/target/executable/samtools/samtools_stats/samtools_stats index 84ba3d2c..71675ecf 100755 --- a/target/executable/samtools/samtools_stats/samtools_stats +++ b/target/executable/samtools/samtools_stats/samtools_stats @@ -453,9 +453,9 @@ sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt LABEL org.opencontainers.image.authors="Emma Rousseau" LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_stats" -LABEL org.opencontainers.image.created="2025-03-06T09:19:38Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:17Z" LABEL org.opencontainers.image.source="https://github.com/samtools/samtools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/samtools/samtools_view/.config.vsh.yaml b/target/executable/samtools/samtools_view/.config.vsh.yaml index 8cb7b649..e192dc8d 100644 --- a/target/executable/samtools/samtools_view/.config.vsh.yaml +++ b/target/executable/samtools/samtools_view/.config.vsh.yaml @@ -668,9 +668,9 @@ build_info: output: "target/executable/samtools/samtools_view" executable: "target/executable/samtools/samtools_view/samtools_view" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/samtools/samtools_view/samtools_view b/target/executable/samtools/samtools_view/samtools_view index c13166de..9f3c9aae 100755 --- a/target/executable/samtools/samtools_view/samtools_view +++ b/target/executable/samtools/samtools_view/samtools_view @@ -453,9 +453,9 @@ sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt LABEL org.opencontainers.image.authors="Emma Rousseau" LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_view" -LABEL org.opencontainers.image.created="2025-03-06T09:19:38Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:17Z" LABEL org.opencontainers.image.source="https://github.com/samtools/samtools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/seqtk/seqtk_sample/.config.vsh.yaml b/target/executable/seqtk/seqtk_sample/.config.vsh.yaml index 334cdbd4..8f5a9681 100644 --- a/target/executable/seqtk/seqtk_sample/.config.vsh.yaml +++ b/target/executable/seqtk/seqtk_sample/.config.vsh.yaml @@ -176,9 +176,9 @@ build_info: output: "target/executable/seqtk/seqtk_sample" executable: "target/executable/seqtk/seqtk_sample/seqtk_sample" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/seqtk/seqtk_sample/seqtk_sample b/target/executable/seqtk/seqtk_sample/seqtk_sample index 84f4eeb3..c8da53b5 100755 --- a/target/executable/seqtk/seqtk_sample/seqtk_sample +++ b/target/executable/seqtk/seqtk_sample/seqtk_sample @@ -450,9 +450,9 @@ FROM quay.io/biocontainers/seqtk:1.4--he4a0461_2 ENTRYPOINT [] LABEL org.opencontainers.image.authors="Jakub Majercik" LABEL org.opencontainers.image.description="Companion container for running component seqtk seqtk_sample" -LABEL org.opencontainers.image.created="2025-03-06T09:19:45Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:25Z" LABEL org.opencontainers.image.source="https://github.com/lh3/seqtk/tree/v1.4" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/seqtk/seqtk_subseq/.config.vsh.yaml b/target/executable/seqtk/seqtk_subseq/.config.vsh.yaml index cbf68a9c..97ec8216 100644 --- a/target/executable/seqtk/seqtk_subseq/.config.vsh.yaml +++ b/target/executable/seqtk/seqtk_subseq/.config.vsh.yaml @@ -199,9 +199,9 @@ build_info: output: "target/executable/seqtk/seqtk_subseq" executable: "target/executable/seqtk/seqtk_subseq/seqtk_subseq" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/seqtk/seqtk_subseq/seqtk_subseq b/target/executable/seqtk/seqtk_subseq/seqtk_subseq index 61feebcb..5b0a92d7 100755 --- a/target/executable/seqtk/seqtk_subseq/seqtk_subseq +++ b/target/executable/seqtk/seqtk_subseq/seqtk_subseq @@ -452,9 +452,9 @@ RUN echo $(echo $(seqtk 2>&1) | sed -n 's/.*\(Version: [^ ]*\).*/\1/p') > /var/s LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo" LABEL org.opencontainers.image.description="Companion container for running component seqtk seqtk_subseq" -LABEL org.opencontainers.image.created="2025-03-06T09:19:45Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:25Z" LABEL org.opencontainers.image.source="https://github.com/lh3/seqtk/tree/v1.4" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/sgdemux/.config.vsh.yaml b/target/executable/sgdemux/.config.vsh.yaml index 8d567451..0b240246 100644 --- a/target/executable/sgdemux/.config.vsh.yaml +++ b/target/executable/sgdemux/.config.vsh.yaml @@ -432,9 +432,9 @@ build_info: output: "target/executable/sgdemux" executable: "target/executable/sgdemux/sgdemux" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/sgdemux/sgdemux b/target/executable/sgdemux/sgdemux index e959903b..a5b7bbe8 100755 --- a/target/executable/sgdemux/sgdemux +++ b/target/executable/sgdemux/sgdemux @@ -457,9 +457,9 @@ echo "sgdemux: $(sgdemux --version | cut -d' ' -f2)" > /var/software_versions.tx LABEL org.opencontainers.image.authors="Dries Schaumont" LABEL org.opencontainers.image.description="Companion container for running component sgdemux" -LABEL org.opencontainers.image.created="2025-03-06T09:19:45Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:15Z" LABEL org.opencontainers.image.source="https://github.com/Singular-Genomics/singular-demux" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/snpeff/.config.vsh.yaml b/target/executable/snpeff/.config.vsh.yaml index 6d014463..d60937f7 100644 --- a/target/executable/snpeff/.config.vsh.yaml +++ b/target/executable/snpeff/.config.vsh.yaml @@ -631,9 +631,9 @@ build_info: output: "target/executable/snpeff" executable: "target/executable/snpeff/snpeff" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/snpeff/snpeff b/target/executable/snpeff/snpeff index 4c58c84d..e326dd7d 100755 --- a/target/executable/snpeff/snpeff +++ b/target/executable/snpeff/snpeff @@ -450,9 +450,9 @@ version_trimmed=$(echo "$version" | awk '{print $1, $2}') && \ echo "$version_trimmed" > /var/software_versions.txt LABEL org.opencontainers.image.description="Companion container for running component snpeff" -LABEL org.opencontainers.image.created="2025-03-06T09:19:42Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:19Z" LABEL org.opencontainers.image.source="https://github.com/pcingola/SnpEff" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/sortmerna/.config.vsh.yaml b/target/executable/sortmerna/.config.vsh.yaml index eaeb0e9c..886d0773 100644 --- a/target/executable/sortmerna/.config.vsh.yaml +++ b/target/executable/sortmerna/.config.vsh.yaml @@ -597,9 +597,9 @@ build_info: output: "target/executable/sortmerna" executable: "target/executable/sortmerna/sortmerna" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/sortmerna/sortmerna b/target/executable/sortmerna/sortmerna index b4f0cc71..0f52d9f6 100755 --- a/target/executable/sortmerna/sortmerna +++ b/target/executable/sortmerna/sortmerna @@ -448,9 +448,9 @@ ENTRYPOINT [] RUN echo SortMeRNA: `sortmerna --version | sed -n 's/.*version \([0-9]\+\.[0-9]\+\.[0-9]\+\).*/\1/p'` LABEL org.opencontainers.image.description="Companion container for running component sortmerna" -LABEL org.opencontainers.image.created="2025-03-06T09:19:43Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:27Z" LABEL org.opencontainers.image.source="https://github.com/sortmerna/sortmerna" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/star/star_align_reads/.config.vsh.yaml b/target/executable/star/star_align_reads/.config.vsh.yaml index 17a13890..7d14c4f9 100644 --- a/target/executable/star/star_align_reads/.config.vsh.yaml +++ b/target/executable/star/star_align_reads/.config.vsh.yaml @@ -2666,9 +2666,9 @@ build_info: output: "target/executable/star/star_align_reads" executable: "target/executable/star/star_align_reads/star_align_reads" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/star/star_align_reads/star_align_reads b/target/executable/star/star_align_reads/star_align_reads index f9e3d04b..fd353bee 100755 --- a/target/executable/star/star_align_reads/star_align_reads +++ b/target/executable/star/star_align_reads/star_align_reads @@ -475,9 +475,9 @@ RUN STAR --version | sed 's#\(.*\)#star: "\1"#' > /var/software_versions.txt LABEL org.opencontainers.image.authors="Angela Oliveira Pisco, Robrecht Cannoodt" LABEL org.opencontainers.image.description="Companion container for running component star star_align_reads" -LABEL org.opencontainers.image.created="2025-03-06T09:19:35Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:26Z" LABEL org.opencontainers.image.source="https://github.com/alexdobin/STAR" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/star/star_genome_generate/.config.vsh.yaml b/target/executable/star/star_genome_generate/.config.vsh.yaml index 13a918a9..ce3f14f3 100644 --- a/target/executable/star/star_genome_generate/.config.vsh.yaml +++ b/target/executable/star/star_genome_generate/.config.vsh.yaml @@ -336,9 +336,9 @@ build_info: output: "target/executable/star/star_genome_generate" executable: "target/executable/star/star_genome_generate/star_genome_generate" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/star/star_genome_generate/star_genome_generate b/target/executable/star/star_genome_generate/star_genome_generate index fefdf299..2d6a0784 100755 --- a/target/executable/star/star_genome_generate/star_genome_generate +++ b/target/executable/star/star_genome_generate/star_genome_generate @@ -467,9 +467,9 @@ RUN STAR --version | sed 's#\(.*\)#star: "\1"#' > /var/software_versions.txt LABEL org.opencontainers.image.authors="Sai Nirmayi Yasa" LABEL org.opencontainers.image.description="Companion container for running component star star_genome_generate" -LABEL org.opencontainers.image.created="2025-03-06T09:19:36Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:25Z" LABEL org.opencontainers.image.source="https://github.com/alexdobin/STAR" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/trimgalore/.config.vsh.yaml b/target/executable/trimgalore/.config.vsh.yaml index d13aeff1..3764de7c 100644 --- a/target/executable/trimgalore/.config.vsh.yaml +++ b/target/executable/trimgalore/.config.vsh.yaml @@ -773,9 +773,9 @@ build_info: output: "target/executable/trimgalore" executable: "target/executable/trimgalore/trimgalore" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/trimgalore/trimgalore b/target/executable/trimgalore/trimgalore index 6f72b107..73cea6ec 100755 --- a/target/executable/trimgalore/trimgalore +++ b/target/executable/trimgalore/trimgalore @@ -452,9 +452,9 @@ RUN echo "TrimGalore: `trim_galore --version | sed -n 's/.