diff --git a/src/qualimap/qualimap_rnaseq/test.sh b/src/qualimap/qualimap_rnaseq/test.sh
old mode 100644
new mode 100755
index 2a946ed3..a0117122
--- a/src/qualimap/qualimap_rnaseq/test.sh
+++ b/src/qualimap/qualimap_rnaseq/test.sh
@@ -1,5 +1,22 @@
set -e
+#############################################
+# helper functions
+assert_file_exists() {
+ [ -f "$1" ] || { echo "File '$1' does not exist" && exit 1; }
+}
+assert_file_doesnt_exist() {
+ [ ! -f "$1" ] || { echo "File '$1' exists but shouldn't" && exit 1; }
+}
+assert_file_not_empty() {
+ [ -s "$1" ] || { echo "File '$1' is empty but shouldn't be" && exit 1; }
+}
+assert_file_contains() {
+ grep -q "$2" "$1" || { echo "File '$1' does not contain '$2'" && exit 1; }
+}
+#############################################
+
+
test_dir="$meta_resources_dir/test_data"
mkdir "run_qualimap_rnaseq_html"
@@ -15,14 +32,33 @@ echo "> Running qualimap with html output report"
--output output.txt
echo ">> Checking output"
-[ ! -f "report.html" ] && echo "report.html does not exist" && exit 1
-[ ! -f "counts.txt" ] && echo "counts.txt does not exist" && exit 1
-[ ! -f "output.txt" ] && echo "output.txt does not exist" && exit 1
+assert_file_exists "report.html"
+assert_file_exists "counts.txt"
+assert_file_exists "output.txt"
+assert_file_doesnt_exist "report.pdf"
echo ">> Checking if output is empty"
-[ ! -s "report.html" ] && echo "report.html is empty" && exit 1
-[ ! -s "counts.txt" ] && echo "counts.txt is empty" && exit 1
-[ ! -s "output.txt" ] && echo "output.txt is empty" && exit 1
+assert_file_not_empty "report.html"
+assert_file_not_empty "counts.txt"
+assert_file_not_empty "output.txt"
+
+echo ">> Checking output contents"
+assert_file_contains "output.txt" ">>>>>>> Input"
+assert_file_contains "output.txt" ">>>>>>> Reads alignment"
+assert_file_contains "output.txt" ">>>>>>> Reads genomic origin"
+assert_file_contains "output.txt" ">>>>>>> Transcript coverage profile"
+assert_file_contains "output.txt" ">>>>>>> Junction analysis"
+assert_file_contains "output.txt" ">>>>>>> Transcript coverage profile"
+
+assert_file_contains "counts.txt" "ENSG00000125841.12"
+
+assert_file_contains "report.html" "Qualimap report: RNA Seq QC"
+assert_file_contains "report.html" "Input
"
+assert_file_contains "report.html" "Reads alignment
"
+assert_file_contains "report.html" "Reads genomic origin
"
+assert_file_contains "report.html" "Transcript coverage profile
"
+assert_file_contains "report.html" "Junction analysis
"
+
cd ..
rm -r run_qualimap_rnaseq_html
@@ -40,14 +76,15 @@ echo "> Running qualimap with pdf output report"
--output output.txt
echo ">> Checking output"
-[ ! -f "report.pdf" ] && echo "report.pdf does not exist" && exit 1
-[ ! -f "counts.txt" ] && echo "counts.txt does not exist" && exit 1
-[ ! -f "output.txt" ] && echo "output.txt does not exist" && exit 1
+assert_file_exists "report.pdf"
+assert_file_exists "counts.txt"
+assert_file_exists "output.txt"
+assert_file_doesnt_exist "report.html"
echo ">> Checking if output is empty"
-[ ! -s "report.pdf" ] && echo "report.pdf is empty" && exit 1
-[ ! -s "counts.txt" ] && echo "counts.txt is empty" && exit 1
-[ ! -s "output.txt" ] && echo "output.txt is empty" && exit 1
+assert_file_not_empty "report.pdf"
+assert_file_not_empty "counts.txt"
+assert_file_not_empty "output.txt"
cd ..
rm -r run_qualimap_rnaseq_pdf
@@ -63,12 +100,13 @@ echo "> Running qualimap without report and counts output"
--output output.txt
echo ">> Checking output"
-[ -f "report.pdf" ] && echo "report.pdf exists" && exit 1
-[ -f "counts.txt" ] && echo "counts.txt exists" && exit 1
-[ ! -f "output.txt" ] && echo "output.txt does not exist" && exit 1
+assert_file_doesnt_exist "report.pdf"
+assert_file_doesnt_exist "report.html"
+assert_file_doesnt_exist "counts.txt"
+assert_file_exists "output.txt"
echo ">> Checking if output is empty"
-[ ! -s "output.txt" ] && echo "output.txt is empty" && exit 1
+assert_file_not_empty "output.txt"
cd ..
