Build branch qualimap with version qualimap (1b0257c)

Build pipeline: viash-hub.biobox.qualimap-nnlnn Source commit: 1b0257c8bd Source message: write software version to file
2024-08-21 07:32:17 +00:00
parent 5817caa0f2
commit 8db201320c
182 changed files with 741 additions and 840 deletions
--- a/src/qualimap/qualimap_rnaseq/config.vsh.yaml
+++ b/src/qualimap/qualimap_rnaseq/config.vsh.yaml
@@ -97,7 +97,7 @@ engines:
    setup:   
      - type: docker
        run: |
-          echo QualiMap: $(qualimap 2>&1 | grep QualiMap | sed 's/^.*QualiMap//')
+          echo QualiMap: $(qualimap 2>&1 | grep QualiMap | sed 's/^.*QualiMap//') > /var/software_versions.txt
 runners: 
  - type: executable
  - type: nextflow
--- a/target/executable/agat/agat_convert_bed2gff/.config.vsh.yaml
+++ b/target/executable/agat/agat_convert_bed2gff/.config.vsh.yaml
@@ -235,7 +235,7 @@ build_info:
  output: "target/executable/agat/agat_convert_bed2gff"
  executable: "target/executable/agat/agat_convert_bed2gff/agat_convert_bed2gff"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/agat/agat_convert_bed2gff/agat_convert_bed2gff
+++ b/target/executable/agat/agat_convert_bed2gff/agat_convert_bed2gff
@@ -514,9 +514,9 @@ 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="2024-08-21T07:00:57Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:53Z"
 LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/agat/agat_convert_embl2gff/.config.vsh.yaml
+++ b/target/executable/agat/agat_convert_embl2gff/.config.vsh.yaml
@@ -225,7 +225,7 @@ build_info:
  output: "target/executable/agat/agat_convert_embl2gff"
  executable: "target/executable/agat/agat_convert_embl2gff/agat_convert_embl2gff"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/agat/agat_convert_embl2gff/agat_convert_embl2gff
+++ b/target/executable/agat/agat_convert_embl2gff/agat_convert_embl2gff
@@ -504,9 +504,9 @@ 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="2024-08-21T07:00:57Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:53Z"
 LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/agat/agat_convert_sp_gff2gtf/.config.vsh.yaml
+++ b/target/executable/agat/agat_convert_sp_gff2gtf/.config.vsh.yaml
@@ -228,7 +228,7 @@ build_info:
  output: "target/executable/agat/agat_convert_sp_gff2gtf"
  executable: "target/executable/agat/agat_convert_sp_gff2gtf/agat_convert_sp_gff2gtf"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/agat/agat_convert_sp_gff2gtf/agat_convert_sp_gff2gtf
+++ b/target/executable/agat/agat_convert_sp_gff2gtf/agat_convert_sp_gff2gtf
@@ -518,9 +518,9 @@ 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="2024-08-21T07:00:58Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:53Z"
 LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/agat/agat_convert_sp_gff2tsv/.config.vsh.yaml
+++ b/target/executable/agat/agat_convert_sp_gff2tsv/.config.vsh.yaml
@@ -188,7 +188,7 @@ build_info:
  output: "target/executable/agat/agat_convert_sp_gff2tsv"
  executable: "target/executable/agat/agat_convert_sp_gff2tsv/agat_convert_sp_gff2tsv"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/agat/agat_convert_sp_gff2tsv/agat_convert_sp_gff2tsv
+++ b/target/executable/agat/agat_convert_sp_gff2tsv/agat_convert_sp_gff2tsv
@@ -483,9 +483,9 @@ 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="2024-08-21T07:00:57Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:52Z"
 LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/agat/agat_convert_sp_gxf2gxf/.config.vsh.yaml
+++ b/target/executable/agat/agat_convert_sp_gxf2gxf/.config.vsh.yaml
@@ -195,7 +195,7 @@ build_info:
  output: "target/executable/agat/agat_convert_sp_gxf2gxf"
  executable: "target/executable/agat/agat_convert_sp_gxf2gxf/agat_convert_sp_gxf2gxf"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/agat/agat_convert_sp_gxf2gxf/agat_convert_sp_gxf2gxf
+++ b/target/executable/agat/agat_convert_sp_gxf2gxf/agat_convert_sp_gxf2gxf
@@ -492,9 +492,9 @@ 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="2024-08-21T07:00:56Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:52Z"
 LABEL org.opencontainers.image.source="https://github.com/NBISweden/AGAT"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/arriba/.config.vsh.yaml
+++ b/target/executable/arriba/.config.vsh.yaml
@@ -706,7 +706,7 @@ build_info:
  output: "target/executable/arriba"
  executable: "target/executable/arriba/arriba"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/arriba/arriba
+++ b/target/executable/arriba/arriba
@@ -753,9 +753,9 @@ 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="2024-08-21T07:00:59Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:54Z"
 LABEL org.opencontainers.image.source="https://github.com/suhrig/arriba"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/bcl_convert/.config.vsh.yaml
+++ b/target/executable/bcl_convert/.config.vsh.yaml
@@ -418,7 +418,7 @@ build_info:
  output: "target/executable/bcl_convert"
  executable: "target/executable/bcl_convert/bcl_convert"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/bcl_convert/bcl_convert