*version\s\+\([0-9]\+\ LABEL org.opencontainers.image.authors="Sai Nirmayi Yasa" LABEL org.opencontainers.image.description="Companion container for running component trimgalore" -LABEL org.opencontainers.image.created="2025-03-06T09:19:36Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:26Z" LABEL org.opencontainers.image.source="https://github.com/FelixKrueger/TrimGalore" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/umi_tools/umi_tools_dedup/.config.vsh.yaml b/target/executable/umi_tools/umi_tools_dedup/.config.vsh.yaml index 2cf5622e..2c10a622 100644 --- a/target/executable/umi_tools/umi_tools_dedup/.config.vsh.yaml +++ b/target/executable/umi_tools/umi_tools_dedup/.config.vsh.yaml @@ -614,9 +614,9 @@ build_info: output: "target/executable/umi_tools/umi_tools_dedup" executable: "target/executable/umi_tools/umi_tools_dedup/umi_tools_dedup" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/umi_tools/umi_tools_dedup/umi_tools_dedup b/target/executable/umi_tools/umi_tools_dedup/umi_tools_dedup index e65dd352..7abcf0b4 100755 --- a/target/executable/umi_tools/umi_tools_dedup/umi_tools_dedup +++ b/target/executable/umi_tools/umi_tools_dedup/umi_tools_dedup @@ -452,9 +452,9 @@ RUN umi_tools -v | sed 's/ version//g' > /var/software_versions.txt LABEL org.opencontainers.image.authors="Emma Rousseau" LABEL org.opencontainers.image.description="Companion container for running component umi_tools umi_tools_dedup" -LABEL org.opencontainers.image.created="2025-03-06T09:19:40Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:18Z" LABEL org.opencontainers.image.source="https://github.com/CGATOxford/UMI-tools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/umi_tools/umi_tools_extract/.config.vsh.yaml b/target/executable/umi_tools/umi_tools_extract/.config.vsh.yaml index b173621c..2d775853 100644 --- a/target/executable/umi_tools/umi_tools_extract/.config.vsh.yaml +++ b/target/executable/umi_tools/umi_tools_extract/.config.vsh.yaml @@ -437,9 +437,9 @@ build_info: output: "target/executable/umi_tools/umi_tools_extract" executable: "target/executable/umi_tools/umi_tools_extract/umi_tools_extract" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/umi_tools/umi_tools_extract/umi_tools_extract b/target/executable/umi_tools/umi_tools_extract/umi_tools_extract index 84b648a6..f7c51a86 100755 --- a/target/executable/umi_tools/umi_tools_extract/umi_tools_extract +++ b/target/executable/umi_tools/umi_tools_extract/umi_tools_extract @@ -448,9 +448,9 @@ ENTRYPOINT [] RUN umi_tools -v | sed 's/ version//g' > /var/software_versions.txt LABEL org.opencontainers.image.description="Companion container for running component umi_tools umi_tools_extract" -LABEL org.opencontainers.image.created="2025-03-06T09:19:40Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:18Z" LABEL org.opencontainers.image.source="https://github.com/CGATOxford/UMI-tools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/umi_tools/umi_tools_prepareforrsem/.config.vsh.yaml b/target/executable/umi_tools/umi_tools_prepareforrsem/.config.vsh.yaml index 11726d20..95f1a23e 100644 --- a/target/executable/umi_tools/umi_tools_prepareforrsem/.config.vsh.yaml +++ b/target/executable/umi_tools/umi_tools_prepareforrsem/.config.vsh.yaml @@ -259,9 +259,9 @@ build_info: output: "target/executable/umi_tools/umi_tools_prepareforrsem" executable: "target/executable/umi_tools/umi_tools_prepareforrsem/umi_tools_prepareforrsem" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/executable/umi_tools/umi_tools_prepareforrsem/umi_tools_prepareforrsem b/target/executable/umi_tools/umi_tools_prepareforrsem/umi_tools_prepareforrsem index b89d7f03..6ef936b7 100755 --- a/target/executable/umi_tools/umi_tools_prepareforrsem/umi_tools_prepareforrsem +++ b/target/executable/umi_tools/umi_tools_prepareforrsem/umi_tools_prepareforrsem @@ -448,9 +448,9 @@ ENTRYPOINT [] RUN umi_tools -v | sed 's/ version//g' > /var/software_versions.txt LABEL org.opencontainers.image.description="Companion container for running component umi_tools umi_tools_prepareforrsem" -LABEL org.opencontainers.image.created="2025-03-06T09:19:40Z" +LABEL org.opencontainers.image.created="2025-04-22T08:55:19Z" LABEL org.opencontainers.image.source="https://github.com/CGATOxford/UMI-tools" -LABEL org.opencontainers.image.revision="5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" +LABEL org.opencontainers.image.revision="1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/nextflow/agat/agat_convert_bed2gff/.config.vsh.yaml b/target/nextflow/agat/agat_convert_bed2gff/.config.vsh.yaml index 2fe93e30..bc017af4 100644 --- a/target/nextflow/agat/agat_convert_bed2gff/.config.vsh.yaml +++ b/target/nextflow/agat/agat_convert_bed2gff/.config.vsh.yaml @@ -238,9 +238,9 @@ build_info: output: "target/nextflow/agat/agat_convert_bed2gff" executable: "target/nextflow/agat/agat_convert_bed2gff/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/agat/agat_convert_bed2gff/main.nf b/target/nextflow/agat/agat_convert_bed2gff/main.nf index cee1ff9c..b59c7a91 100644 --- a/target/nextflow/agat/agat_convert_bed2gff/main.nf +++ b/target/nextflow/agat/agat_convert_bed2gff/main.nf @@ -3327,9 +3327,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/agat/agat_convert_bed2gff", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/agat/agat_convert_embl2gff/.config.vsh.yaml b/target/nextflow/agat/agat_convert_embl2gff/.config.vsh.yaml index 64344c46..80014e29 100644 --- a/target/nextflow/agat/agat_convert_embl2gff/.config.vsh.yaml +++ b/target/nextflow/agat/agat_convert_embl2gff/.config.vsh.yaml @@ -228,9 +228,9 @@ build_info: output: "target/nextflow/agat/agat_convert_embl2gff" executable: "target/nextflow/agat/agat_convert_embl2gff/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/agat/agat_convert_embl2gff/main.nf b/target/nextflow/agat/agat_convert_embl2gff/main.nf index 63eaeaa9..8d61767d 100644 --- a/target/nextflow/agat/agat_convert_embl2gff/main.nf +++ b/target/nextflow/agat/agat_convert_embl2gff/main.nf @@ -3320,9 +3320,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/agat/agat_convert_embl2gff", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/agat/agat_convert_genscan2gff/.config.vsh.yaml b/target/nextflow/agat/agat_convert_genscan2gff/.config.vsh.yaml index f1e26f96..20159f97 100644 --- a/target/nextflow/agat/agat_convert_genscan2gff/.config.vsh.yaml +++ b/target/nextflow/agat/agat_convert_genscan2gff/.config.vsh.yaml @@ -233,9 +233,9 @@ build_info: output: "target/nextflow/agat/agat_convert_genscan2gff" executable: "target/nextflow/agat/agat_convert_genscan2gff/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/agat/agat_convert_genscan2gff/main.nf b/target/nextflow/agat/agat_convert_genscan2gff/main.nf index 80f0bc0f..ebe88be3 100644 --- a/target/nextflow/agat/agat_convert_genscan2gff/main.nf +++ b/target/nextflow/agat/agat_convert_genscan2gff/main.nf @@ -3322,9 +3322,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/agat/agat_convert_genscan2gff", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/agat/agat_convert_mfannot2gff/.config.vsh.yaml b/target/nextflow/agat/agat_convert_mfannot2gff/.config.vsh.yaml index f83cf2d2..9a4c89cd 100644 --- a/target/nextflow/agat/agat_convert_mfannot2gff/.config.vsh.yaml +++ b/target/nextflow/agat/agat_convert_mfannot2gff/.config.vsh.yaml @@ -189,9 +189,9 @@ build_info: output: "target/nextflow/agat/agat_convert_mfannot2gff" executable: "target/nextflow/agat/agat_convert_mfannot2gff/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/agat/agat_convert_mfannot2gff/main.nf b/target/nextflow/agat/agat_convert_mfannot2gff/main.nf index e736efb4..5fe6a313 100644 --- a/target/nextflow/agat/agat_convert_mfannot2gff/main.nf +++ b/target/nextflow/agat/agat_convert_mfannot2gff/main.nf @@ -3282,9 +3282,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/agat/agat_convert_mfannot2gff", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/agat/agat_convert_sp_gff2gtf/.config.vsh.yaml b/target/nextflow/agat/agat_convert_sp_gff2gtf/.config.vsh.yaml index 80902618..55dc2027 100644 --- a/target/nextflow/agat/agat_convert_sp_gff2gtf/.config.vsh.yaml +++ b/target/nextflow/agat/agat_convert_sp_gff2gtf/.config.vsh.yaml @@ -231,9 +231,9 @@ build_info: output: "target/nextflow/agat/agat_convert_sp_gff2gtf" executable: "target/nextflow/agat/agat_convert_sp_gff2gtf/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/agat/agat_convert_sp_gff2gtf/main.nf b/target/nextflow/agat/agat_convert_sp_gff2gtf/main.nf index bd39ac2a..e11855e3 100644 --- a/target/nextflow/agat/agat_convert_sp_gff2gtf/main.nf +++ b/target/nextflow/agat/agat_convert_sp_gff2gtf/main.nf @@ -3303,9 +3303,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/agat/agat_convert_sp_gff2gtf", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/agat/agat_convert_sp_gff2tsv/.config.vsh.yaml b/target/nextflow/agat/agat_convert_sp_gff2tsv/.config.vsh.yaml index 007f8b57..0945ec22 100644 --- a/target/nextflow/agat/agat_convert_sp_gff2tsv/.config.vsh.yaml +++ b/target/nextflow/agat/agat_convert_sp_gff2tsv/.config.vsh.yaml @@ -191,9 +191,9 @@ build_info: output: "target/nextflow/agat/agat_convert_sp_gff2tsv" executable: "target/nextflow/agat/agat_convert_sp_gff2tsv/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/agat/agat_convert_sp_gff2tsv/main.nf b/target/nextflow/agat/agat_convert_sp_gff2tsv/main.nf index 1f08d955..3db811c6 100644 --- a/target/nextflow/agat/agat_convert_sp_gff2tsv/main.nf +++ b/target/nextflow/agat/agat_convert_sp_gff2tsv/main.nf @@ -3281,9 +3281,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/agat/agat_convert_sp_gff2tsv", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/agat/agat_convert_sp_gxf2gxf/.config.vsh.yaml b/target/nextflow/agat/agat_convert_sp_gxf2gxf/.config.vsh.yaml index 77473703..9a1aa44b 100644 --- a/target/nextflow/agat/agat_convert_sp_gxf2gxf/.config.vsh.yaml +++ b/target/nextflow/agat/agat_convert_sp_gxf2gxf/.config.vsh.yaml @@ -198,9 +198,9 @@ build_info: output: "target/nextflow/agat/agat_convert_sp_gxf2gxf" executable: "target/nextflow/agat/agat_convert_sp_gxf2gxf/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/agat/agat_convert_sp_gxf2gxf/main.nf b/target/nextflow/agat/agat_convert_sp_gxf2gxf/main.nf index d8ab2023..49071185 100644 --- a/target/nextflow/agat/agat_convert_sp_gxf2gxf/main.nf +++ b/target/nextflow/agat/agat_convert_sp_gxf2gxf/main.nf @@ -3281,9 +3281,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/agat/agat_convert_sp_gxf2gxf", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/agat/agat_sp_add_introns/.config.vsh.yaml b/target/nextflow/agat/agat_sp_add_introns/.config.vsh.yaml index acd15f72..1c72984c 100644 --- a/target/nextflow/agat/agat_sp_add_introns/.config.vsh.yaml +++ b/target/nextflow/agat/agat_sp_add_introns/.config.vsh.yaml @@ -189,9 +189,9 @@ build_info: output: "target/nextflow/agat/agat_sp_add_introns" executable: "target/nextflow/agat/agat_sp_add_introns/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/agat/agat_sp_add_introns/main.nf b/target/nextflow/agat/agat_sp_add_introns/main.nf index a24ce412..a2b72985 100644 --- a/target/nextflow/agat/agat_sp_add_introns/main.nf +++ b/target/nextflow/agat/agat_sp_add_introns/main.nf @@ -3284,9 +3284,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/agat/agat_sp_add_introns", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/agat/agat_sp_filter_feature_from_kill_list/.config.vsh.yaml b/target/nextflow/agat/agat_sp_filter_feature_from_kill_list/.config.vsh.yaml index ac047278..2c54c321 100644 --- a/target/nextflow/agat/agat_sp_filter_feature_from_kill_list/.config.vsh.yaml +++ b/target/nextflow/agat/agat_sp_filter_feature_from_kill_list/.config.vsh.yaml @@ -239,9 +239,9 @@ build_info: output: "target/nextflow/agat/agat_sp_filter_feature_from_kill_list" executable: "target/nextflow/agat/agat_sp_filter_feature_from_kill_list/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/agat/agat_sp_filter_feature_from_kill_list/main.nf b/target/nextflow/agat/agat_sp_filter_feature_from_kill_list/main.nf index 118e3b70..ae81dee9 100644 --- a/target/nextflow/agat/agat_sp_filter_feature_from_kill_list/main.nf +++ b/target/nextflow/agat/agat_sp_filter_feature_from_kill_list/main.nf @@ -3331,9 +3331,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/agat/agat_sp_filter_feature_from_kill_list", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/agat/agat_sp_merge_annotations/.config.vsh.yaml b/target/nextflow/agat/agat_sp_merge_annotations/.config.vsh.yaml index d88240d5..b50baf03 100644 --- a/target/nextflow/agat/agat_sp_merge_annotations/.config.vsh.yaml +++ b/target/nextflow/agat/agat_sp_merge_annotations/.config.vsh.yaml @@ -187,9 +187,9 @@ build_info: output: "target/nextflow/agat/agat_sp_merge_annotations" executable: "target/nextflow/agat/agat_sp_merge_annotations/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/agat/agat_sp_merge_annotations/main.nf b/target/nextflow/agat/agat_sp_merge_annotations/main.nf index 7f10e2e9..54522334 100644 --- a/target/nextflow/agat/agat_sp_merge_annotations/main.nf +++ b/target/nextflow/agat/agat_sp_merge_annotations/main.nf @@ -3281,9 +3281,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/agat/agat_sp_merge_annotations", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/agat/agat_sp_statistics/.config.vsh.yaml b/target/nextflow/agat/agat_sp_statistics/.config.vsh.yaml index 907c01d6..d55e0cc2 100644 --- a/target/nextflow/agat/agat_sp_statistics/.config.vsh.yaml +++ b/target/nextflow/agat/agat_sp_statistics/.config.vsh.yaml @@ -234,9 +234,9 @@ build_info: output: "target/nextflow/agat/agat_sp_statistics" executable: "target/nextflow/agat/agat_sp_statistics/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/agat/agat_sp_statistics/main.nf b/target/nextflow/agat/agat_sp_statistics/main.nf index 7ab53b26..619b9b59 100644 --- a/target/nextflow/agat/agat_sp_statistics/main.nf +++ b/target/nextflow/agat/agat_sp_statistics/main.nf @@ -3331,9 +3331,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/agat/agat_sp_statistics", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/agat/agat_sq_stat_basic/.config.vsh.yaml b/target/nextflow/agat/agat_sq_stat_basic/.config.vsh.yaml index ddb97ba0..ef520044 100644 --- a/target/nextflow/agat/agat_sq_stat_basic/.config.vsh.yaml +++ b/target/nextflow/agat/agat_sq_stat_basic/.config.vsh.yaml @@ -230,9 +230,9 @@ build_info: output: "target/nextflow/agat/agat_sq_stat_basic" executable: "target/nextflow/agat/agat_sq_stat_basic/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/agat/agat_sq_stat_basic/main.nf b/target/nextflow/agat/agat_sq_stat_basic/main.nf index 54192b06..098e47cc 100644 --- a/target/nextflow/agat/agat_sq_stat_basic/main.nf +++ b/target/nextflow/agat/agat_sq_stat_basic/main.nf @@ -3317,9 +3317,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/agat/agat_sq_stat_basic", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/arriba/.config.vsh.yaml b/target/nextflow/arriba/.config.vsh.yaml index 908a7ca3..bb4f058d 100644 --- a/target/nextflow/arriba/.config.vsh.yaml +++ b/target/nextflow/arriba/.config.vsh.yaml @@ -709,9 +709,9 @@ build_info: output: "target/nextflow/arriba" executable: "target/nextflow/arriba/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/arriba/main.nf b/target/nextflow/arriba/main.nf index c6c0825b..1b661888 100644 --- a/target/nextflow/arriba/main.nf +++ b/target/nextflow/arriba/main.nf @@ -3827,9 +3827,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/arriba", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bases2fastq/.config.vsh.yaml b/target/nextflow/bases2fastq/.config.vsh.yaml index 77adc60d..4f1dfd73 100644 --- a/target/nextflow/bases2fastq/.config.vsh.yaml +++ b/target/nextflow/bases2fastq/.config.vsh.yaml @@ -397,9 +397,9 @@ build_info: output: "target/nextflow/bases2fastq" executable: "target/nextflow/bases2fastq/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bases2fastq/main.nf b/target/nextflow/bases2fastq/main.nf index 3e96a16a..270bdca4 100644 --- a/target/nextflow/bases2fastq/main.nf +++ b/target/nextflow/bases2fastq/main.nf @@ -3519,9 +3519,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bases2fastq", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bbmap/bbmap_bbsplit/.config.vsh.yaml b/target/nextflow/bbmap/bbmap_bbsplit/.config.vsh.yaml index 34bc672f..a79d365d 100644 --- a/target/nextflow/bbmap/bbmap_bbsplit/.config.vsh.yaml +++ b/target/nextflow/bbmap/bbmap_bbsplit/.config.vsh.yaml @@ -371,9 +371,9 @@ build_info: output: "target/nextflow/bbmap/bbmap_bbsplit" executable: "target/nextflow/bbmap/bbmap_bbsplit/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bbmap/bbmap_bbsplit/main.nf b/target/nextflow/bbmap/bbmap_bbsplit/main.nf index 5535732a..492fb03b 100644 --- a/target/nextflow/bbmap/bbmap_bbsplit/main.nf +++ b/target/nextflow/bbmap/bbmap_bbsplit/main.nf @@ -3455,9 +3455,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bbmap/bbmap_bbsplit", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bcftools/bcftools_annotate/.config.vsh.yaml b/target/nextflow/bcftools/bcftools_annotate/.config.vsh.yaml index 04d7c3bb..946e8cb5 100644 --- a/target/nextflow/bcftools/bcftools_annotate/.config.vsh.yaml +++ b/target/nextflow/bcftools/bcftools_annotate/.config.vsh.yaml @@ -472,9 +472,9 @@ build_info: output: "target/nextflow/bcftools/bcftools_annotate" executable: "target/nextflow/bcftools/bcftools_annotate/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bcftools/bcftools_annotate/main.nf b/target/nextflow/bcftools/bcftools_annotate/main.nf index 6d1af5de..b5718410 100644 --- a/target/nextflow/bcftools/bcftools_annotate/main.nf +++ b/target/nextflow/bcftools/bcftools_annotate/main.nf @@ -3570,9 +3570,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bcftools/bcftools_annotate", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bcftools/bcftools_concat/.config.vsh.yaml b/target/nextflow/bcftools/bcftools_concat/.config.vsh.yaml index 54bb83e5..ab75dbd4 100644 --- a/target/nextflow/bcftools/bcftools_concat/.config.vsh.yaml +++ b/target/nextflow/bcftools/bcftools_concat/.config.vsh.yaml @@ -338,9 +338,9 @@ build_info: output: "target/nextflow/bcftools/bcftools_concat" executable: "target/nextflow/bcftools/bcftools_concat/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bcftools/bcftools_concat/main.nf b/target/nextflow/bcftools/bcftools_concat/main.nf index aadfd27a..453ca0a2 100644 --- a/target/nextflow/bcftools/bcftools_concat/main.nf +++ b/target/nextflow/bcftools/bcftools_concat/main.nf @@ -3442,9 +3442,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bcftools/bcftools_concat", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bcftools/bcftools_norm/.config.vsh.yaml b/target/nextflow/bcftools/bcftools_norm/.config.vsh.yaml index 95813eb0..a6988489 100644 --- a/target/nextflow/bcftools/bcftools_norm/.config.vsh.yaml +++ b/target/nextflow/bcftools/bcftools_norm/.config.vsh.yaml @@ -419,9 +419,9 @@ build_info: output: "target/nextflow/bcftools/bcftools_norm" executable: "target/nextflow/bcftools/bcftools_norm/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bcftools/bcftools_norm/main.nf b/target/nextflow/bcftools/bcftools_norm/main.nf index 08de353d..18d54bdc 100644 --- a/target/nextflow/bcftools/bcftools_norm/main.nf +++ b/target/nextflow/bcftools/bcftools_norm/main.nf @@ -3535,9 +3535,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bcftools/bcftools_norm", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bcftools/bcftools_sort/.config.vsh.yaml b/target/nextflow/bcftools/bcftools_sort/.config.vsh.yaml index 5a27a99a..48a663e6 100644 --- a/target/nextflow/bcftools/bcftools_sort/.config.vsh.yaml +++ b/target/nextflow/bcftools/bcftools_sort/.config.vsh.yaml @@ -188,9 +188,9 @@ build_info: output: "target/nextflow/bcftools/bcftools_sort" executable: "target/nextflow/bcftools/bcftools_sort/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bcftools/bcftools_sort/main.nf b/target/nextflow/bcftools/bcftools_sort/main.nf index 