rm -r run_qualimap_rnaseq
\ No newline at end of file
diff --git a/target/executable/arriba/.config.vsh.yaml b/target/executable/arriba/.config.vsh.yaml
index f909bb2c..d51e25e5 100644
--- a/target/executable/arriba/.config.vsh.yaml
+++ b/target/executable/arriba/.config.vsh.yaml
@@ -688,7 +688,7 @@ build_info:
output: "target/executable/arriba"
executable: "target/executable/arriba/arriba"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/arriba/arriba b/target/executable/arriba/arriba
index 033454b9..ebee0fe0 100755
--- a/target/executable/arriba/arriba
+++ b/target/executable/arriba/arriba
@@ -749,9 +749,9 @@ ENTRYPOINT []
RUN arriba -h | grep 'Version:' 2>&1 | sed 's/Version:\s\(.*\)/arriba: "\1"/' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component arriba"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:51Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:19Z"
LABEL org.opencontainers.image.source="https://github.com/suhrig/arriba"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/bcl_convert/.config.vsh.yaml b/target/executable/bcl_convert/.config.vsh.yaml
index 26ff3b99..86b16674 100644
--- a/target/executable/bcl_convert/.config.vsh.yaml
+++ b/target/executable/bcl_convert/.config.vsh.yaml
@@ -386,7 +386,7 @@ build_info:
output: "target/executable/bcl_convert"
executable: "target/executable/bcl_convert/bcl_convert"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/bcl_convert/bcl_convert b/target/executable/bcl_convert/bcl_convert
index 77eefbae..30a3ca50 100755
--- a/target/executable/bcl_convert/bcl_convert
+++ b/target/executable/bcl_convert/bcl_convert
@@ -593,9 +593,9 @@ rm /tmp/bcl-convert.rpm
RUN echo "bcl-convert: \"$(bcl-convert -V 2>&1 >/dev/null | sed -n '/Version/ s/^bcl-convert\ Version //p')\"" > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component bcl_convert"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:52Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:19Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/biobox"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/bedtools/bedtools_getfasta/.config.vsh.yaml b/target/executable/bedtools/bedtools_getfasta/.config.vsh.yaml
index fcb4847b..971ed1bc 100644
--- a/target/executable/bedtools/bedtools_getfasta/.config.vsh.yaml
+++ b/target/executable/bedtools/bedtools_getfasta/.config.vsh.yaml
@@ -217,7 +217,7 @@ build_info:
output: "target/executable/bedtools/bedtools_getfasta"
executable: "target/executable/bedtools/bedtools_getfasta/bedtools_getfasta"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/bedtools/bedtools_getfasta/bedtools_getfasta b/target/executable/bedtools/bedtools_getfasta/bedtools_getfasta
index f95697f4..d404496a 100755
--- a/target/executable/bedtools/bedtools_getfasta/bedtools_getfasta
+++ b/target/executable/bedtools/bedtools_getfasta/bedtools_getfasta
@@ -521,9 +521,9 @@ RUN apt-get update && \
RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_getfasta"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:53Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:21Z"
LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/busco/busco_download_datasets/.config.vsh.yaml b/target/executable/busco/busco_download_datasets/.config.vsh.yaml
index ede1a2bd..f2e38c3f 100644
--- a/target/executable/busco/busco_download_datasets/.config.vsh.yaml
+++ b/target/executable/busco/busco_download_datasets/.config.vsh.yaml
@@ -144,7 +144,7 @@ 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: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/busco/busco_download_datasets/busco_download_datasets b/target/executable/busco/busco_download_datasets/busco_download_datasets
index 2a834f5e..56cf29d9 100755
--- a/target/executable/busco/busco_download_datasets/busco_download_datasets
+++ b/target/executable/busco/busco_download_datasets/busco_download_datasets
@@ -470,9 +470,9 @@ ENTRYPOINT []
RUN busco --version | sed 's/BUSCO\s\(.*\)/busco: "\1"/' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component busco busco_download_datasets"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:50Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:17Z"
LABEL org.opencontainers.image.source="https://gitlab.com/ezlab/busco"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/busco/busco_list_datasets/.config.vsh.yaml b/target/executable/busco/busco_list_datasets/.config.vsh.yaml
index cc8cf880..2c8bd328 100644
--- a/target/executable/busco/busco_list_datasets/.config.vsh.yaml
+++ b/target/executable/busco/busco_list_datasets/.config.vsh.yaml
@@ -131,7 +131,7 @@ 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: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/busco/busco_list_datasets/busco_list_datasets b/target/executable/busco/busco_list_datasets/busco_list_datasets
index a7141a0a..c48cf75e 100755
--- a/target/executable/busco/busco_list_datasets/busco_list_datasets
+++ b/target/executable/busco/busco_list_datasets/busco_list_datasets
@@ -460,9 +460,9 @@ ENTRYPOINT []
RUN busco --version | sed 's/BUSCO\s\(.*\)/busco: "\1"/' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component busco busco_list_datasets"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:50Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:18Z"
LABEL org.opencontainers.image.source="https://gitlab.com/ezlab/busco"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/busco/busco_run/.config.vsh.yaml b/target/executable/busco/busco_run/.config.vsh.yaml
index 02a06697..40fa298e 100644
--- a/target/executable/busco/busco_run/.config.vsh.yaml
+++ b/target/executable/busco/busco_run/.config.vsh.yaml
@@ -409,7 +409,7 @@ build_info:
output: "target/executable/busco/busco_run"
executable: "target/executable/busco/busco_run/busco_run"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/busco/busco_run/busco_run b/target/executable/busco/busco_run/busco_run
index 6da111e5..a674c1f7 100755
--- a/target/executable/busco/busco_run/busco_run
+++ b/target/executable/busco/busco_run/busco_run
@@ -627,9 +627,9 @@ ENTRYPOINT []
RUN busco --version | sed 's/BUSCO\s\(.*\)/busco: "\1"/' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component busco busco_run"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:51Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:18Z"
LABEL org.opencontainers.image.source="https://gitlab.com/ezlab/busco"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/cutadapt/.config.vsh.yaml b/target/executable/cutadapt/.config.vsh.yaml
index 003034cf..e5e46df1 100644
--- a/target/executable/cutadapt/.config.vsh.yaml
+++ b/target/executable/cutadapt/.config.vsh.yaml
@@ -727,7 +727,7 @@ build_info:
output: "target/executable/cutadapt"
executable: "target/executable/cutadapt/cutadapt"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/cutadapt/cutadapt b/target/executable/cutadapt/cutadapt
index 4aac42ec..fb4b5563 100755
--- a/target/executable/cutadapt/cutadapt
+++ b/target/executable/cutadapt/cutadapt
@@ -826,9 +826,9 @@ RUN pip install --upgrade pip && \