+++ b/target/executable/bcl_convert/bcl_convert
@@ -598,9 +598,9 @@ 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="2024-08-21T07:00:58Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:54Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/biobox"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/bd_rhapsody/bd_rhapsody_make_reference/.config.vsh.yaml
+++ b/target/executable/bd_rhapsody/bd_rhapsody_make_reference/.config.vsh.yaml
@@ -270,7 +270,7 @@ 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: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- 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
@@ -548,9 +548,9 @@ RUN echo "bdgenomics/rhapsody: 2.2.1" > /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="2024-08-21T07:01:01Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:57Z"
 LABEL org.opencontainers.image.source="https://bitbucket.org/CRSwDev/cwl/src/master/v2.2.1/Extra_Utilities/"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/bedtools/bedtools_bamtofastq/.config.vsh.yaml
+++ b/target/executable/bedtools/bedtools_bamtofastq/.config.vsh.yaml
@@ -187,7 +187,7 @@ build_info:
  output: "target/executable/bedtools/bedtools_bamtofastq"
  executable: "target/executable/bedtools/bedtools_bamtofastq/bedtools_bamtofastq"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/bedtools/bedtools_bamtofastq/bedtools_bamtofastq
+++ b/target/executable/bedtools/bedtools_bamtofastq/bedtools_bamtofastq
@@ -482,9 +482,9 @@ 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="2024-08-21T07:00:47Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:43Z"
 LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/bedtools/bedtools_bedtobam/.config.vsh.yaml
+++ b/target/executable/bedtools/bedtools_bedtobam/.config.vsh.yaml
@@ -214,7 +214,7 @@ build_info:
  output: "target/executable/bedtools/bedtools_bedtobam"
  executable: "target/executable/bedtools/bedtools_bedtobam/bedtools_bedtobam"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/bedtools/bedtools_bedtobam/bedtools_bedtobam
+++ b/target/executable/bedtools/bedtools_bedtobam/bedtools_bedtobam
@@ -495,9 +495,9 @@ 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="2024-08-21T07:00:48Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:43Z"
 LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/bedtools/bedtools_getfasta/.config.vsh.yaml
+++ b/target/executable/bedtools/bedtools_getfasta/.config.vsh.yaml
@@ -232,7 +232,7 @@ build_info:
  output: "target/executable/bedtools/bedtools_getfasta"
  executable: "target/executable/bedtools/bedtools_getfasta/bedtools_getfasta"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/bedtools/bedtools_getfasta/bedtools_getfasta
+++ b/target/executable/bedtools/bedtools_getfasta/bedtools_getfasta
@@ -525,9 +525,9 @@ 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="2024-08-21T07:00:47Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:42Z"
 LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/bedtools/bedtools_intersect/.config.vsh.yaml
+++ b/target/executable/bedtools/bedtools_intersect/.config.vsh.yaml
@@ -410,7 +410,7 @@ build_info:
  output: "target/executable/bedtools/bedtools_intersect"
  executable: "target/executable/bedtools/bedtools_intersect/bedtools_intersect"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/bedtools/bedtools_intersect/bedtools_intersect
+++ b/target/executable/bedtools/bedtools_intersect/bedtools_intersect
@@ -632,9 +632,9 @@ 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="2024-08-21T07:00:47Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:43Z"
 LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/bedtools/bedtools_sort/.config.vsh.yaml
+++ b/target/executable/bedtools/bedtools_sort/.config.vsh.yaml
@@ -222,7 +222,7 @@ build_info:
  output: "target/executable/bedtools/bedtools_sort"
  executable: "target/executable/bedtools/bedtools_sort/bedtools_sort"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/bedtools/bedtools_sort/bedtools_sort
+++ b/target/executable/bedtools/bedtools_sort/bedtools_sort
@@ -508,9 +508,9 @@ 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="2024-08-21T07:00:48Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:43Z"
 LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/busco/busco_download_datasets/.config.vsh.yaml
+++ b/target/executable/busco/busco_download_datasets/.config.vsh.yaml
@@ -158,7 +158,7 @@ build_info:
  output: "target/executable/busco/busco_download_datasets"
  executable: "target/executable/busco/busco_download_datasets/busco_download_datasets"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/busco/busco_download_datasets/busco_download_datasets
+++ b/target/executable/busco/busco_download_datasets/busco_download_datasets
@@ -474,9 +474,9 @@ 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="2024-08-21T07:00:55Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:51Z"
 LABEL org.opencontainers.image.source="https://gitlab.com/ezlab/busco"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/busco/busco_list_datasets/.config.vsh.yaml