7bd3a01b..9b1a39e1 100644 --- a/target/nextflow/bcftools/bcftools_sort/main.nf +++ b/target/nextflow/bcftools/bcftools_sort/main.nf @@ -3283,9 +3283,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bcftools/bcftools_sort", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bcftools/bcftools_stats/.config.vsh.yaml b/target/nextflow/bcftools/bcftools_stats/.config.vsh.yaml index d3c84388..fcd5ffc1 100644 --- a/target/nextflow/bcftools/bcftools_stats/.config.vsh.yaml +++ b/target/nextflow/bcftools/bcftools_stats/.config.vsh.yaml @@ -461,9 +461,9 @@ build_info: output: "target/nextflow/bcftools/bcftools_stats" executable: "target/nextflow/bcftools/bcftools_stats/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bcftools/bcftools_stats/main.nf b/target/nextflow/bcftools/bcftools_stats/main.nf index b08d2156..229374a6 100644 --- a/target/nextflow/bcftools/bcftools_stats/main.nf +++ b/target/nextflow/bcftools/bcftools_stats/main.nf @@ -3572,9 +3572,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bcftools/bcftools_stats", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bcl_convert/.config.vsh.yaml b/target/nextflow/bcl_convert/.config.vsh.yaml index b0b7488e..17e783af 100644 --- a/target/nextflow/bcl_convert/.config.vsh.yaml +++ b/target/nextflow/bcl_convert/.config.vsh.yaml @@ -431,9 +431,9 @@ build_info: output: "target/nextflow/bcl_convert" executable: "target/nextflow/bcl_convert/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bcl_convert/main.nf b/target/nextflow/bcl_convert/main.nf index 3ef6bcf2..4cc815f3 100644 --- a/target/nextflow/bcl_convert/main.nf +++ b/target/nextflow/bcl_convert/main.nf @@ -3576,9 +3576,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bcl_convert", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bd_rhapsody/bd_rhapsody_make_reference/.config.vsh.yaml b/target/nextflow/bd_rhapsody/bd_rhapsody_make_reference/.config.vsh.yaml index cd694ef5..b2eaa853 100644 --- a/target/nextflow/bd_rhapsody/bd_rhapsody_make_reference/.config.vsh.yaml +++ b/target/nextflow/bd_rhapsody/bd_rhapsody_make_reference/.config.vsh.yaml @@ -277,9 +277,9 @@ build_info: output: "target/nextflow/bd_rhapsody/bd_rhapsody_make_reference" executable: "target/nextflow/bd_rhapsody/bd_rhapsody_make_reference/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bd_rhapsody/bd_rhapsody_make_reference/main.nf b/target/nextflow/bd_rhapsody/bd_rhapsody_make_reference/main.nf index 6fc23448..ac136fb4 100644 --- a/target/nextflow/bd_rhapsody/bd_rhapsody_make_reference/main.nf +++ b/target/nextflow/bd_rhapsody/bd_rhapsody_make_reference/main.nf @@ -3381,9 +3381,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bd_rhapsody/bd_rhapsody_make_reference", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bd_rhapsody/bd_rhapsody_sequence_analysis/.config.vsh.yaml b/target/nextflow/bd_rhapsody/bd_rhapsody_sequence_analysis/.config.vsh.yaml index 49f74a12..b3d2b251 100644 --- a/target/nextflow/bd_rhapsody/bd_rhapsody_sequence_analysis/.config.vsh.yaml +++ b/target/nextflow/bd_rhapsody/bd_rhapsody_sequence_analysis/.config.vsh.yaml @@ -1118,9 +1118,9 @@ build_info: output: "target/nextflow/bd_rhapsody/bd_rhapsody_sequence_analysis" executable: "target/nextflow/bd_rhapsody/bd_rhapsody_sequence_analysis/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bd_rhapsody/bd_rhapsody_sequence_analysis/main.nf b/target/nextflow/bd_rhapsody/bd_rhapsody_sequence_analysis/main.nf index 6fb0f07c..f94ab90b 100644 --- a/target/nextflow/bd_rhapsody/bd_rhapsody_sequence_analysis/main.nf +++ b/target/nextflow/bd_rhapsody/bd_rhapsody_sequence_analysis/main.nf @@ -4428,9 +4428,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bd_rhapsody/bd_rhapsody_sequence_analysis", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bedtools/bedtools_bamtobed/.config.vsh.yaml b/target/nextflow/bedtools/bedtools_bamtobed/.config.vsh.yaml index 32b4e9fd..d8698435 100644 --- a/target/nextflow/bedtools/bedtools_bamtobed/.config.vsh.yaml +++ b/target/nextflow/bedtools/bedtools_bamtobed/.config.vsh.yaml @@ -238,9 +238,9 @@ build_info: output: "target/nextflow/bedtools/bedtools_bamtobed" executable: "target/nextflow/bedtools/bedtools_bamtobed/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bedtools/bedtools_bamtobed/main.nf b/target/nextflow/bedtools/bedtools_bamtobed/main.nf index d22683bd..41f51668 100644 --- a/target/nextflow/bedtools/bedtools_bamtobed/main.nf +++ b/target/nextflow/bedtools/bedtools_bamtobed/main.nf @@ -3336,9 +3336,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bedtools/bedtools_bamtobed", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bedtools/bedtools_bamtofastq/.config.vsh.yaml b/target/nextflow/bedtools/bedtools_bamtofastq/.config.vsh.yaml index 22a8671a..075e83f1 100644 --- a/target/nextflow/bedtools/bedtools_bamtofastq/.config.vsh.yaml +++ b/target/nextflow/bedtools/bedtools_bamtofastq/.config.vsh.yaml @@ -190,9 +190,9 @@ build_info: output: "target/nextflow/bedtools/bedtools_bamtofastq" executable: "target/nextflow/bedtools/bedtools_bamtofastq/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bedtools/bedtools_bamtofastq/main.nf b/target/nextflow/bedtools/bedtools_bamtofastq/main.nf index 96fb2bd3..f716fabb 100644 --- a/target/nextflow/bedtools/bedtools_bamtofastq/main.nf +++ b/target/nextflow/bedtools/bedtools_bamtofastq/main.nf @@ -3285,9 +3285,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bedtools/bedtools_bamtofastq", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bedtools/bedtools_bed12tobed6/.config.vsh.yaml b/target/nextflow/bedtools/bedtools_bed12tobed6/.config.vsh.yaml index 119a044b..d5fc5b2b 100644 --- a/target/nextflow/bedtools/bedtools_bed12tobed6/.config.vsh.yaml +++ b/target/nextflow/bedtools/bedtools_bed12tobed6/.config.vsh.yaml @@ -179,9 +179,9 @@ build_info: output: "target/nextflow/bedtools/bedtools_bed12tobed6" executable: "target/nextflow/bedtools/bedtools_bed12tobed6/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bedtools/bedtools_bed12tobed6/main.nf b/target/nextflow/bedtools/bedtools_bed12tobed6/main.nf index 6b41feac..1944e9c2 100644 --- a/target/nextflow/bedtools/bedtools_bed12tobed6/main.nf +++ b/target/nextflow/bedtools/bedtools_bed12tobed6/main.nf @@ -3270,9 +3270,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bedtools/bedtools_bed12tobed6", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bedtools/bedtools_bedtobam/.config.vsh.yaml b/target/nextflow/bedtools/bedtools_bedtobam/.config.vsh.yaml index 9f7449af..d14ea9a2 100644 --- a/target/nextflow/bedtools/bedtools_bedtobam/.config.vsh.yaml +++ b/target/nextflow/bedtools/bedtools_bedtobam/.config.vsh.yaml @@ -217,9 +217,9 @@ build_info: output: "target/nextflow/bedtools/bedtools_bedtobam" executable: "target/nextflow/bedtools/bedtools_bedtobam/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bedtools/bedtools_bedtobam/main.nf b/target/nextflow/bedtools/bedtools_bedtobam/main.nf index 81d6f526..1603cc7c 100644 --- a/target/nextflow/bedtools/bedtools_bedtobam/main.nf +++ b/target/nextflow/bedtools/bedtools_bedtobam/main.nf @@ -3318,9 +3318,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bedtools/bedtools_bedtobam", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bedtools/bedtools_genomecov/.config.vsh.yaml b/target/nextflow/bedtools/bedtools_genomecov/.config.vsh.yaml index a88cc9fa..8bc1f55c 100644 --- a/target/nextflow/bedtools/bedtools_genomecov/.config.vsh.yaml +++ b/target/nextflow/bedtools/bedtools_genomecov/.config.vsh.yaml @@ -340,9 +340,9 @@ build_info: output: "target/nextflow/bedtools/bedtools_genomecov" executable: "target/nextflow/bedtools/bedtools_genomecov/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bedtools/bedtools_genomecov/main.nf b/target/nextflow/bedtools/bedtools_genomecov/main.nf index 18aabc64..e7bba2b2 100644 --- a/target/nextflow/bedtools/bedtools_genomecov/main.nf +++ b/target/nextflow/bedtools/bedtools_genomecov/main.nf @@ -3442,9 +3442,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bedtools/bedtools_genomecov", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bedtools/bedtools_getfasta/.config.vsh.yaml b/target/nextflow/bedtools/bedtools_getfasta/.config.vsh.yaml index def30f30..d355abf8 100644 --- a/target/nextflow/bedtools/bedtools_getfasta/.config.vsh.yaml +++ b/target/nextflow/bedtools/bedtools_getfasta/.config.vsh.yaml @@ -235,9 +235,9 @@ build_info: output: "target/nextflow/bedtools/bedtools_getfasta" executable: "target/nextflow/bedtools/bedtools_getfasta/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bedtools/bedtools_getfasta/main.nf b/target/nextflow/bedtools/bedtools_getfasta/main.nf index d42c74c9..d8b28d53 100644 --- a/target/nextflow/bedtools/bedtools_getfasta/main.nf +++ b/target/nextflow/bedtools/bedtools_getfasta/main.nf @@ -3321,9 +3321,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bedtools/bedtools_getfasta", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bedtools/bedtools_groupby/.config.vsh.yaml b/target/nextflow/bedtools/bedtools_groupby/.config.vsh.yaml index 06b293d8..b4d984ca 100644 --- a/target/nextflow/bedtools/bedtools_groupby/.config.vsh.yaml +++ b/target/nextflow/bedtools/bedtools_groupby/.config.vsh.yaml @@ -276,9 +276,9 @@ build_info: output: "target/nextflow/bedtools/bedtools_groupby" executable: "target/nextflow/bedtools/bedtools_groupby/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bedtools/bedtools_groupby/main.nf b/target/nextflow/bedtools/bedtools_groupby/main.nf index 40091865..0512adc9 100644 --- a/target/nextflow/bedtools/bedtools_groupby/main.nf +++ b/target/nextflow/bedtools/bedtools_groupby/main.nf @@ -3365,9 +3365,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bedtools/bedtools_groupby", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bedtools/bedtools_intersect/.config.vsh.yaml b/target/nextflow/bedtools/bedtools_intersect/.config.vsh.yaml index e5086a3e..a9c89fe5 100644 --- a/target/nextflow/bedtools/bedtools_intersect/.config.vsh.yaml +++ b/target/nextflow/bedtools/bedtools_intersect/.config.vsh.yaml @@ -413,9 +413,9 @@ build_info: output: "target/nextflow/bedtools/bedtools_intersect" executable: "target/nextflow/bedtools/bedtools_intersect/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bedtools/bedtools_intersect/main.nf b/target/nextflow/bedtools/bedtools_intersect/main.nf index c390b898..4e60952d 100644 --- a/target/nextflow/bedtools/bedtools_intersect/main.nf +++ b/target/nextflow/bedtools/bedtools_intersect/main.nf @@ -3517,9 +3517,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bedtools/bedtools_intersect", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bedtools/bedtools_links/.config.vsh.yaml b/target/nextflow/bedtools/bedtools_links/.config.vsh.yaml index 0efcf7ad..a073f27a 100644 --- a/target/nextflow/bedtools/bedtools_links/.config.vsh.yaml +++ b/target/nextflow/bedtools/bedtools_links/.config.vsh.yaml @@ -213,9 +213,9 @@ build_info: output: "target/nextflow/bedtools/bedtools_links" executable: "target/nextflow/bedtools/bedtools_links/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bedtools/bedtools_links/main.nf b/target/nextflow/bedtools/bedtools_links/main.nf index 225d3f62..1164526c 100644 --- a/target/nextflow/bedtools/bedtools_links/main.nf +++ b/target/nextflow/bedtools/bedtools_links/main.nf @@ -3308,9 +3308,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bedtools/bedtools_links", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bedtools/bedtools_merge/.config.vsh.yaml b/target/nextflow/bedtools/bedtools_merge/.config.vsh.yaml index 07ca993b..87101c94 100644 --- a/target/nextflow/bedtools/bedtools_merge/.config.vsh.yaml +++ b/target/nextflow/bedtools/bedtools_merge/.config.vsh.yaml @@ -282,9 +282,9 @@ build_info: output: "target/nextflow/bedtools/bedtools_merge" executable: "target/nextflow/bedtools/bedtools_merge/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bedtools/bedtools_merge/main.nf b/target/nextflow/bedtools/bedtools_merge/main.nf index bbe032c6..05e8efae 100644 --- a/target/nextflow/bedtools/bedtools_merge/main.nf +++ b/target/nextflow/bedtools/bedtools_merge/main.nf @@ -3369,9 +3369,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bedtools/bedtools_merge", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/bedtools/bedtools_sort/.config.vsh.yaml b/target/nextflow/bedtools/bedtools_sort/.config.vsh.yaml index ef220eca..649b326e 100644 --- a/target/nextflow/bedtools/bedtools_sort/.config.vsh.yaml +++ b/target/nextflow/bedtools/bedtools_sort/.config.vsh.yaml @@ -225,9 +225,9 @@ build_info: output: "target/nextflow/bedtools/bedtools_sort" executable: "target/nextflow/bedtools/bedtools_sort/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/bedtools/bedtools_sort/main.nf b/target/nextflow/bedtools/bedtools_sort/main.nf index b15881c5..700a91d7 100644 --- a/target/nextflow/bedtools/bedtools_sort/main.nf +++ b/target/nextflow/bedtools/bedtools_sort/main.nf @@ -3327,9 +3327,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/bedtools/bedtools_sort", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/busco/busco_download_datasets/.config.vsh.yaml b/target/nextflow/busco/busco_download_datasets/.config.vsh.yaml index 1ad42c11..5dac4581 100644 --- a/target/nextflow/busco/busco_download_datasets/.config.vsh.yaml +++ b/target/nextflow/busco/busco_download_datasets/.config.vsh.yaml @@ -161,9 +161,9 @@ build_info: output: "target/nextflow/busco/busco_download_datasets" executable: "target/nextflow/busco/busco_download_datasets/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/busco/busco_download_datasets/main.nf b/target/nextflow/busco/busco_download_datasets/main.nf index cb5a23e3..a2baa26d 100644 --- a/target/nextflow/busco/busco_download_datasets/main.nf +++ b/target/nextflow/busco/busco_download_datasets/main.nf @@ -3246,9 +3246,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/busco/busco_download_datasets", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/busco/busco_list_datasets/.config.vsh.yaml b/target/nextflow/busco/busco_list_datasets/.config.vsh.yaml index 0e805d82..33cf58e5 100644 --- a/target/nextflow/busco/busco_list_datasets/.config.vsh.yaml +++ b/target/nextflow/busco/busco_list_datasets/.config.vsh.yaml @@ -148,9 +148,9 @@ build_info: output: "target/nextflow/busco/busco_list_datasets" executable: "target/nextflow/busco/busco_list_datasets/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/busco/busco_list_datasets/main.nf b/target/nextflow/busco/busco_list_datasets/main.nf index b19a9852..406a6027 100644 --- a/target/nextflow/busco/busco_list_datasets/main.nf +++ b/target/nextflow/busco/busco_list_datasets/main.nf @@ -3232,9 +3232,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/busco/busco_list_datasets", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/busco/busco_run/.config.vsh.yaml b/target/nextflow/busco/busco_run/.config.vsh.yaml index fbac0abd..52508ea6 100644 --- a/target/nextflow/busco/busco_run/.config.vsh.yaml +++ b/target/nextflow/busco/busco_run/.config.vsh.yaml @@ -426,9 +426,9 @@ build_info: output: "target/nextflow/busco/busco_run" executable: "target/nextflow/busco/busco_run/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/busco/busco_run/main.nf b/target/nextflow/busco/busco_run/main.nf index d773ed76..788fecc8 100644 --- a/target/nextflow/busco/busco_run/main.nf +++ b/target/nextflow/busco/busco_run/main.nf @@ -3544,9 +3544,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/busco/busco_run", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/cellranger/cellranger_mkref/.config.vsh.yaml b/target/nextflow/cellranger/cellranger_mkref/.config.vsh.yaml index 2486aa64..7e548aa8 100644 --- a/target/nextflow/cellranger/cellranger_mkref/.config.vsh.yaml +++ b/target/nextflow/cellranger/cellranger_mkref/.config.vsh.yaml @@ -198,9 +198,9 @@ build_info: output: "target/nextflow/cellranger/cellranger_mkref" executable: "target/nextflow/cellranger/cellranger_mkref/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/cellranger/cellranger_mkref/main.nf b/target/nextflow/cellranger/cellranger_mkref/main.nf index dfaefea8..a659daf5 100644 --- a/target/nextflow/cellranger/cellranger_mkref/main.nf +++ b/target/nextflow/cellranger/cellranger_mkref/main.nf @@ -3294,9 +3294,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/cellranger/cellranger_mkref", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/cutadapt/.config.vsh.yaml b/target/nextflow/cutadapt/.config.vsh.yaml index e27f3d8a..2d53cfe0 100644 --- a/target/nextflow/cutadapt/.config.vsh.yaml +++ b/target/nextflow/cutadapt/.config.vsh.yaml @@ -743,9 +743,9 @@ build_info: output: "target/nextflow/cutadapt" executable: "target/nextflow/cutadapt/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/cutadapt/main.nf b/target/nextflow/cutadapt/main.nf index a8309d4e..3459160e 100644 --- a/target/nextflow/cutadapt/main.nf +++ b/target/nextflow/cutadapt/main.nf @@ -3854,9 +3854,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/cutadapt", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/falco/.config.vsh.yaml b/target/nextflow/falco/.config.vsh.yaml index 9f76591a..22158e46 100644 --- a/target/nextflow/falco/.config.vsh.yaml +++ b/target/nextflow/falco/.config.vsh.yaml @@ -320,9 +320,9 @@ build_info: output: "target/nextflow/falco" executable: "target/nextflow/falco/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/falco/main.nf b/target/nextflow/falco/main.nf index 7e1b7edf..ecfe93a3 100644 --- a/target/nextflow/falco/main.nf +++ b/target/nextflow/falco/main.nf @@ -3405,9 +3405,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/falco", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/fastp/.config.vsh.yaml b/target/nextflow/fastp/.config.vsh.yaml index be1bef7b..3f1229e2 100644 --- a/target/nextflow/fastp/.config.vsh.yaml +++ b/target/nextflow/fastp/.config.vsh.yaml @@ -1086,9 +1086,9 @@ build_info: output: "target/nextflow/fastp" executable: "target/nextflow/fastp/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/fastp/main.nf b/target/nextflow/fastp/main.nf index 945e6b4f..a1785e1a 100644 --- a/target/nextflow/fastp/main.nf +++ b/target/nextflow/fastp/main.nf @@ -4258,9 +4258,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/fastp", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/fastqc/.config.vsh.yaml b/target/nextflow/fastqc/.config.vsh.yaml index 3bffecbd..89c00186 100644 --- a/target/nextflow/fastqc/.config.vsh.yaml +++ b/target/nextflow/fastqc/.config.vsh.yaml @@ -343,9 +343,9 @@ build_info: output: "target/nextflow/fastqc" executable: "target/nextflow/fastqc/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/fastqc/main.nf b/target/nextflow/fastqc/main.nf index 9305e651..ad028b94 100644 --- a/target/nextflow/fastqc/main.nf +++ b/target/nextflow/fastqc/main.nf @@ -3417,9 +3417,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/fastqc", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/featurecounts/.config.vsh.yaml b/target/nextflow/featurecounts/.config.vsh.yaml index 51d03b41..c66e20f3 100644 --- a/target/nextflow/featurecounts/.config.vsh.yaml +++ b/target/nextflow/featurecounts/.config.vsh.yaml @@ -648,9 +648,9 @@ build_info: output: "target/nextflow/featurecounts" executable: "target/nextflow/featurecounts/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/featurecounts/main.nf b/target/nextflow/featurecounts/main.nf index 107b2863..85b61286 100644 --- a/target/nextflow/featurecounts/main.nf +++ b/target/nextflow/featurecounts/main.nf @@ -3784,9 +3784,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/featurecounts", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", @@ -3897,7 +3897,7 @@ $( if [ ! -z ${VIASH_META_MEMORY_PIB+x} ]; then echo "${VIASH_META_MEMORY_PIB}" ## VIASH END # create temporary directory -tmp_dir=\\$(mktemp -d -p "\\$meta_temp_dir" "\\${meta_functionality_name}_XXXXXX") +tmp_dir=\\$(mktemp -d -p "\\$meta_temp_dir" "\\${meta_name}_XXXXXX") mkdir -p "\\$tmp_dir/temp" # create detailed_results directory if variable is set and directory does not exist diff --git a/target/nextflow/fq_subsample/.config.vsh.yaml b/target/nextflow/fq_subsample/.config.vsh.yaml index 33a112c8..5a4246a5 100644 --- a/target/nextflow/fq_subsample/.config.vsh.yaml +++ b/target/nextflow/fq_subsample/.config.vsh.yaml @@ -193,9 +193,9 @@ build_info: output: "target/nextflow/fq_subsample" executable: "target/nextflow/fq_subsample/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/fq_subsample/main.nf b/target/nextflow/fq_subsample/main.nf index ffcf6e1c..c074939e 100644 --- a/target/nextflow/fq_subsample/main.nf +++ b/target/nextflow/fq_subsample/main.nf @@ -3267,9 +3267,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/fq_subsample", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/gffread/.config.vsh.yaml b/target/nextflow/gffread/.config.vsh.yaml index c3dbdb94..2f899ea7 100644 --- a/target/nextflow/gffread/.config.vsh.yaml +++ b/target/nextflow/gffread/.config.vsh.yaml @@ -688,9 +688,9 @@ build_info: output: "target/nextflow/gffread" executable: "target/nextflow/gffread/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/gffread/main.nf b/target/nextflow/gffread/main.nf index c06d5283..7e7d4b46 100644 --- a/target/nextflow/gffread/main.nf +++ b/target/nextflow/gffread/main.nf @@ -3841,9 +3841,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/gffread", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/kallisto/kallisto_index/.config.vsh.yaml b/target/nextflow/kallisto/kallisto_index/.config.vsh.yaml index 2803bc9d..b2d20ba9 100644 --- a/target/nextflow/kallisto/kallisto_index/.config.vsh.yaml +++ b/target/nextflow/kallisto/kallisto_index/.config.vsh.yaml @@ -221,9 +221,9 @@ build_info: output: "target/nextflow/kallisto/kallisto_index" executable: "target/nextflow/kallisto/kallisto_index/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/kallisto/kallisto_index/main.nf b/target/nextflow/kallisto/kallisto_index/main.nf index 00835142..c8616079 100644 --- a/target/nextflow/kallisto/kallisto_index/main.nf +++ b/target/nextflow/kallisto/kallisto_index/main.nf @@ -3306,9 +3306,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/kallisto/kallisto_index", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/kallisto/kallisto_quant/.config.vsh.yaml b/target/nextflow/kallisto/kallisto_quant/.config.vsh.yaml index e3c16c0a..03d75ab3 100644 --- a/target/nextflow/kallisto/kallisto_quant/.config.vsh.yaml +++ b/target/nextflow/kallisto/kallisto_quant/.config.vsh.yaml @@ -249,9 +249,9 @@ build_info: output: "target/nextflow/kallisto/kallisto_quant" executable: "target/nextflow/kallisto/kallisto_quant/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/kallisto/kallisto_quant/main.nf b/target/nextflow/kallisto/kallisto_quant/main.nf index 6bd49ee8..09a4befb 100644 --- a/target/nextflow/kallisto/kallisto_quant/main.nf +++ b/target/nextflow/kallisto/kallisto_quant/main.nf @@ -3340,9 +3340,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/kallisto/kallisto_quant", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/lofreq/lofreq_call/.config.vsh.yaml b/target/nextflow/lofreq/lofreq_call/.config.vsh.yaml index c350bec1..d8ae68cf 100644 --- a/target/nextflow/lofreq/lofreq_call/.config.vsh.yaml +++ b/target/nextflow/lofreq/lofreq_call/.config.vsh.yaml @@ -510,9 +510,9 @@ build_info: output: "target/nextflow/lofreq/lofreq_call" executable: "target/nextflow/lofreq/lofreq_call/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/lofreq/lofreq_call/main.nf b/target/nextflow/lofreq/lofreq_call/main.nf index a116bbe5..67a6f26a 100644 --- a/target/nextflow/lofreq/lofreq_call/main.nf +++ b/target/nextflow/lofreq/lofreq_call/main.nf @@ -3649,9 +3649,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/lofreq/lofreq_call", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/lofreq/lofreq_indelqual/.config.vsh.yaml b/target/nextflow/lofreq/lofreq_indelqual/.config.vsh.yaml index 56a45ca7..a9ab0f4e 100644 --- a/target/nextflow/lofreq/lofreq_indelqual/.config.vsh.yaml +++ b/target/nextflow/lofreq/lofreq_indelqual/.config.vsh.yaml @@ -218,9 +218,9 @@ build_info: output: "target/nextflow/lofreq/lofreq_indelqual" executable: "target/nextflow/lofreq/lofreq_indelqual/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/lofreq/lofreq_indelqual/main.nf b/target/nextflow/lofreq/lofreq_indelqual/main.nf index 13d0ab4c..b2e78c35 100644 --- a/target/nextflow/lofreq/lofreq_indelqual/main.nf +++ b/target/nextflow/lofreq/lofreq_indelqual/main.nf @@ -3312,9 +3312,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/lofreq/lofreq_indelqual", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/multiqc/.config.vsh.yaml b/target/nextflow/multiqc/.config.vsh.yaml index 9e93ba81..b6cfcd77 100644 --- a/target/nextflow/multiqc/.config.vsh.yaml +++ b/target/nextflow/multiqc/.config.vsh.yaml @@ -459,9 +459,9 @@ build_info: output: "target/nextflow/multiqc" executable: "target/nextflow/multiqc/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/multiqc/main.nf b/target/nextflow/multiqc/main.nf index 097b488e..a60a6714 100644 --- a/target/nextflow/multiqc/main.nf +++ b/target/nextflow/multiqc/main.nf @@ -3601,9 +3601,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/multiqc", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/nanoplot/.config.vsh.yaml b/target/nextflow/nanoplot/.config.vsh.yaml index 544d5411..5e615f48 100644 --- a/target/nextflow/nanoplot/.config.vsh.yaml +++ b/target/nextflow/nanoplot/.config.vsh.yaml @@ -495,9 +495,9 @@ build_info: output: "target/nextflow/nanoplot" executable: "target/nextflow/nanoplot/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/nanoplot/main.nf b/target/nextflow/nanoplot/main.nf index cb13563e..07ca67cf 100644 --- a/target/nextflow/nanoplot/main.nf +++ b/target/nextflow/nanoplot/main.nf @@ -3632,9 +3632,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/nanoplot", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/pear/.config.vsh.yaml b/target/nextflow/pear/.config.vsh.yaml index bd4c95b9..7d8a3460 100644 --- a/target/nextflow/pear/.config.vsh.yaml +++ b/target/nextflow/pear/.config.vsh.yaml @@ -401,9 +401,9 @@ build_info: output: "target/nextflow/pear" executable: "target/nextflow/pear/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/pear/main.nf b/target/nextflow/pear/main.nf index 9f299948..6f0e67a1 100644 --- a/target/nextflow/pear/main.nf +++ b/target/nextflow/pear/main.nf @@ -3494,9 +3494,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/pear", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/qualimap/qualimap_rnaseq/.config.vsh.yaml b/target/nextflow/qualimap/qualimap_rnaseq/.config.vsh.yaml index a659a086..f2bd283d 100644 --- a/target/nextflow/qualimap/qualimap_rnaseq/.config.vsh.yaml +++ b/target/nextflow/qualimap/qualimap_rnaseq/.config.vsh.yaml @@ -267,9 +267,9 @@ build_info: output: "target/nextflow/qualimap/qualimap_rnaseq" executable: "target/nextflow/qualimap/qualimap_rnaseq/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/qualimap/qualimap_rnaseq/main.nf b/target/nextflow/qualimap/qualimap_rnaseq/main.nf index 50c27e8d..eade0ca2 100644 --- a/target/nextflow/qualimap/qualimap_rnaseq/main.nf +++ b/target/nextflow/qualimap/qualimap_rnaseq/main.nf @@ -3364,9 +3364,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/qualimap/qualimap_rnaseq", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/rsem/rsem_calculate_expression/.config.vsh.yaml b/target/nextflow/rsem/rsem_calculate_expression/.config.vsh.yaml index 4119280c..0ea605da 100644 --- a/target/nextflow/rsem/rsem_calculate_expression/.config.vsh.yaml +++ b/target/nextflow/rsem/rsem_calculate_expression/.config.vsh.yaml @@ -855,9 +855,9 @@ build_info: output: "target/nextflow/rsem/rsem_calculate_expression" executable: "target/nextflow/rsem/rsem_calculate_expression/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/rsem/rsem_calculate_expression/main.nf b/target/nextflow/rsem/rsem_calculate_expression/main.nf index 142c3e1a..7520419c 100644 --- a/target/nextflow/rsem/rsem_calculate_expression/main.nf +++ b/target/nextflow/rsem/rsem_calculate_expression/main.nf @@ -3896,9 +3896,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/rsem/rsem_calculate_expression", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/rsem/rsem_prepare_reference/.config.vsh.yaml b/target/nextflow/rsem/rsem_prepare_reference/.config.vsh.yaml index 0bf22bf8..8a67dfd8 100644 --- a/target/nextflow/rsem/rsem_prepare_reference/.config.vsh.yaml +++ b/target/nextflow/rsem/rsem_prepare_reference/.config.vsh.yaml @@ -419,9 +419,9 @@ build_info: output: "target/nextflow/rsem/rsem_prepare_reference" executable: "target/nextflow/rsem/rsem_prepare_reference/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/rsem/rsem_prepare_reference/main.nf b/target/nextflow/rsem/rsem_prepare_reference/main.nf index d41661af..3e5e9b9c 100644 --- a/target/nextflow/rsem/rsem_prepare_reference/main.nf +++ b/target/nextflow/rsem/rsem_prepare_reference/main.nf @@ -3480,9 +3480,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/rsem/rsem_prepare_reference", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/rseqc/rseqc_bamstat/.config.vsh.yaml b/target/nextflow/rseqc/rseqc_bamstat/.config.vsh.yaml index bbeee969..1b76d900 100644 --- a/target/nextflow/rseqc/rseqc_bamstat/.config.vsh.yaml +++ b/target/nextflow/rseqc/rseqc_bamstat/.config.vsh.yaml @@ -178,9 +178,9 @@ build_info: output: "target/nextflow/rseqc/rseqc_bamstat" executable: "target/nextflow/rseqc/rseqc_bamstat/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/rseqc/rseqc_bamstat/main.nf b/target/nextflow/rseqc/rseqc_bamstat/main.nf index 744ce51a..43fb7de1 100644 --- a/target/nextflow/rseqc/rseqc_bamstat/main.nf +++ b/target/nextflow/rseqc/rseqc_bamstat/main.nf @@ -3271,9 +3271,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/rseqc/rseqc_bamstat", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/rseqc/rseqc_inferexperiment/.config.vsh.yaml b/target/nextflow/rseqc/rseqc_inferexperiment/.config.vsh.yaml index 74c12028..2af29811 100644 --- a/target/nextflow/rseqc/rseqc_inferexperiment/.config.vsh.yaml +++ b/target/nextflow/rseqc/rseqc_inferexperiment/.config.vsh.yaml @@ -204,9 +204,9 @@ build_info: output: "target/nextflow/rseqc/rseqc_inferexperiment" executable: "target/nextflow/rseqc/rseqc_inferexperiment/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/rseqc/rseqc_inferexperiment/main.nf b/target/nextflow/rseqc/rseqc_inferexperiment/main.nf index 1592c7c7..b151d7db 100644 --- a/target/nextflow/rseqc/rseqc_inferexperiment/main.nf +++ b/target/nextflow/rseqc/rseqc_inferexperiment/main.nf @@ -3304,9 +3304,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/rseqc/rseqc_inferexperiment", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/rseqc/rseqc_inner_distance/.config.vsh.yaml b/target/nextflow/rseqc/rseqc_inner_distance/.config.vsh.yaml index ca1e49c5..6d706c4f 100644 --- a/target/nextflow/rseqc/rseqc_inner_distance/.config.vsh.yaml +++ b/target/nextflow/rseqc/rseqc_inner_distance/.config.vsh.yaml @@ -297,9 +297,9 @@ build_info: output: "target/nextflow/rseqc/rseqc_inner_distance" executable: "target/nextflow/rseqc/rseqc_inner_distance/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/rseqc/rseqc_inner_distance/main.nf b/target/nextflow/rseqc/rseqc_inner_distance/main.nf index c75f5ca6..b4d92ad5 100644 --- a/target/nextflow/rseqc/rseqc_inner_distance/main.nf +++ b/target/nextflow/rseqc/rseqc_inner_distance/main.nf @@ -3404,9 +3404,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/rseqc/rseqc_inner_distance", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/salmon/salmon_index/.config.vsh.yaml b/target/nextflow/salmon/salmon_index/.config.vsh.yaml index c806825b..c375d463 100644 --- a/target/nextflow/salmon/salmon_index/.config.vsh.yaml +++ b/target/nextflow/salmon/salmon_index/.config.vsh.yaml @@ -280,9 +280,9 @@ build_info: output: "target/nextflow/salmon/salmon_index" executable: "target/nextflow/salmon/salmon_index/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/salmon/salmon_index/main.nf b/target/nextflow/salmon/salmon_index/main.nf index 539f673c..045195f6 100644 --- a/target/nextflow/salmon/salmon_index/main.nf +++ b/target/nextflow/salmon/salmon_index/main.nf @@ -3364,9 +3364,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/salmon/salmon_index", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", @@ -3459,7 +3459,7 @@ for par in \\${unset_if_false[@]}; do [[ "\\$test_val" == "false" ]] && unset \\$par done -tmp_dir=\\$(mktemp -d -p "\\$meta_temp_dir" "\\${meta_functionality_name}_XXXXXX") +tmp_dir=\\$(mktemp -d -p "\\$meta_temp_dir" "\\${meta_name}_XXXXXX") mkdir -p "\\$tmp_dir/temp" if [[ -f "\\$par_genome" ]] && [[ ! "\\$par_decoys" ]]; then diff --git a/target/nextflow/salmon/salmon_quant/.config.vsh.yaml b/target/nextflow/salmon/salmon_quant/.config.vsh.yaml index 90e00ae0..2ce481e2 100644 --- a/target/nextflow/salmon/salmon_quant/.config.vsh.yaml +++ b/target/nextflow/salmon/salmon_quant/.config.vsh.yaml @@ -1176,9 +1176,9 @@ build_info: output: "target/nextflow/salmon/salmon_quant" executable: "target/nextflow/salmon/salmon_quant/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/salmon/salmon_quant/main.nf b/target/nextflow/salmon/salmon_quant/main.nf index 1e5235fa..dea9c3f1 100644 --- a/target/nextflow/salmon/salmon_quant/main.nf +++ b/target/nextflow/salmon/salmon_quant/main.nf @@ -4199,9 +4199,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/salmon/salmon_quant", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/samtools/samtools_collate/.config.vsh.yaml b/target/nextflow/samtools/samtools_collate/.config.vsh.yaml index 31cb199a..56ca290f 100644 --- a/target/nextflow/samtools/samtools_collate/.config.vsh.yaml +++ b/target/nextflow/samtools/samtools_collate/.config.vsh.yaml @@ -267,9 +267,9 @@ build_info: output: "target/nextflow/samtools/samtools_collate" executable: "target/nextflow/samtools/samtools_collate/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/samtools/samtools_collate/main.nf b/target/nextflow/samtools/samtools_collate/main.nf index 8435fd2a..a9efdc68 100644 --- a/target/nextflow/samtools/samtools_collate/main.nf +++ b/target/nextflow/samtools/samtools_collate/main.nf @@ -3375,9 +3375,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/samtools/samtools_collate", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/samtools/samtools_faidx/.config.vsh.yaml b/target/nextflow/samtools/samtools_faidx/.config.vsh.yaml index 8cbf015a..9f259834 100644 --- a/target/nextflow/samtools/samtools_faidx/.config.vsh.yaml +++ b/target/nextflow/samtools/samtools_faidx/.config.vsh.yaml @@ -246,9 +246,9 @@ build_info: output: "target/nextflow/samtools/samtools_faidx" executable: "target/nextflow/samtools/samtools_faidx/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/samtools/samtools_faidx/main.nf b/target/nextflow/samtools/samtools_faidx/main.nf index c18b22fd..f6b7dd23 100644 --- a/target/nextflow/samtools/samtools_faidx/main.nf +++ b/target/nextflow/samtools/samtools_faidx/main.nf @@ -3347,9 +3347,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/samtools/samtools_faidx", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/samtools/samtools_fasta/.config.vsh.yaml b/target/nextflow/samtools/samtools_fasta/.config.vsh.yaml index 4c3d80bb..2dd7f9ce 100644 --- a/target/nextflow/samtools/samtools_fasta/.config.vsh.yaml +++ b/target/nextflow/samtools/samtools_fasta/.config.vsh.yaml @@ -436,9 +436,9 @@ build_info: output: "target/nextflow/samtools/samtools_fasta" executable: "target/nextflow/samtools/samtools_fasta/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/samtools/samtools_fasta/main.nf b/target/nextflow/samtools/samtools_fasta/main.nf index 1ab5de62..b0d6582d 100644 --- a/target/nextflow/samtools/samtools_fasta/main.nf +++ b/target/nextflow/samtools/samtools_fasta/main.nf @@ -3539,9 +3539,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/samtools/samtools_fasta", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/samtools/samtools_fastq/.config.vsh.yaml b/target/nextflow/samtools/samtools_fastq/.config.vsh.yaml index 8cab0f46..208fb8a3 100644 --- a/target/nextflow/samtools/samtools_fastq/.config.vsh.yaml +++ b/target/nextflow/samtools/samtools_fastq/.config.vsh.yaml @@ -436,9 +436,9 @@ build_info: output: "target/nextflow/samtools/samtools_fastq" executable: "target/nextflow/samtools/samtools_fastq/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/samtools/samtools_fastq/main.nf b/target/nextflow/samtools/samtools_fastq/main.nf index b61561a3..a0c2656b 100644 --- a/target/nextflow/samtools/samtools_fastq/main.nf +++ b/target/nextflow/samtools/samtools_fastq/main.nf @@ -3539,9 +3539,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/samtools/samtools_fastq", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/samtools/samtools_flagstat/.config.vsh.yaml b/target/nextflow/samtools/samtools_flagstat/.config.vsh.yaml index d1cb5a55..c126bc1e 100644 --- a/target/nextflow/samtools/samtools_flagstat/.config.vsh.yaml +++ b/target/nextflow/samtools/samtools_flagstat/.config.vsh.yaml @@ -176,9 +176,9 @@ build_info: output: "target/nextflow/samtools/samtools_flagstat" executable: "target/nextflow/samtools/samtools_flagstat/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/samtools/samtools_flagstat/main.nf b/target/nextflow/samtools/samtools_flagstat/main.nf index b54a8b9c..b7073bc2 100644 --- a/target/nextflow/samtools/samtools_flagstat/main.nf +++ b/target/nextflow/samtools/samtools_flagstat/main.nf @@ -3263,9 +3263,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/samtools/samtools_flagstat", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/samtools/samtools_idxstats/.config.vsh.yaml b/target/nextflow/samtools/samtools_idxstats/.config.vsh.yaml index b1857a39..f5be8d87 100644 --- a/target/nextflow/samtools/samtools_idxstats/.config.vsh.yaml +++ b/target/nextflow/samtools/samtools_idxstats/.config.vsh.yaml @@ -186,9 +186,9 @@ build_info: output: "target/nextflow/samtools/samtools_idxstats" executable: "target/nextflow/samtools/samtools_idxstats/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/samtools/samtools_idxstats/main.nf b/target/nextflow/samtools/samtools_idxstats/main.nf index e52af7f6..0ba7e3d1 100644 --- a/target/nextflow/samtools/samtools_idxstats/main.nf +++ b/target/nextflow/samtools/samtools_idxstats/main.nf @@ -3275,9 +3275,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/samtools/samtools_idxstats", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/samtools/samtools_index/.config.vsh.yaml b/target/nextflow/samtools/samtools_index/.config.vsh.yaml index ed45e4d9..c333d91f 100644 --- a/target/nextflow/samtools/samtools_index/.config.vsh.yaml +++ b/target/nextflow/samtools/samtools_index/.config.vsh.yaml @@ -192,9 +192,9 @@ build_info: output: "target/nextflow/samtools/samtools_index" executable: "target/nextflow/samtools/samtools_index/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/samtools/samtools_index/main.nf b/target/nextflow/samtools/samtools_index/main.nf index dd4a92b0..0af9b611 100644 --- a/target/nextflow/samtools/samtools_index/main.nf +++ b/target/nextflow/samtools/samtools_index/main.nf @@ -3288,9 +3288,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/samtools/samtools_index", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/samtools/samtools_sort/.config.vsh.yaml b/target/nextflow/samtools/samtools_sort/.config.vsh.yaml index fc9783da..7b6da8a8 100644 --- a/target/nextflow/samtools/samtools_sort/.config.vsh.yaml +++ b/target/nextflow/samtools/samtools_sort/.config.vsh.yaml @@ -335,9 +335,9 @@ build_info: output: "target/nextflow/samtools/samtools_sort" executable: "target/nextflow/samtools/samtools_sort/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/samtools/samtools_sort/main.nf b/target/nextflow/samtools/samtools_sort/main.nf index e269b9f2..8202a1bf 100644 --- a/target/nextflow/samtools/samtools_sort/main.nf +++ b/target/nextflow/samtools/samtools_sort/main.nf @@ -3460,9 +3460,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/samtools/samtools_sort", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/samtools/samtools_stats/.config.vsh.yaml b/target/nextflow/samtools/samtools_stats/.config.vsh.yaml index 4db9eafc..d95f577a 100644 --- a/target/nextflow/samtools/samtools_stats/.config.vsh.yaml +++ b/target/nextflow/samtools/samtools_stats/.config.vsh.yaml @@ -404,9 +404,9 @@ build_info: output: "target/nextflow/samtools/samtools_stats" executable: "target/nextflow/samtools/samtools_stats/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/samtools/samtools_stats/main.nf