RUN cutadapt --version | sed 's/\(.*\)/cutadapt: "\1"/' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component cutadapt"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:48Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:16Z"
LABEL org.opencontainers.image.source="https://github.com/marcelm/cutadapt"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/falco/.config.vsh.yaml b/target/executable/falco/.config.vsh.yaml
index 0bd9951b..f9f24865 100644
--- a/target/executable/falco/.config.vsh.yaml
+++ b/target/executable/falco/.config.vsh.yaml
@@ -304,7 +304,7 @@ build_info:
output: "target/executable/falco"
executable: "target/executable/falco/falco"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/falco/falco b/target/executable/falco/falco
index c08f1e66..a73e5ef7 100755
--- a/target/executable/falco/falco
+++ b/target/executable/falco/falco
@@ -584,9 +584,9 @@ make install
RUN echo "falco: \"$(falco -v | sed -n 's/^falco //p')\"" > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component falco"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:49Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:16Z"
LABEL org.opencontainers.image.source="https://github.com/smithlabcode/falco"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/fastp/.config.vsh.yaml b/target/executable/fastp/.config.vsh.yaml
index 3857375b..3d822be5 100644
--- a/target/executable/fastp/.config.vsh.yaml
+++ b/target/executable/fastp/.config.vsh.yaml
@@ -1065,7 +1065,7 @@ build_info:
output: "target/executable/fastp"
executable: "target/executable/fastp/fastp"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/fastp/fastp b/target/executable/fastp/fastp
index cadca118..4e563ded 100755
--- a/target/executable/fastp/fastp
+++ b/target/executable/fastp/fastp
@@ -1023,9 +1023,9 @@ ENTRYPOINT []
RUN fastp --version 2>&1 | sed 's# #: "#;s#$#"#' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component fastp"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:54Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:21Z"
LABEL org.opencontainers.image.source="https://github.com/OpenGene/fastp"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/featurecounts/.config.vsh.yaml b/target/executable/featurecounts/.config.vsh.yaml
index baa6b0b6..98f11ff6 100644
--- a/target/executable/featurecounts/.config.vsh.yaml
+++ b/target/executable/featurecounts/.config.vsh.yaml
@@ -631,7 +631,7 @@ build_info:
output: "target/executable/featurecounts"
executable: "target/executable/featurecounts/featurecounts"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/featurecounts/featurecounts b/target/executable/featurecounts/featurecounts
index 295b472c..06d58ab2 100755
--- a/target/executable/featurecounts/featurecounts
+++ b/target/executable/featurecounts/featurecounts
@@ -749,9 +749,9 @@ ENTRYPOINT []
RUN featureCounts -v 2>&1 | sed 's/featureCounts v\([0-9.]*\)/featureCounts: \1/' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component featurecounts"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:51Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:18Z"
LABEL org.opencontainers.image.source="https://github.com/ShiLab-Bioinformatics/subread"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/gffread/.config.vsh.yaml b/target/executable/gffread/.config.vsh.yaml
index 1202dcfd..42b0fd52 100644
--- a/target/executable/gffread/.config.vsh.yaml
+++ b/target/executable/gffread/.config.vsh.yaml
@@ -671,7 +671,7 @@ build_info:
output: "target/executable/gffread"
executable: "target/executable/gffread/gffread"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/gffread/gffread b/target/executable/gffread/gffread
index 63a17446..bdedebbd 100755
--- a/target/executable/gffread/gffread
+++ b/target/executable/gffread/gffread
@@ -802,9 +802,9 @@ ENTRYPOINT []
RUN echo "gffread: \"$(gffread --version 2>&1)\"" > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component gffread"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:49Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:17Z"
LABEL org.opencontainers.image.source="https://github.com/gpertea/gffread"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/lofreq/lofreq_call/.config.vsh.yaml b/target/executable/lofreq/lofreq_call/.config.vsh.yaml
index b36f67b7..32916098 100644
--- a/target/executable/lofreq/lofreq_call/.config.vsh.yaml
+++ b/target/executable/lofreq/lofreq_call/.config.vsh.yaml
@@ -489,7 +489,7 @@ build_info:
output: "target/executable/lofreq/lofreq_call"
executable: "target/executable/lofreq/lofreq_call/lofreq_call"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/lofreq/lofreq_call/lofreq_call b/target/executable/lofreq/lofreq_call/lofreq_call
index d284a421..1b081c71 100755
--- a/target/executable/lofreq/lofreq_call/lofreq_call
+++ b/target/executable/lofreq/lofreq_call/lofreq_call
@@ -651,9 +651,9 @@ RUN version=$(lofreq version | grep 'version' | sed 's/version: //') && \
echo "lofreq: $version" > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component lofreq lofreq_call"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:56Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:23Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/biobox"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/lofreq/lofreq_indelqual/.config.vsh.yaml b/target/executable/lofreq/lofreq_indelqual/.config.vsh.yaml
index 96c31904..207b324e 100644
--- a/target/executable/lofreq/lofreq_indelqual/.config.vsh.yaml
+++ b/target/executable/lofreq/lofreq_indelqual/.config.vsh.yaml
@@ -197,7 +197,7 @@ build_info:
output: "target/executable/lofreq/lofreq_indelqual"
executable: "target/executable/lofreq/lofreq_indelqual/lofreq_indelqual"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/lofreq/lofreq_indelqual/lofreq_indelqual b/target/executable/lofreq/lofreq_indelqual/lofreq_indelqual
index 74b8e14a..ef0a0d94 100755
--- a/target/executable/lofreq/lofreq_indelqual/lofreq_indelqual
+++ b/target/executable/lofreq/lofreq_indelqual/lofreq_indelqual
@@ -496,9 +496,9 @@ RUN version=$(lofreq version | grep 'version' | sed 's/version: //') && \
echo "lofreq: $version" > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component lofreq lofreq_indelqual"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:56Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:24Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/biobox"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/multiqc/.config.vsh.yaml b/target/executable/multiqc/.config.vsh.yaml
index 0de44ae2..f5c7bf33 100644
--- a/target/executable/multiqc/.config.vsh.yaml
+++ b/target/executable/multiqc/.config.vsh.yaml
@@ -442,7 +442,7 @@ build_info:
output: "target/executable/multiqc"
executable: "target/executable/multiqc/multiqc"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/multiqc/multiqc b/target/executable/multiqc/multiqc
index 531aadb8..64384003 100755
--- a/target/executable/multiqc/multiqc
+++ b/target/executable/multiqc/multiqc
@@ -632,9 +632,9 @@ ENTRYPOINT []