+++ b/target/executable/busco/busco_list_datasets/.config.vsh.yaml
@@ -145,7 +145,7 @@ build_info:
  output: "target/executable/busco/busco_list_datasets"
  executable: "target/executable/busco/busco_list_datasets/busco_list_datasets"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/busco/busco_list_datasets/busco_list_datasets
+++ b/target/executable/busco/busco_list_datasets/busco_list_datasets
@@ -464,9 +464,9 @@ 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="2024-08-21T07:00:56Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:51Z"
 LABEL org.opencontainers.image.source="https://gitlab.com/ezlab/busco"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/busco/busco_run/.config.vsh.yaml
+++ b/target/executable/busco/busco_run/.config.vsh.yaml
@@ -423,7 +423,7 @@ build_info:
  output: "target/executable/busco/busco_run"
  executable: "target/executable/busco/busco_run/busco_run"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/busco/busco_run/busco_run
+++ b/target/executable/busco/busco_run/busco_run
@@ -631,9 +631,9 @@ 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="2024-08-21T07:00:56Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:52Z"
 LABEL org.opencontainers.image.source="https://gitlab.com/ezlab/busco"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/cutadapt/.config.vsh.yaml
+++ b/target/executable/cutadapt/.config.vsh.yaml
@@ -740,7 +740,7 @@ build_info:
  output: "target/executable/cutadapt"
  executable: "target/executable/cutadapt/cutadapt"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/cutadapt/cutadapt
+++ b/target/executable/cutadapt/cutadapt
@@ -830,9 +830,9 @@ 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="2024-08-21T07:01:00Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:56Z"
 LABEL org.opencontainers.image.source="https://github.com/marcelm/cutadapt"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/falco/.config.vsh.yaml
+++ b/target/executable/falco/.config.vsh.yaml
@@ -317,7 +317,7 @@ build_info:
  output: "target/executable/falco"
  executable: "target/executable/falco/falco"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/falco/falco
+++ b/target/executable/falco/falco
@@ -588,9 +588,9 @@ 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="2024-08-21T07:01:01Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:56Z"
 LABEL org.opencontainers.image.source="https://github.com/smithlabcode/falco"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/fastp/.config.vsh.yaml
+++ b/target/executable/fastp/.config.vsh.yaml
@@ -1083,7 +1083,7 @@ build_info:
  output: "target/executable/fastp"
  executable: "target/executable/fastp/fastp"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/fastp/fastp
+++ b/target/executable/fastp/fastp
@@ -1027,9 +1027,9 @@ 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="2024-08-21T07:00:58Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:53Z"
 LABEL org.opencontainers.image.source="https://github.com/OpenGene/fastp"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/featurecounts/.config.vsh.yaml
+++ b/target/executable/featurecounts/.config.vsh.yaml
@@ -645,7 +645,7 @@ build_info:
  output: "target/executable/featurecounts"
  executable: "target/executable/featurecounts/featurecounts"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/featurecounts/featurecounts
+++ b/target/executable/featurecounts/featurecounts
@@ -753,9 +753,9 @@ 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="2024-08-21T07:00:54Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:49Z"
 LABEL org.opencontainers.image.source="https://github.com/ShiLab-Bioinformatics/subread"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/gffread/.config.vsh.yaml
+++ b/target/executable/gffread/.config.vsh.yaml
@@ -685,7 +685,7 @@ build_info:
  output: "target/executable/gffread"
  executable: "target/executable/gffread/gffread"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/gffread/gffread
+++ b/target/executable/gffread/gffread
@@ -806,9 +806,9 @@ 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="2024-08-21T07:00:46Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:42Z"
 LABEL org.opencontainers.image.source="https://github.com/gpertea/gffread"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/lofreq/lofreq_call/.config.vsh.yaml
+++ b/target/executable/lofreq/lofreq_call/.config.vsh.yaml
@@ -507,7 +507,7 @@ build_info:
  output: "target/executable/lofreq/lofreq_call"
  executable: "target/executable/lofreq/lofreq_call/lofreq_call"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/lofreq/lofreq_call/lofreq_call
+++ b/target/executable/lofreq/lofreq_call/lofreq_call
@@ -655,9 +655,9 @@ 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="2024-08-21T07:00:53Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:49Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/biobox"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/lofreq/lofreq_indelqual/.config.vsh.yaml
+++ b/target/executable/lofreq/lofreq_indelqual/.config.vsh.yaml
@@ -215,7 +215,7 @@ build_info:
  output: "target/executable/lofreq/lofreq_indelqual"
  executable: "target/executable/lofreq/lofreq_indelqual/lofreq_indelqual"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/lofreq/lofreq_indelqual/lofreq_indelqual
+++ b/target/executable/lofreq/lofreq_indelqual/lofreq_indelqual
@@ -500,9 +500,9 @@ 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="2024-08-21T07:00:53Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:49Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/biobox"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/multiqc/.config.vsh.yaml
+++ b/target/executable/multiqc/.config.vsh.yaml
@@ -456,7 +456,7 @@ build_info:
  output: "target/executable/multiqc"
  executable: "target/executable/multiqc/multiqc"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/multiqc/multiqc
+++ b/target/executable/multiqc/multiqc
@@ -636,9 +636,9 @@ 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="2024-08-21T07:01:00Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:56Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/biobox"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/pear/.config.vsh.yaml
+++ b/target/executable/pear/.config.vsh.yaml
@@ -398,7 +398,7 @@ build_info:
  output: "target/executable/pear"
  executable: "target/executable/pear/pear"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/pear/pear
+++ b/target/executable/pear/pear
@@ -596,9 +596,9 @@ 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="2024-08-21T07:00:48Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:44Z"
 LABEL org.opencontainers.image.source="https://github.com/tseemann/PEAR"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/qualimap/qualimap_rnaseq/.config.vsh.yaml
+++ b/target/executable/qualimap/qualimap_rnaseq/.config.vsh.yaml
@@ -252,7 +252,7 @@ engines:
  setup:
  - type: "docker"
    run:
-    - "echo QualiMap: $(qualimap 2>&1 | grep QualiMap | sed 's/^.*QualiMap//')\n"
+    - "echo QualiMap: $(qualimap 2>&1 | grep QualiMap | sed 's/^.*QualiMap//') > /var/software_versions.txt\n"
  entrypoint: []
  cmd: null
 - type: "native"
@@ -264,7 +264,7 @@ build_info:
  output: "target/executable/qualimap/qualimap_rnaseq"
  executable: "target/executable/qualimap/qualimap_rnaseq/qualimap_rnaseq"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/qualimap/qualimap_rnaseq/qualimap_rnaseq
+++ b/target/executable/qualimap/qualimap_rnaseq/qualimap_rnaseq
@@ -522,13 +522,13 @@ function ViashDockerfile {
    cat << 'VIASHDOCKER'
 FROM quay.io/biocontainers/qualimap:2.3--hdfd78af_0
 ENTRYPOINT []
-RUN echo QualiMap: $(qualimap 2>&1 | grep QualiMap | sed 's/^.*QualiMap//')
+RUN echo QualiMap: $(qualimap 2>&1 | grep QualiMap | sed 's/^.*QualiMap//') > /var/software_versions.txt

 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="2024-08-21T07:00:52Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:48Z"
 LABEL org.opencontainers.image.source="https://bitbucket.org/kokonech/qualimap/commits/branch/master"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/salmon/salmon_index/.config.vsh.yaml
+++ b/target/executable/salmon/salmon_index/.config.vsh.yaml
@@ -277,7 +277,7 @@ build_info:
  output: "target/executable/salmon/salmon_index"
  executable: "target/executable/salmon/salmon_index/salmon_index"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/salmon/salmon_index/salmon_index
+++ b/target/executable/salmon/salmon_index/salmon_index
@@ -545,9 +545,9 @@ 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="2024-08-21T07:00:59Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:55Z"
 LABEL org.opencontainers.image.source="https://github.com/COMBINE-lab/salmon"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/salmon/salmon_quant/.config.vsh.yaml
+++ b/target/executable/salmon/salmon_quant/.config.vsh.yaml
@@ -1173,7 +1173,7 @@ build_info:
  output: "target/executable/salmon/salmon_quant"
  executable: "target/executable/salmon/salmon_quant/salmon_quant"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/salmon/salmon_quant/salmon_quant
+++ b/target/executable/salmon/salmon_quant/salmon_quant
@@ -1167,9 +1167,9 @@ 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="2024-08-21T07:00:59Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:55Z"
 LABEL org.opencontainers.image.source="https://github.com/COMBINE-lab/salmon"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/samtools/samtools_collate/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_collate/.config.vsh.yaml
@@ -264,7 +264,7 @@ build_info:
  output: "target/executable/samtools/samtools_collate"
  executable: "target/executable/samtools/samtools_collate/samtools_collate"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/samtools/samtools_collate/samtools_collate
+++ b/target/executable/samtools/samtools_collate/samtools_collate
@@ -518,9 +518,9 @@ 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="2024-08-21T07:00:51Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:46Z"
 LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/samtools/samtools_faidx/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_faidx/.config.vsh.yaml
@@ -243,7 +243,7 @@ build_info:
  output: "target/executable/samtools/samtools_faidx"
  executable: "target/executable/samtools/samtools_faidx/samtools_faidx"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/samtools/samtools_faidx/samtools_faidx
+++ b/target/executable/samtools/samtools_faidx/samtools_faidx
@@ -511,9 +511,9 @@ 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="2024-08-21T07:00:50Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:46Z"
 LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/samtools/samtools_fasta/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_fasta/.config.vsh.yaml
@@ -433,7 +433,7 @@ build_info:
  output: "target/executable/samtools/samtools_fasta"
  executable: "target/executable/samtools/samtools_fasta/samtools_fasta"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/samtools/samtools_fasta/samtools_fasta
+++ b/target/executable/samtools/samtools_fasta/samtools_fasta
@@ -624,9 +624,9 @@ 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="2024-08-21T07:00:51Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:47Z"
 LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/samtools/samtools_fastq/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_fastq/.config.vsh.yaml
@@ -433,7 +433,7 @@ build_info:
  output: "target/executable/samtools/samtools_fastq"
  executable: "target/executable/samtools/samtools_fastq/samtools_fastq"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/samtools/samtools_fastq/samtools_fastq
+++ b/target/executable/samtools/samtools_fastq/samtools_fastq
@@ -625,9 +625,9 @@ 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="2024-08-21T07:00:50Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:45Z"
 LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/samtools/samtools_flagstat/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_flagstat/.config.vsh.yaml
@@ -173,7 +173,7 @@ build_info:
  output: "target/executable/samtools/samtools_flagstat"
  executable: "target/executable/samtools/samtools_flagstat/samtools_flagstat"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/samtools/samtools_flagstat/samtools_flagstat
+++ b/target/executable/samtools/samtools_flagstat/samtools_flagstat
@@ -473,9 +473,9 @@ 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="2024-08-21T07:00:50Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:45Z"
 LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/samtools/samtools_idxstats/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_idxstats/.config.vsh.yaml
@@ -183,7 +183,7 @@ build_info:
  output: "target/executable/samtools/samtools_idxstats"
  executable: "target/executable/samtools/samtools_idxstats/samtools_idxstats"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/samtools/samtools_idxstats/samtools_idxstats
+++ b/target/executable/samtools/samtools_idxstats/samtools_idxstats
@@ -477,9 +477,9 @@ 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="2024-08-21T07:00:49Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:44Z"
 LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/samtools/samtools_index/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_index/.config.vsh.yaml
@@ -189,7 +189,7 @@ build_info:
  output: "target/executable/samtools/samtools_index"
  executable: "target/executable/samtools/samtools_index/samtools_index"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/samtools/samtools_index/samtools_index
+++ b/target/executable/samtools/samtools_index/samtools_index
@@ -484,9 +484,9 @@ 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="2024-08-21T07:00:49Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:44Z"
 LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/samtools/samtools_sort/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_sort/.config.vsh.yaml
@@ -332,7 +332,7 @@ build_info:
  output: "target/executable/samtools/samtools_sort"
  executable: "target/executable/samtools/samtools_sort/samtools_sort"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/samtools/samtools_sort/samtools_sort
+++ b/target/executable/samtools/samtools_sort/samtools_sort
@@ -555,9 +555,9 @@ 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="2024-08-21T07:00:51Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:47Z"
 LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/samtools/samtools_stats/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_stats/.config.vsh.yaml
@@ -401,7 +401,7 @@ build_info:
  output: "target/executable/samtools/samtools_stats"
  executable: "target/executable/samtools/samtools_stats/samtools_stats"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/samtools/samtools_stats/samtools_stats
+++ b/target/executable/samtools/samtools_stats/samtools_stats
@@ -574,9 +574,9 @@ 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="2024-08-21T07:00:52Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:47Z"
 LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/samtools/samtools_view/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_view/.config.vsh.yaml