b/target/nextflow/samtools/samtools_stats/main.nf index 00f50e56..ac2f2ae6 100644 --- a/target/nextflow/samtools/samtools_stats/main.nf +++ b/target/nextflow/samtools/samtools_stats/main.nf @@ -3530,9 +3530,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/samtools/samtools_stats", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/samtools/samtools_view/.config.vsh.yaml b/target/nextflow/samtools/samtools_view/.config.vsh.yaml index f281231b..ed95cc52 100644 --- a/target/nextflow/samtools/samtools_view/.config.vsh.yaml +++ b/target/nextflow/samtools/samtools_view/.config.vsh.yaml @@ -668,9 +668,9 @@ build_info: output: "target/nextflow/samtools/samtools_view" executable: "target/nextflow/samtools/samtools_view/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/samtools/samtools_view/main.nf b/target/nextflow/samtools/samtools_view/main.nf index 68ff5f34..a1530878 100644 --- a/target/nextflow/samtools/samtools_view/main.nf +++ b/target/nextflow/samtools/samtools_view/main.nf @@ -3711,9 +3711,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/samtools/samtools_view", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/seqtk/seqtk_sample/.config.vsh.yaml b/target/nextflow/seqtk/seqtk_sample/.config.vsh.yaml index a76aed02..2af213c0 100644 --- a/target/nextflow/seqtk/seqtk_sample/.config.vsh.yaml +++ b/target/nextflow/seqtk/seqtk_sample/.config.vsh.yaml @@ -176,9 +176,9 @@ build_info: output: "target/nextflow/seqtk/seqtk_sample" executable: "target/nextflow/seqtk/seqtk_sample/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/seqtk/seqtk_sample/main.nf b/target/nextflow/seqtk/seqtk_sample/main.nf index 483799d6..ac4d7cbe 100644 --- a/target/nextflow/seqtk/seqtk_sample/main.nf +++ b/target/nextflow/seqtk/seqtk_sample/main.nf @@ -3265,9 +3265,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/seqtk/seqtk_sample", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/seqtk/seqtk_subseq/.config.vsh.yaml b/target/nextflow/seqtk/seqtk_subseq/.config.vsh.yaml index 19cdb54f..f2ef68bc 100644 --- a/target/nextflow/seqtk/seqtk_subseq/.config.vsh.yaml +++ b/target/nextflow/seqtk/seqtk_subseq/.config.vsh.yaml @@ -199,9 +199,9 @@ build_info: output: "target/nextflow/seqtk/seqtk_subseq" executable: "target/nextflow/seqtk/seqtk_subseq/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/seqtk/seqtk_subseq/main.nf b/target/nextflow/seqtk/seqtk_subseq/main.nf index b366919c..d5172c0f 100644 --- a/target/nextflow/seqtk/seqtk_subseq/main.nf +++ b/target/nextflow/seqtk/seqtk_subseq/main.nf @@ -3295,9 +3295,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/seqtk/seqtk_subseq", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/sgdemux/.config.vsh.yaml b/target/nextflow/sgdemux/.config.vsh.yaml index 0e48c531..088271d8 100644 --- a/target/nextflow/sgdemux/.config.vsh.yaml +++ b/target/nextflow/sgdemux/.config.vsh.yaml @@ -432,9 +432,9 @@ build_info: output: "target/nextflow/sgdemux" executable: "target/nextflow/sgdemux/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/sgdemux/main.nf b/target/nextflow/sgdemux/main.nf index cb95dced..a5a0a5c5 100644 --- a/target/nextflow/sgdemux/main.nf +++ b/target/nextflow/sgdemux/main.nf @@ -3538,9 +3538,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/sgdemux", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/snpeff/.config.vsh.yaml b/target/nextflow/snpeff/.config.vsh.yaml index fe4fcb79..37d5c9c4 100644 --- a/target/nextflow/snpeff/.config.vsh.yaml +++ b/target/nextflow/snpeff/.config.vsh.yaml @@ -631,9 +631,9 @@ build_info: output: "target/nextflow/snpeff" executable: "target/nextflow/snpeff/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/snpeff/main.nf b/target/nextflow/snpeff/main.nf index be55883e..792c30a2 100644 --- a/target/nextflow/snpeff/main.nf +++ b/target/nextflow/snpeff/main.nf @@ -3790,9 +3790,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/snpeff", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/sortmerna/.config.vsh.yaml b/target/nextflow/sortmerna/.config.vsh.yaml index 68783c77..da269111 100644 --- a/target/nextflow/sortmerna/.config.vsh.yaml +++ b/target/nextflow/sortmerna/.config.vsh.yaml @@ -597,9 +597,9 @@ build_info: output: "target/nextflow/sortmerna" executable: "target/nextflow/sortmerna/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/sortmerna/main.nf b/target/nextflow/sortmerna/main.nf index 1de70e61..90399e99 100644 --- a/target/nextflow/sortmerna/main.nf +++ b/target/nextflow/sortmerna/main.nf @@ -3695,9 +3695,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/sortmerna", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/star/star_align_reads/.config.vsh.yaml b/target/nextflow/star/star_align_reads/.config.vsh.yaml index f05a813f..6ab1b5ea 100644 --- a/target/nextflow/star/star_align_reads/.config.vsh.yaml +++ b/target/nextflow/star/star_align_reads/.config.vsh.yaml @@ -2666,9 +2666,9 @@ build_info: output: "target/nextflow/star/star_align_reads" executable: "target/nextflow/star/star_align_reads/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/star/star_align_reads/main.nf b/target/nextflow/star/star_align_reads/main.nf index 845d9faa..2d3c5ee7 100644 --- a/target/nextflow/star/star_align_reads/main.nf +++ b/target/nextflow/star/star_align_reads/main.nf @@ -6178,9 +6178,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/star/star_align_reads", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/star/star_genome_generate/.config.vsh.yaml b/target/nextflow/star/star_genome_generate/.config.vsh.yaml index a3d3a324..6608f1d2 100644 --- a/target/nextflow/star/star_genome_generate/.config.vsh.yaml +++ b/target/nextflow/star/star_genome_generate/.config.vsh.yaml @@ -336,9 +336,9 @@ build_info: output: "target/nextflow/star/star_genome_generate" executable: "target/nextflow/star/star_genome_generate/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/star/star_genome_generate/main.nf b/target/nextflow/star/star_genome_generate/main.nf index a84bf6cd..635a67fb 100644 --- a/target/nextflow/star/star_genome_generate/main.nf +++ b/target/nextflow/star/star_genome_generate/main.nf @@ -3430,9 +3430,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/star/star_genome_generate", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/trimgalore/.config.vsh.yaml b/target/nextflow/trimgalore/.config.vsh.yaml index 296794ad..e5d39e63 100644 --- a/target/nextflow/trimgalore/.config.vsh.yaml +++ b/target/nextflow/trimgalore/.config.vsh.yaml @@ -773,9 +773,9 @@ build_info: output: "target/nextflow/trimgalore" executable: "target/nextflow/trimgalore/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/trimgalore/main.nf b/target/nextflow/trimgalore/main.nf index dacfdc3b..484acfb0 100644 --- a/target/nextflow/trimgalore/main.nf +++ b/target/nextflow/trimgalore/main.nf @@ -3795,9 +3795,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/trimgalore", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/umi_tools/umi_tools_dedup/.config.vsh.yaml b/target/nextflow/umi_tools/umi_tools_dedup/.config.vsh.yaml index d268cb7d..71ff2835 100644 --- a/target/nextflow/umi_tools/umi_tools_dedup/.config.vsh.yaml +++ b/target/nextflow/umi_tools/umi_tools_dedup/.config.vsh.yaml @@ -614,9 +614,9 @@ build_info: output: "target/nextflow/umi_tools/umi_tools_dedup" executable: "target/nextflow/umi_tools/umi_tools_dedup/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/umi_tools/umi_tools_dedup/main.nf b/target/nextflow/umi_tools/umi_tools_dedup/main.nf index 4e0c2739..6ed322ee 100644 --- a/target/nextflow/umi_tools/umi_tools_dedup/main.nf +++ b/target/nextflow/umi_tools/umi_tools_dedup/main.nf @@ -3722,9 +3722,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/umi_tools/umi_tools_dedup", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/umi_tools/umi_tools_extract/.config.vsh.yaml b/target/nextflow/umi_tools/umi_tools_extract/.config.vsh.yaml index 0fac1e2f..a3121e85 100644 --- a/target/nextflow/umi_tools/umi_tools_extract/.config.vsh.yaml +++ b/target/nextflow/umi_tools/umi_tools_extract/.config.vsh.yaml @@ -437,9 +437,9 @@ build_info: output: "target/nextflow/umi_tools/umi_tools_extract" executable: "target/nextflow/umi_tools/umi_tools_extract/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/umi_tools/umi_tools_extract/main.nf b/target/nextflow/umi_tools/umi_tools_extract/main.nf index 3b4950bf..533deea7 100644 --- a/target/nextflow/umi_tools/umi_tools_extract/main.nf +++ b/target/nextflow/umi_tools/umi_tools_extract/main.nf @@ -3534,9 +3534,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/umi_tools/umi_tools_extract", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox", diff --git a/target/nextflow/umi_tools/umi_tools_prepareforrsem/.config.vsh.yaml b/target/nextflow/umi_tools/umi_tools_prepareforrsem/.config.vsh.yaml index 0c3f2392..05f0a193 100644 --- a/target/nextflow/umi_tools/umi_tools_prepareforrsem/.config.vsh.yaml +++ b/target/nextflow/umi_tools/umi_tools_prepareforrsem/.config.vsh.yaml @@ -259,9 +259,9 @@ build_info: output: "target/nextflow/umi_tools/umi_tools_prepareforrsem" executable: "target/nextflow/umi_tools/umi_tools_prepareforrsem/main.nf" viash_version: "0.9.2" - git_commit: "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde" + git_commit: "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27" git_remote: "https://github.com/viash-hub/biobox" - git_tag: "v0.2.0-30-g5f6516e" + git_tag: "v0.2.0-31-g1efc026" package_config: name: "biobox" version: "main" diff --git a/target/nextflow/umi_tools/umi_tools_prepareforrsem/main.nf b/target/nextflow/umi_tools/umi_tools_prepareforrsem/main.nf index 6fbffff0..4821a36b 100644 --- a/target/nextflow/umi_tools/umi_tools_prepareforrsem/main.nf +++ b/target/nextflow/umi_tools/umi_tools_prepareforrsem/main.nf @@ -3356,9 +3356,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/umi_tools/umi_tools_prepareforrsem", "viash_version" : "0.9.2", - "git_commit" : "5f6516e9c0d95c84f3d4159a67d3de19d3ae1fde", + "git_commit" : "1efc0264ca674d8cff7729fcd0ad8f11ea06ee27", "git_remote" : "https://github.com/viash-hub/biobox", - "git_tag" : "v0.2.0-30-g5f6516e" + "git_tag" : "v0.2.0-31-g1efc026" }, "package_config" : { "name" : "biobox",