RUN multiqc --version | sed 's/multiqc, version\s\(.*\)/multiqc: "\1"/' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component multiqc"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:52Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:19Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/biobox"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/pear/.config.vsh.yaml b/target/executable/pear/.config.vsh.yaml
index 4fe17854..1d6b8409 100644
--- a/target/executable/pear/.config.vsh.yaml
+++ b/target/executable/pear/.config.vsh.yaml
@@ -380,7 +380,7 @@ build_info:
output: "target/executable/pear"
executable: "target/executable/pear/pear"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/pear/pear b/target/executable/pear/pear
index ea28713d..a5dcbb9f 100755
--- a/target/executable/pear/pear
+++ b/target/executable/pear/pear
@@ -592,9 +592,9 @@ RUN version=$(pear -h | grep 'PEAR v' | sed 's/PEAR v//' | sed 's/ .*//') && \
echo "pear: $version" > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component pear"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:55Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:23Z"
LABEL org.opencontainers.image.source="https://github.com/tseemann/PEAR"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/qualimap/.config.vsh.yaml b/target/executable/qualimap/.config.vsh.yaml
index 35463202..5293e132 100644
--- a/target/executable/qualimap/.config.vsh.yaml
+++ b/target/executable/qualimap/.config.vsh.yaml
@@ -272,7 +272,7 @@ build_info:
output: "target/executable/qualimap"
executable: "target/executable/qualimap/qualimap"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/qualimap/qualimap b/target/executable/qualimap/qualimap
index d423e462..c07a607a 100755
--- a/target/executable/qualimap/qualimap
+++ b/target/executable/qualimap/qualimap
@@ -542,9 +542,9 @@ RUN Rscript -e 'if (!requireNamespace("remotes", quietly = TRUE)) install.packag
Rscript -e 'remotes::install_cran(c("optparse"), repos = "https://cran.rstudio.com")'
LABEL org.opencontainers.image.description="Companion container for running component qualimap"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:56Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:24Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/biobox"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/salmon/salmon_index/.config.vsh.yaml b/target/executable/salmon/salmon_index/.config.vsh.yaml
index e6ef6bb1..1191aca7 100644
--- a/target/executable/salmon/salmon_index/.config.vsh.yaml
+++ b/target/executable/salmon/salmon_index/.config.vsh.yaml
@@ -263,7 +263,7 @@ build_info:
output: "target/executable/salmon/salmon_index"
executable: "target/executable/salmon/salmon_index/salmon_index"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/salmon/salmon_index/salmon_index b/target/executable/salmon/salmon_index/salmon_index
index 5f260ec4..48fe104c 100755
--- a/target/executable/salmon/salmon_index/salmon_index
+++ b/target/executable/salmon/salmon_index/salmon_index
@@ -541,9 +541,9 @@ ENTRYPOINT []
RUN salmon index -v 2>&1 | sed 's/salmon \([0-9.]*\)/salmon: \1/' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component salmon salmon_index"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:52Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:20Z"
LABEL org.opencontainers.image.source="https://github.com/COMBINE-lab/salmon"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/salmon/salmon_quant/.config.vsh.yaml b/target/executable/salmon/salmon_quant/.config.vsh.yaml
index d32ab8f7..f0a71c65 100644
--- a/target/executable/salmon/salmon_quant/.config.vsh.yaml
+++ b/target/executable/salmon/salmon_quant/.config.vsh.yaml
@@ -1159,7 +1159,7 @@ build_info:
output: "target/executable/salmon/salmon_quant"
executable: "target/executable/salmon/salmon_quant/salmon_quant"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/salmon/salmon_quant/salmon_quant b/target/executable/salmon/salmon_quant/salmon_quant
index d4e76e63..37b8784f 100755
--- a/target/executable/salmon/salmon_quant/salmon_quant
+++ b/target/executable/salmon/salmon_quant/salmon_quant
@@ -1163,9 +1163,9 @@ ENTRYPOINT []
RUN salmon index -v 2>&1 | sed 's/salmon \([0-9.]*\)/salmon: \1/' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component salmon salmon_quant"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:53Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:20Z"
LABEL org.opencontainers.image.source="https://github.com/COMBINE-lab/salmon"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/samtools/samtools_collate/.config.vsh.yaml b/target/executable/samtools/samtools_collate/.config.vsh.yaml
index 3bd28ce3..d05dea55 100644
--- a/target/executable/samtools/samtools_collate/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_collate/.config.vsh.yaml
@@ -250,7 +250,7 @@ build_info:
output: "target/executable/samtools/samtools_collate"
executable: "target/executable/samtools/samtools_collate/samtools_collate"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/samtools/samtools_collate/samtools_collate b/target/executable/samtools/samtools_collate/samtools_collate
index 9050deeb..ac90a33b 100755
--- a/target/executable/samtools/samtools_collate/samtools_collate
+++ b/target/executable/samtools/samtools_collate/samtools_collate
@@ -514,9 +514,9 @@ RUN samtools --version 2>&1 | grep -E '^(samtools|Using htslib)' | \
sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_collate"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:58Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:26Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/samtools/samtools_faidx/.config.vsh.yaml b/target/executable/samtools/samtools_faidx/.config.vsh.yaml
index 3095a7e7..fadd8d58 100644
--- a/target/executable/samtools/samtools_faidx/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_faidx/.config.vsh.yaml
@@ -229,7 +229,7 @@ build_info:
output: "target/executable/samtools/samtools_faidx"
executable: "target/executable/samtools/samtools_faidx/samtools_faidx"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/samtools/samtools_faidx/samtools_faidx b/target/executable/samtools/samtools_faidx/samtools_faidx
index ecb82287..5ba8fa00 100755
--- a/target/executable/samtools/samtools_faidx/samtools_faidx
+++ b/target/executable/samtools/samtools_faidx/samtools_faidx
@@ -507,9 +507,9 @@ RUN samtools --version 2>&1 | grep -E '^(samtools|Using htslib)' | \
sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_faidx"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:59Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:27Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/samtools/samtools_fasta/.config.vsh.yaml b/target/executable/samtools/samtools_fasta/.config.vsh.yaml
index ee0d7302..0bd08461 100644
--- a/target/executable/samtools/samtools_fasta/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_fasta/.config.vsh.yaml
@@ -419,7 +419,7 @@ build_info:
output: "target/executable/samtools/samtools_fasta"
executable: "target/executable/samtools/samtools_fasta/samtools_fasta"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/samtools/samtools_fasta/samtools_fasta b/target/executable/samtools/samtools_fasta/samtools_fasta
index b5c9104b..28a5a130 100755
--- a/target/executable/samtools/samtools_fasta/samtools_fasta