@@ -665,7 +665,7 @@ build_info:
  output: "target/executable/samtools/samtools_view"
  executable: "target/executable/samtools/samtools_view/samtools_view"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/samtools/samtools_view/samtools_view
+++ b/target/executable/samtools/samtools_view/samtools_view
@@ -824,9 +824,9 @@ 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="2024-08-21T07:00:49Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:45Z"
 LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/seqtk/seqtk_sample/.config.vsh.yaml
+++ b/target/executable/seqtk/seqtk_sample/.config.vsh.yaml
@@ -173,7 +173,7 @@ build_info:
  output: "target/executable/seqtk/seqtk_sample"
  executable: "target/executable/seqtk/seqtk_sample/seqtk_sample"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/seqtk/seqtk_sample/seqtk_sample
+++ b/target/executable/seqtk/seqtk_sample/seqtk_sample
@@ -480,9 +480,9 @@ 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="2024-08-21T07:01:02Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:57Z"
 LABEL org.opencontainers.image.source="https://github.com/lh3/seqtk/tree/v1.4"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/seqtk/seqtk_subseq/.config.vsh.yaml
+++ b/target/executable/seqtk/seqtk_subseq/.config.vsh.yaml
@@ -196,7 +196,7 @@ build_info:
  output: "target/executable/seqtk/seqtk_subseq"
  executable: "target/executable/seqtk/seqtk_subseq/seqtk_subseq"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/seqtk/seqtk_subseq/seqtk_subseq
+++ b/target/executable/seqtk/seqtk_subseq/seqtk_subseq
@@ -490,9 +490,9 @@ 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="2024-08-21T07:01:01Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:57Z"
 LABEL org.opencontainers.image.source="https://github.com/lh3/seqtk/tree/v1.4"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/star/star_align_reads/.config.vsh.yaml
+++ b/target/executable/star/star_align_reads/.config.vsh.yaml
@@ -2663,7 +2663,7 @@ build_info:
  output: "target/executable/star/star_align_reads"
  executable: "target/executable/star/star_align_reads/star_align_reads"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/star/star_align_reads/star_align_reads
+++ b/target/executable/star/star_align_reads/star_align_reads
@@ -1919,9 +1919,9 @@ 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="2024-08-21T07:00:55Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:50Z"
 LABEL org.opencontainers.image.source="https://github.com/alexdobin/STAR"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/star/star_genome_generate/.config.vsh.yaml
+++ b/target/executable/star/star_genome_generate/.config.vsh.yaml
@@ -333,7 +333,7 @@ build_info:
  output: "target/executable/star/star_genome_generate"
  executable: "target/executable/star/star_genome_generate/star_genome_generate"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/star/star_genome_generate/star_genome_generate
+++ b/target/executable/star/star_genome_generate/star_genome_generate
@@ -576,9 +576,9 @@ 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="2024-08-21T07:00:54Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:50Z"
 LABEL org.opencontainers.image.source="https://github.com/alexdobin/STAR"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/umi_tools/umi_tools_dedup/.config.vsh.yaml
+++ b/target/executable/umi_tools/umi_tools_dedup/.config.vsh.yaml
@@ -611,7 +611,7 @@ build_info:
  output: "target/executable/umi_tools/umi_tools_dedup"
  executable: "target/executable/umi_tools/umi_tools_dedup/umi_tools_dedup"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/umi_tools/umi_tools_dedup/umi_tools_dedup
+++ b/target/executable/umi_tools/umi_tools_dedup/umi_tools_dedup
@@ -769,9 +769,9 @@ 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="2024-08-21T07:00:53Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:48Z"
 LABEL org.opencontainers.image.source="https://github.com/CGATOxford/UMI-tools"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/executable/umi_tools/umi_tools_extract/.config.vsh.yaml
+++ b/target/executable/umi_tools/umi_tools_extract/.config.vsh.yaml
@@ -449,7 +449,7 @@ build_info:
  output: "target/executable/umi_tools/umi_tools_extract"
  executable: "target/executable/umi_tools/umi_tools_extract/umi_tools_extract"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/executable/umi_tools/umi_tools_extract/umi_tools_extract
+++ b/target/executable/umi_tools/umi_tools_extract/umi_tools_extract
@@ -636,9 +636,9 @@ 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="2024-08-21T07:00:52Z"
+LABEL org.opencontainers.image.created="2024-08-21T07:17:48Z"
 LABEL org.opencontainers.image.source="https://github.com/CGATOxford/UMI-tools"
-LABEL org.opencontainers.image.revision="c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+LABEL org.opencontainers.image.revision="1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
 LABEL org.opencontainers.image.version="qualimap"

 VIASHDOCKER