+++ b/target/executable/samtools/samtools_fasta/samtools_fasta
@@ -620,9 +620,9 @@ RUN samtools --version 2>&1 | grep -E '^(samtools|Using htslib)' | \
sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_fasta"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:57Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:25Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/samtools/samtools_fastq/.config.vsh.yaml b/target/executable/samtools/samtools_fastq/.config.vsh.yaml
index d82067ce..718d6673 100644
--- a/target/executable/samtools/samtools_fastq/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_fastq/.config.vsh.yaml
@@ -419,7 +419,7 @@ build_info:
output: "target/executable/samtools/samtools_fastq"
executable: "target/executable/samtools/samtools_fastq/samtools_fastq"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/samtools/samtools_fastq/samtools_fastq b/target/executable/samtools/samtools_fastq/samtools_fastq
index 88cb98e8..a5a089d3 100755
--- a/target/executable/samtools/samtools_fastq/samtools_fastq
+++ b/target/executable/samtools/samtools_fastq/samtools_fastq
@@ -621,9 +621,9 @@ RUN samtools --version 2>&1 | grep -E '^(samtools|Using htslib)' | \
sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_fastq"
-LABEL org.opencontainers.image.created="2024-07-29T13:34:00Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:27Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/samtools/samtools_flagstat/.config.vsh.yaml b/target/executable/samtools/samtools_flagstat/.config.vsh.yaml
index 4563d851..a79ff277 100644
--- a/target/executable/samtools/samtools_flagstat/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_flagstat/.config.vsh.yaml
@@ -159,7 +159,7 @@ build_info:
output: "target/executable/samtools/samtools_flagstat"
executable: "target/executable/samtools/samtools_flagstat/samtools_flagstat"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/samtools/samtools_flagstat/samtools_flagstat b/target/executable/samtools/samtools_flagstat/samtools_flagstat
index 7ac1b84d..e13d7deb 100755
--- a/target/executable/samtools/samtools_flagstat/samtools_flagstat
+++ b/target/executable/samtools/samtools_flagstat/samtools_flagstat
@@ -469,9 +469,9 @@ RUN samtools --version 2>&1 | grep -E '^(samtools|Using htslib)' | \
sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_flagstat"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:58Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:25Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/samtools/samtools_idxstats/.config.vsh.yaml b/target/executable/samtools/samtools_idxstats/.config.vsh.yaml
index 9b27ca29..e2966b24 100644
--- a/target/executable/samtools/samtools_idxstats/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_idxstats/.config.vsh.yaml
@@ -169,7 +169,7 @@ build_info:
output: "target/executable/samtools/samtools_idxstats"
executable: "target/executable/samtools/samtools_idxstats/samtools_idxstats"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/samtools/samtools_idxstats/samtools_idxstats b/target/executable/samtools/samtools_idxstats/samtools_idxstats
index 7c68a3f2..04b00c3f 100755
--- a/target/executable/samtools/samtools_idxstats/samtools_idxstats
+++ b/target/executable/samtools/samtools_idxstats/samtools_idxstats
@@ -473,9 +473,9 @@ RUN samtools --version 2>&1 | grep -E '^(samtools|Using htslib)' | \
sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_idxstats"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:58Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:26Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/samtools/samtools_index/.config.vsh.yaml b/target/executable/samtools/samtools_index/.config.vsh.yaml
index aa2061a9..e7f16f16 100644
--- a/target/executable/samtools/samtools_index/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_index/.config.vsh.yaml
@@ -175,7 +175,7 @@ build_info:
output: "target/executable/samtools/samtools_index"
executable: "target/executable/samtools/samtools_index/samtools_index"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/samtools/samtools_index/samtools_index b/target/executable/samtools/samtools_index/samtools_index
index 86ba6aee..2bfd6bbb 100755
--- a/target/executable/samtools/samtools_index/samtools_index
+++ b/target/executable/samtools/samtools_index/samtools_index
@@ -480,9 +480,9 @@ RUN samtools --version 2>&1 | grep -E '^(samtools|Using htslib)' | \
sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_index"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:59Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:26Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/samtools/samtools_sort/.config.vsh.yaml b/target/executable/samtools/samtools_sort/.config.vsh.yaml
index 473ea78e..f65e6cb4 100644
--- a/target/executable/samtools/samtools_sort/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_sort/.config.vsh.yaml
@@ -318,7 +318,7 @@ build_info:
output: "target/executable/samtools/samtools_sort"
executable: "target/executable/samtools/samtools_sort/samtools_sort"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/samtools/samtools_sort/samtools_sort b/target/executable/samtools/samtools_sort/samtools_sort
index 1249336a..6223d163 100755
--- a/target/executable/samtools/samtools_sort/samtools_sort
+++ b/target/executable/samtools/samtools_sort/samtools_sort
@@ -551,9 +551,9 @@ RUN samtools --version 2>&1 | grep -E '^(samtools|Using htslib)' | \
sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_sort"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:59Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:27Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/samtools/samtools_stats/.config.vsh.yaml b/target/executable/samtools/samtools_stats/.config.vsh.yaml
index bc18072d..c556e06a 100644
--- a/target/executable/samtools/samtools_stats/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_stats/.config.vsh.yaml
@@ -380,7 +380,7 @@ build_info:
output: "target/executable/samtools/samtools_stats"
executable: "target/executable/samtools/samtools_stats/samtools_stats"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/samtools/samtools_stats/samtools_stats b/target/executable/samtools/samtools_stats/samtools_stats
index 9be7671f..7cb0fc39 100755
--- a/target/executable/samtools/samtools_stats/samtools_stats
+++ b/target/executable/samtools/samtools_stats/samtools_stats
@@ -568,9 +568,9 @@ RUN samtools --version 2>&1 | grep -E '^(samtools|Using htslib)' | \
sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_stats"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:58Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:26Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/samtools/samtools_view/.config.vsh.yaml b/target/executable/samtools/samtools_view/.config.vsh.yaml
index 9054149d..2cbf06d7 100644
--- a/target/executable/samtools/samtools_view/.config.vsh.yaml
+++ b/target/executable/samtools/samtools_view/.config.vsh.yaml
@@ -651,7 +651,7 @@ build_info:
output: "target/executable/samtools/samtools_view"
executable: "target/executable/samtools/samtools_view/samtools_view"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/samtools/samtools_view/samtools_view b/target/executable/samtools/samtools_view/samtools_view
index b4132fa9..647158ae 100755
--- a/target/executable/samtools/samtools_view/samtools_view
+++ b/target/executable/samtools/samtools_view/samtools_view
@@ -820,9 +820,9 @@ RUN samtools --version 2>&1 | grep -E '^(samtools|Using htslib)' | \
sed 's#Using ##;s# \([0-9\.]*\)$#: \1#' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component samtools samtools_view"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:57Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:24Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/star/star_align_reads/.config.vsh.yaml b/target/executable/star/star_align_reads/.config.vsh.yaml
index c461c3d1..c0772f4e 100644
--- a/target/executable/star/star_align_reads/.config.vsh.yaml
+++ b/target/executable/star/star_align_reads/.config.vsh.yaml
@@ -2108,7 +2108,7 @@ 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: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/star/star_align_reads/star_align_reads b/target/executable/star/star_align_reads/star_align_reads
index a4621e4b..5080f569 100755
--- a/target/executable/star/star_align_reads/star_align_reads
+++ b/target/executable/star/star_align_reads/star_align_reads
@@ -1665,9 +1665,9 @@ RUN apt-get update && \
RUN STAR --version | sed 's#\(.*\)#star: "\1"#' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component star star_align_reads"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:55Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:22Z"
LABEL org.opencontainers.image.source="https://github.com/alexdobin/STAR"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/executable/star/star_genome_generate/.config.vsh.yaml b/target/executable/star/star_genome_generate/.config.vsh.yaml
index e32e08a5..0f701c13 100644
--- a/target/executable/star/star_genome_generate/.config.vsh.yaml
+++ b/target/executable/star/star_genome_generate/.config.vsh.yaml
@@ -319,7 +319,7 @@ 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: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/executable/star/star_genome_generate/star_genome_generate b/target/executable/star/star_genome_generate/star_genome_generate
index e7bda501..b82faa81 100755
--- a/target/executable/star/star_genome_generate/star_genome_generate
+++ b/target/executable/star/star_genome_generate/star_genome_generate
@@ -572,9 +572,9 @@ RUN apt-get update && \
RUN STAR --version | sed 's#\(.*\)#star: "\1"#' > /var/software_versions.txt
LABEL org.opencontainers.image.description="Companion container for running component star star_genome_generate"
-LABEL org.opencontainers.image.created="2024-07-29T13:33:54Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:22Z"
LABEL org.opencontainers.image.source="https://github.com/alexdobin/STAR"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
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 85f749a7..39dc6979 100644
--- a/target/executable/umi_tools/umi_tools_dedup/.config.vsh.yaml
+++ b/target/executable/umi_tools/umi_tools_dedup/.config.vsh.yaml
@@ -597,7 +597,7 @@ 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: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
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 6dac07db..4fecf199 100755
--- a/target/executable/umi_tools/umi_tools_dedup/umi_tools_dedup
+++ b/target/executable/umi_tools/umi_tools_dedup/umi_tools_dedup
@@ -765,9 +765,9 @@ 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_dedup"
-LABEL org.opencontainers.image.created="2024-07-29T13:34:00Z"
+LABEL org.opencontainers.image.created="2024-07-29T14:42:28Z"
LABEL org.opencontainers.image.source="https://github.com/CGATOxford/UMI-tools"
-LABEL org.opencontainers.image.revision="58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+LABEL org.opencontainers.image.revision="e6420cd80f226128b7223ff79ce1297f99993657"
LABEL org.opencontainers.image.version="qualimap"
VIASHDOCKER
diff --git a/target/nextflow/arriba/.config.vsh.yaml b/target/nextflow/arriba/.config.vsh.yaml
index 2c91a130..56c66134 100644
--- a/target/nextflow/arriba/.config.vsh.yaml
+++ b/target/nextflow/arriba/.config.vsh.yaml
@@ -688,7 +688,7 @@ build_info:
output: "target/nextflow/arriba"
executable: "target/nextflow/arriba/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/arriba/main.nf b/target/nextflow/arriba/main.nf
index d794686e..93471399 100644
--- a/target/nextflow/arriba/main.nf
+++ b/target/nextflow/arriba/main.nf
@@ -3534,7 +3534,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/arriba",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/bcl_convert/.config.vsh.yaml b/target/nextflow/bcl_convert/.config.vsh.yaml
index 8958a7f5..94555a2d 100644
--- a/target/nextflow/bcl_convert/.config.vsh.yaml
+++ b/target/nextflow/bcl_convert/.config.vsh.yaml
@@ -386,7 +386,7 @@ build_info:
output: "target/nextflow/bcl_convert"
executable: "target/nextflow/bcl_convert/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/bcl_convert/main.nf b/target/nextflow/bcl_convert/main.nf
index 8eae824b..e98795ab 100644
--- a/target/nextflow/bcl_convert/main.nf
+++ b/target/nextflow/bcl_convert/main.nf
@@ -3249,7 +3249,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/bcl_convert",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/bedtools/bedtools_getfasta/.config.vsh.yaml b/target/nextflow/bedtools/bedtools_getfasta/.config.vsh.yaml
index 22ff5440..123c6672 100644
--- a/target/nextflow/bedtools/bedtools_getfasta/.config.vsh.yaml
+++ b/target/nextflow/bedtools/bedtools_getfasta/.config.vsh.yaml
@@ -217,7 +217,7 @@ build_info:
output: "target/nextflow/bedtools/bedtools_getfasta"
executable: "target/nextflow/bedtools/bedtools_getfasta/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/bedtools/bedtools_getfasta/main.nf b/target/nextflow/bedtools/bedtools_getfasta/main.nf
index 2e918b74..f58cb397 100644
--- a/target/nextflow/bedtools/bedtools_getfasta/main.nf
+++ b/target/nextflow/bedtools/bedtools_getfasta/main.nf
@@ -3033,7 +3033,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/bedtools/bedtools_getfasta",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/busco/busco_download_datasets/.config.vsh.yaml b/target/nextflow/busco/busco_download_datasets/.config.vsh.yaml
index dccc9d80..22b90f95 100644
--- a/target/nextflow/busco/busco_download_datasets/.config.vsh.yaml
+++ b/target/nextflow/busco/busco_download_datasets/.config.vsh.yaml
@@ -144,7 +144,7 @@ build_info:
output: "target/nextflow/busco/busco_download_datasets"
executable: "target/nextflow/busco/busco_download_datasets/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/busco/busco_download_datasets/main.nf b/target/nextflow/busco/busco_download_datasets/main.nf
index 8d36b63b..c745a9b9 100644
--- a/target/nextflow/busco/busco_download_datasets/main.nf
+++ b/target/nextflow/busco/busco_download_datasets/main.nf
@@ -2959,7 +2959,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/busco/busco_download_datasets",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/busco/busco_list_datasets/.config.vsh.yaml b/target/nextflow/busco/busco_list_datasets/.config.vsh.yaml