--- a/target/nextflow/agat/agat_convert_bed2gff/.config.vsh.yaml
+++ b/target/nextflow/agat/agat_convert_bed2gff/.config.vsh.yaml
@@ -235,7 +235,7 @@ build_info:
  output: "target/nextflow/agat/agat_convert_bed2gff"
  executable: "target/nextflow/agat/agat_convert_bed2gff/main.nf"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/nextflow/agat/agat_convert_bed2gff/main.nf
+++ b/target/nextflow/agat/agat_convert_bed2gff/main.nf
@@ -3066,7 +3066,7 @@ meta = [
    "engine" : "docker|native",
    "output" : "target/nextflow/agat/agat_convert_bed2gff",
    "viash_version" : "0.9.0-RC6",
-    "git_commit" : "c407a88b173a2a25054ac2ee7e2abdd639d7efc4",
+    "git_commit" : "1b0257c8bd57bdf0b9a8e993437f54750c79dce2",
    "git_remote" : "https://github.com/viash-hub/biobox"
  },
  "package_config" : {
--- a/target/nextflow/agat/agat_convert_embl2gff/.config.vsh.yaml
+++ b/target/nextflow/agat/agat_convert_embl2gff/.config.vsh.yaml
@@ -225,7 +225,7 @@ build_info:
  output: "target/nextflow/agat/agat_convert_embl2gff"
  executable: "target/nextflow/agat/agat_convert_embl2gff/main.nf"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/nextflow/agat/agat_convert_embl2gff/main.nf
+++ b/target/nextflow/agat/agat_convert_embl2gff/main.nf
@@ -3059,7 +3059,7 @@ meta = [
    "engine" : "docker|native",
    "output" : "target/nextflow/agat/agat_convert_embl2gff",
    "viash_version" : "0.9.0-RC6",
-    "git_commit" : "c407a88b173a2a25054ac2ee7e2abdd639d7efc4",
+    "git_commit" : "1b0257c8bd57bdf0b9a8e993437f54750c79dce2",
    "git_remote" : "https://github.com/viash-hub/biobox"
  },
  "package_config" : {
--- a/target/nextflow/agat/agat_convert_sp_gff2gtf/.config.vsh.yaml
+++ b/target/nextflow/agat/agat_convert_sp_gff2gtf/.config.vsh.yaml
@@ -228,7 +228,7 @@ build_info:
  output: "target/nextflow/agat/agat_convert_sp_gff2gtf"
  executable: "target/nextflow/agat/agat_convert_sp_gff2gtf/main.nf"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/nextflow/agat/agat_convert_sp_gff2gtf/main.nf
+++ b/target/nextflow/agat/agat_convert_sp_gff2gtf/main.nf
@@ -3042,7 +3042,7 @@ meta = [
    "engine" : "docker|native",
    "output" : "target/nextflow/agat/agat_convert_sp_gff2gtf",
    "viash_version" : "0.9.0-RC6",
-    "git_commit" : "c407a88b173a2a25054ac2ee7e2abdd639d7efc4",
+    "git_commit" : "1b0257c8bd57bdf0b9a8e993437f54750c79dce2",
    "git_remote" : "https://github.com/viash-hub/biobox"
  },
  "package_config" : {
--- a/target/nextflow/agat/agat_convert_sp_gff2tsv/.config.vsh.yaml
+++ b/target/nextflow/agat/agat_convert_sp_gff2tsv/.config.vsh.yaml
@@ -188,7 +188,7 @@ build_info:
  output: "target/nextflow/agat/agat_convert_sp_gff2tsv"
  executable: "target/nextflow/agat/agat_convert_sp_gff2tsv/main.nf"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/nextflow/agat/agat_convert_sp_gff2tsv/main.nf
+++ b/target/nextflow/agat/agat_convert_sp_gff2tsv/main.nf
@@ -3020,7 +3020,7 @@ meta = [
    "engine" : "docker|native",
    "output" : "target/nextflow/agat/agat_convert_sp_gff2tsv",
    "viash_version" : "0.9.0-RC6",
-    "git_commit" : "c407a88b173a2a25054ac2ee7e2abdd639d7efc4",
+    "git_commit" : "1b0257c8bd57bdf0b9a8e993437f54750c79dce2",
    "git_remote" : "https://github.com/viash-hub/biobox"
  },
  "package_config" : {
--- a/target/nextflow/agat/agat_convert_sp_gxf2gxf/.config.vsh.yaml
+++ b/target/nextflow/agat/agat_convert_sp_gxf2gxf/.config.vsh.yaml
@@ -195,7 +195,7 @@ build_info:
  output: "target/nextflow/agat/agat_convert_sp_gxf2gxf"
  executable: "target/nextflow/agat/agat_convert_sp_gxf2gxf/main.nf"
  viash_version: "0.9.0-RC6"
-  git_commit: "c407a88b173a2a25054ac2ee7e2abdd639d7efc4"
+  git_commit: "1b0257c8bd57bdf0b9a8e993437f54750c79dce2"
  git_remote: "https://github.com/viash-hub/biobox"
 package_config:
  name: "biobox"
--- a/target/nextflow/agat/agat_convert_sp_gxf2gxf/main.nf
+++ b/target/nextflow/agat/agat_convert_sp_gxf2gxf/main.nf
@@ -3020,7 +3020,7 @@ meta = [
    "engine" : "docker|native",
    "output" : "target/nextflow/agat/agat_convert_sp_gxf2gxf",
    "viash_version" : "0.9.0-RC6",
-    "git_commit" : "c407a88b173a2a25054ac2ee7e2abdd639d7efc4",
+    "git_commit" : "1b0257c8bd57bdf0b9a8e993437f54750c79dce2",
    "git_remote" : "https://github.com/viash-hub/biobox"
  },
  "package_config" : {
--- a/target/nextflow/agat/agat_convert_sp_gxf2gxf/nextflow_schema.json
+++ b/target/nextflow/agat/agat_convert_sp_gxf2gxf/nextflow_schema.json
@@ -1,119 +0,0 @@
-{
-"$schema": "http://json-schema.org/draft-07/schema",
-"title": "agat_convert_sp_gxf2gxf",
-"description": "This script fixes and/or standardizes any GTF/GFF file into full sorted\nGTF/GFF file. It AGAT parser removes duplicate features, fixes\nduplicated IDs, adds missing ID and/or Parent attributes, deflates\nfactorized attributes (attributes with several parents are duplicated\nwith uniq ID), add missing features when possible (e.g. add exon if only\nCDS described, add UTR if CDS and exon described), fix feature locations\n(e.g. check exon is embedded in the parent features mRNA, gene), etc...\n\nAll AGAT\u0027s scripts with the _sp_ prefix use the AGAT parser, before to\nperform any supplementary task. So, it is not necessary to run this\nscript prior the use of any other _sp_ script.\n",