index 2bba0dfe..8dfff4ef 100644
--- a/target/nextflow/busco/busco_list_datasets/.config.vsh.yaml
+++ b/target/nextflow/busco/busco_list_datasets/.config.vsh.yaml
@@ -131,7 +131,7 @@ build_info:
output: "target/nextflow/busco/busco_list_datasets"
executable: "target/nextflow/busco/busco_list_datasets/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/busco/busco_list_datasets/main.nf b/target/nextflow/busco/busco_list_datasets/main.nf
index d8dde3ed..7d2be0a3 100644
--- a/target/nextflow/busco/busco_list_datasets/main.nf
+++ b/target/nextflow/busco/busco_list_datasets/main.nf
@@ -2945,7 +2945,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/busco/busco_list_datasets",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/busco/busco_run/.config.vsh.yaml b/target/nextflow/busco/busco_run/.config.vsh.yaml
index 8d2d0a85..bc73dce0 100644
--- a/target/nextflow/busco/busco_run/.config.vsh.yaml
+++ b/target/nextflow/busco/busco_run/.config.vsh.yaml
@@ -409,7 +409,7 @@ build_info:
output: "target/nextflow/busco/busco_run"
executable: "target/nextflow/busco/busco_run/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/busco/busco_run/main.nf b/target/nextflow/busco/busco_run/main.nf
index f659907e..3d0de1fb 100644
--- a/target/nextflow/busco/busco_run/main.nf
+++ b/target/nextflow/busco/busco_run/main.nf
@@ -3257,7 +3257,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/busco/busco_run",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/cutadapt/.config.vsh.yaml b/target/nextflow/cutadapt/.config.vsh.yaml
index 3a096580..77211d5d 100644
--- a/target/nextflow/cutadapt/.config.vsh.yaml
+++ b/target/nextflow/cutadapt/.config.vsh.yaml
@@ -727,7 +727,7 @@ build_info:
output: "target/nextflow/cutadapt"
executable: "target/nextflow/cutadapt/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/cutadapt/main.nf b/target/nextflow/cutadapt/main.nf
index 7431158a..e118e558 100644
--- a/target/nextflow/cutadapt/main.nf
+++ b/target/nextflow/cutadapt/main.nf
@@ -3568,7 +3568,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/cutadapt",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/falco/.config.vsh.yaml b/target/nextflow/falco/.config.vsh.yaml
index 5473290e..114aa8ba 100644
--- a/target/nextflow/falco/.config.vsh.yaml
+++ b/target/nextflow/falco/.config.vsh.yaml
@@ -304,7 +304,7 @@ build_info:
output: "target/nextflow/falco"
executable: "target/nextflow/falco/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/falco/main.nf b/target/nextflow/falco/main.nf
index 83861af5..c9dedcd8 100644
--- a/target/nextflow/falco/main.nf
+++ b/target/nextflow/falco/main.nf
@@ -3119,7 +3119,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/falco",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/fastp/.config.vsh.yaml b/target/nextflow/fastp/.config.vsh.yaml
index 0b7a84b1..b6dea2ce 100644
--- a/target/nextflow/fastp/.config.vsh.yaml
+++ b/target/nextflow/fastp/.config.vsh.yaml
@@ -1065,7 +1065,7 @@ build_info:
output: "target/nextflow/fastp"
executable: "target/nextflow/fastp/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/fastp/main.nf b/target/nextflow/fastp/main.nf
index 753fc7b8..c7f60edf 100644
--- a/target/nextflow/fastp/main.nf
+++ b/target/nextflow/fastp/main.nf
@@ -3965,7 +3965,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/fastp",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/featurecounts/.config.vsh.yaml b/target/nextflow/featurecounts/.config.vsh.yaml
index 4cc618c1..2905b104 100644
--- a/target/nextflow/featurecounts/.config.vsh.yaml
+++ b/target/nextflow/featurecounts/.config.vsh.yaml
@@ -631,7 +631,7 @@ build_info:
output: "target/nextflow/featurecounts"
executable: "target/nextflow/featurecounts/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/featurecounts/main.nf b/target/nextflow/featurecounts/main.nf
index 3492110f..b06ab9ed 100644
--- a/target/nextflow/featurecounts/main.nf
+++ b/target/nextflow/featurecounts/main.nf
@@ -3497,7 +3497,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/featurecounts",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/gffread/.config.vsh.yaml b/target/nextflow/gffread/.config.vsh.yaml
index a97159d6..2cdf9b79 100644
--- a/target/nextflow/gffread/.config.vsh.yaml
+++ b/target/nextflow/gffread/.config.vsh.yaml
@@ -671,7 +671,7 @@ build_info:
output: "target/nextflow/gffread"
executable: "target/nextflow/gffread/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/gffread/main.nf b/target/nextflow/gffread/main.nf
index a1adaa15..8d35be13 100644
--- a/target/nextflow/gffread/main.nf
+++ b/target/nextflow/gffread/main.nf
@@ -3554,7 +3554,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/gffread",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/lofreq/lofreq_call/.config.vsh.yaml b/target/nextflow/lofreq/lofreq_call/.config.vsh.yaml
index 655e08cf..e564589b 100644
--- a/target/nextflow/lofreq/lofreq_call/.config.vsh.yaml
+++ b/target/nextflow/lofreq/lofreq_call/.config.vsh.yaml
@@ -489,7 +489,7 @@ build_info:
output: "target/nextflow/lofreq/lofreq_call"
executable: "target/nextflow/lofreq/lofreq_call/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/lofreq/lofreq_call/main.nf b/target/nextflow/lofreq/lofreq_call/main.nf
index 4a18604e..b116bda9 100644
--- a/target/nextflow/lofreq/lofreq_call/main.nf
+++ b/target/nextflow/lofreq/lofreq_call/main.nf
@@ -3356,7 +3356,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/lofreq/lofreq_call",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/lofreq/lofreq_indelqual/.config.vsh.yaml b/target/nextflow/lofreq/lofreq_indelqual/.config.vsh.yaml
index 6a9f5542..90c48f4a 100644
--- a/target/nextflow/lofreq/lofreq_indelqual/.config.vsh.yaml
+++ b/target/nextflow/lofreq/lofreq_indelqual/.config.vsh.yaml
@@ -197,7 +197,7 @@ build_info:
output: "target/nextflow/lofreq/lofreq_indelqual"
executable: "target/nextflow/lofreq/lofreq_indelqual/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/lofreq/lofreq_indelqual/main.nf b/target/nextflow/lofreq/lofreq_indelqual/main.nf
index 17a306c2..08144769 100644
--- a/target/nextflow/lofreq/lofreq_indelqual/main.nf
+++ b/target/nextflow/lofreq/lofreq_indelqual/main.nf
@@ -3019,7 +3019,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/lofreq/lofreq_indelqual",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/multiqc/.config.vsh.yaml b/target/nextflow/multiqc/.config.vsh.yaml
index 248d239f..bbb466f3 100644
--- a/target/nextflow/multiqc/.config.vsh.yaml
+++ b/target/nextflow/multiqc/.config.vsh.yaml
@@ -442,7 +442,7 @@ build_info:
output: "target/nextflow/multiqc"
executable: "target/nextflow/multiqc/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/multiqc/main.nf b/target/nextflow/multiqc/main.nf
index a98207fa..3eae5856 100644
--- a/target/nextflow/multiqc/main.nf
+++ b/target/nextflow/multiqc/main.nf
@@ -3314,7 +3314,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/multiqc",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/pear/.config.vsh.yaml b/target/nextflow/pear/.config.vsh.yaml
index 2f97eed0..f22acbea 100644