-"type": "object",
-"definitions": {
-
-    
-    
-    "inputs" : {
-    "title": "Inputs",
-    "type": "object",
-    "description": "No description",
-    "properties": {
-    
-        
-                "gxf": {
-                "type":
-                "string",
-                "description": "Type: `file`, required, example: `input.gff`. String - Input GTF/GFF file",
-                "help_text": "Type: `file`, required, example: `input.gff`. String - Input GTF/GFF file. Compressed file with .gz extension is accepted.\n"
-            
-            }
-    
-
-}
-},
-    
-    
-    "outputs" : {
-    "title": "Outputs",
-    "type": "object",
-    "description": "No description",
-    "properties": {
-    
-        
-                "output": {
-                "type":
-                "string",
-                "description": "Type: `file`, required, default: `$id.$key.output.gff`, example: `output.gff`. String - Output GFF file",
-                "help_text": "Type: `file`, required, default: `$id.$key.output.gff`, example: `output.gff`. String - Output GFF file. If no output file is specified, the output will be written to STDOUT.\n"
-            ,
-                "default": "$id.$key.output.gff"
-            }
-    
-
-}
-},
-    
-    
-    "arguments" : {
-    "title": "Arguments",
-    "type": "object",
-    "description": "No description",
-    "properties": {
-    
-        
-                "config": {
-                "type":
-                "string",
-                "description": "Type: `file`, example: `custom_agat_config.yaml`. String - Input agat config file",
-                "help_text": "Type: `file`, example: `custom_agat_config.yaml`. String - Input agat config file. By default AGAT takes as input agat_config.yaml file from the working directory if any, otherwise it takes the original agat_config.yaml shipped with AGAT. To get the agat_config.yaml locally type: \"agat config --expose\". The --config option gives you the possibility to use your own AGAT config file (located elsewhere or named differently).\n"
-            
-            }
-    
-
-}
-},
-    
-    
-    "nextflow input-output arguments" : {
-    "title": "Nextflow input-output arguments",
-    "type": "object",
-    "description": "Input/output parameters for Nextflow itself. Please note that both publishDir and publish_dir are supported but at least one has to be configured.",
-    "properties": {
-    
-        
-                "publish_dir": {
-                "type":
-                "string",
-                "description": "Type: `string`, required, example: `output/`. Path to an output directory",
-                "help_text": "Type: `string`, required, example: `output/`. Path to an output directory."
-            
-            }
-    
-
-        ,
-                "param_list": {
-                "type":
-                "string",
-                "description": "Type: `string`, example: `my_params.yaml`. Allows inputting multiple parameter sets to initialise a Nextflow channel",
-                "help_text": "Type: `string`, example: `my_params.yaml`. Allows inputting multiple parameter sets to initialise a Nextflow channel. A `param_list` can either be a list of maps, a csv file, a json file, a yaml file, or simply a yaml blob.\n\n* A list of maps (as-is) where the keys of each map corresponds to the arguments of the pipeline. Example: in a `nextflow.config` file: `param_list: [ [\u0027id\u0027: \u0027foo\u0027, \u0027input\u0027: \u0027foo.txt\u0027], [\u0027id\u0027: \u0027bar\u0027, \u0027input\u0027: \u0027bar.txt\u0027] ]`.\n* A csv file should have column names which correspond to the different arguments of this pipeline. Example: `--param_list data.csv` with columns `id,input`.\n* A json or a yaml file should be a list of maps, each of which has keys corresponding to the arguments of the pipeline. Example: `--param_list data.json` with contents `[ {\u0027id\u0027: \u0027foo\u0027, \u0027input\u0027: \u0027foo.txt\u0027}, {\u0027id\u0027: \u0027bar\u0027, \u0027input\u0027: \u0027bar.txt\u0027} ]`.\n* A yaml blob can also be passed directly as a string. Example: `--param_list \"[ {\u0027id\u0027: \u0027foo\u0027, \u0027input\u0027: \u0027foo.txt\u0027}, {\u0027id\u0027: \u0027bar\u0027, \u0027input\u0027: \u0027bar.txt\u0027} ]\"`.\n\nWhen passing a csv, json or yaml file, relative path names are relativized to the location of the parameter file. No relativation is performed when `param_list` is a list of maps (as-is) or a yaml blob.",
-                "hidden": true
-            
-            }
-    
-
-}
-}
-},
-"allOf": [
-
-    {
-    "$ref": "#/definitions/inputs"
-    },
-
-    {
-    "$ref": "#/definitions/outputs"
-    },
-
-    {
-    "$ref": "#/definitions/arguments"
-    },
-
-    {
-    "$ref": "#/definitions/nextflow input-output arguments"
-    }
-]
-}
--- a/Show More
+++ b/Show More