--- a/target/nextflow/pear/.config.vsh.yaml
+++ b/target/nextflow/pear/.config.vsh.yaml
@@ -380,7 +380,7 @@ build_info:
output: "target/nextflow/pear"
executable: "target/nextflow/pear/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/pear/main.nf b/target/nextflow/pear/main.nf
index f9af8c04..fd7fc4e4 100644
--- a/target/nextflow/pear/main.nf
+++ b/target/nextflow/pear/main.nf
@@ -3201,7 +3201,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/pear",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/qualimap/.config.vsh.yaml b/target/nextflow/qualimap/.config.vsh.yaml
index fcf2e3e9..775f134d 100644
--- a/target/nextflow/qualimap/.config.vsh.yaml
+++ b/target/nextflow/qualimap/.config.vsh.yaml
@@ -272,7 +272,7 @@ build_info:
output: "target/nextflow/qualimap"
executable: "target/nextflow/qualimap/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/qualimap/main.nf b/target/nextflow/qualimap/main.nf
index ffff2520..d49bfcc1 100644
--- a/target/nextflow/qualimap/main.nf
+++ b/target/nextflow/qualimap/main.nf
@@ -3109,7 +3109,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/qualimap",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/salmon/salmon_index/.config.vsh.yaml b/target/nextflow/salmon/salmon_index/.config.vsh.yaml
index fcf6b970..3ca4e338 100644
--- a/target/nextflow/salmon/salmon_index/.config.vsh.yaml
+++ b/target/nextflow/salmon/salmon_index/.config.vsh.yaml
@@ -263,7 +263,7 @@ build_info:
output: "target/nextflow/salmon/salmon_index"
executable: "target/nextflow/salmon/salmon_index/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/salmon/salmon_index/main.nf b/target/nextflow/salmon/salmon_index/main.nf
index a041f7ae..020e5a09 100644
--- a/target/nextflow/salmon/salmon_index/main.nf
+++ b/target/nextflow/salmon/salmon_index/main.nf
@@ -3077,7 +3077,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/salmon/salmon_index",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/salmon/salmon_quant/.config.vsh.yaml b/target/nextflow/salmon/salmon_quant/.config.vsh.yaml
index f28b37d3..be3bb60d 100644
--- a/target/nextflow/salmon/salmon_quant/.config.vsh.yaml
+++ b/target/nextflow/salmon/salmon_quant/.config.vsh.yaml
@@ -1159,7 +1159,7 @@ build_info:
output: "target/nextflow/salmon/salmon_quant"
executable: "target/nextflow/salmon/salmon_quant/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/salmon/salmon_quant/main.nf b/target/nextflow/salmon/salmon_quant/main.nf
index 665ac498..a7147bfb 100644
--- a/target/nextflow/salmon/salmon_quant/main.nf
+++ b/target/nextflow/salmon/salmon_quant/main.nf
@@ -3912,7 +3912,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/salmon/salmon_quant",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/samtools/samtools_collate/.config.vsh.yaml b/target/nextflow/samtools/samtools_collate/.config.vsh.yaml
index 55049bf6..baf54629 100644
--- a/target/nextflow/samtools/samtools_collate/.config.vsh.yaml
+++ b/target/nextflow/samtools/samtools_collate/.config.vsh.yaml
@@ -250,7 +250,7 @@ build_info:
output: "target/nextflow/samtools/samtools_collate"
executable: "target/nextflow/samtools/samtools_collate/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/samtools/samtools_collate/main.nf b/target/nextflow/samtools/samtools_collate/main.nf
index 15f13a0d..b7a267d0 100644
--- a/target/nextflow/samtools/samtools_collate/main.nf
+++ b/target/nextflow/samtools/samtools_collate/main.nf
@@ -3088,7 +3088,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/samtools/samtools_collate",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/samtools/samtools_faidx/.config.vsh.yaml b/target/nextflow/samtools/samtools_faidx/.config.vsh.yaml
index 8bb270ca..ea107b68 100644
--- a/target/nextflow/samtools/samtools_faidx/.config.vsh.yaml
+++ b/target/nextflow/samtools/samtools_faidx/.config.vsh.yaml
@@ -229,7 +229,7 @@ build_info:
output: "target/nextflow/samtools/samtools_faidx"
executable: "target/nextflow/samtools/samtools_faidx/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/samtools/samtools_faidx/main.nf b/target/nextflow/samtools/samtools_faidx/main.nf
index d8c36dc7..a9b5b6aa 100644
--- a/target/nextflow/samtools/samtools_faidx/main.nf
+++ b/target/nextflow/samtools/samtools_faidx/main.nf
@@ -3060,7 +3060,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/samtools/samtools_faidx",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/samtools/samtools_fasta/.config.vsh.yaml b/target/nextflow/samtools/samtools_fasta/.config.vsh.yaml
index 82775e36..bcd89b08 100644
--- a/target/nextflow/samtools/samtools_fasta/.config.vsh.yaml
+++ b/target/nextflow/samtools/samtools_fasta/.config.vsh.yaml
@@ -419,7 +419,7 @@ build_info:
output: "target/nextflow/samtools/samtools_fasta"
executable: "target/nextflow/samtools/samtools_fasta/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/samtools/samtools_fasta/main.nf b/target/nextflow/samtools/samtools_fasta/main.nf
index f438515a..883bfd89 100644
--- a/target/nextflow/samtools/samtools_fasta/main.nf
+++ b/target/nextflow/samtools/samtools_fasta/main.nf
@@ -3252,7 +3252,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/samtools/samtools_fasta",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/samtools/samtools_fastq/.config.vsh.yaml b/target/nextflow/samtools/samtools_fastq/.config.vsh.yaml
index fde3d3f0..4ceae661 100644
--- a/target/nextflow/samtools/samtools_fastq/.config.vsh.yaml
+++ b/target/nextflow/samtools/samtools_fastq/.config.vsh.yaml
@@ -419,7 +419,7 @@ build_info:
output: "target/nextflow/samtools/samtools_fastq"
executable: "target/nextflow/samtools/samtools_fastq/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/samtools/samtools_fastq/main.nf b/target/nextflow/samtools/samtools_fastq/main.nf
index 91cb8b72..f80cd642 100644
--- a/target/nextflow/samtools/samtools_fastq/main.nf
+++ b/target/nextflow/samtools/samtools_fastq/main.nf
@@ -3252,7 +3252,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/samtools/samtools_fastq",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/samtools/samtools_flagstat/.config.vsh.yaml b/target/nextflow/samtools/samtools_flagstat/.config.vsh.yaml
index 1de01094..86a9a31b 100644
--- a/target/nextflow/samtools/samtools_flagstat/.config.vsh.yaml
+++ b/target/nextflow/samtools/samtools_flagstat/.config.vsh.yaml
@@ -159,7 +159,7 @@ build_info:
output: "target/nextflow/samtools/samtools_flagstat"
executable: "target/nextflow/samtools/samtools_flagstat/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/samtools/samtools_flagstat/main.nf b/target/nextflow/samtools/samtools_flagstat/main.nf
index fe539d41..d98e10a7 100644
--- a/target/nextflow/samtools/samtools_flagstat/main.nf
+++ b/target/nextflow/samtools/samtools_flagstat/main.nf
@@ -2976,7 +2976,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/samtools/samtools_flagstat",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/samtools/samtools_idxstats/.config.vsh.yaml b/target/nextflow/samtools/samtools_idxstats/.config.vsh.yaml
index 11e01717..d8180e46 100644
--- a/target/nextflow/samtools/samtools_idxstats/.config.vsh.yaml
+++ b/target/nextflow/samtools/samtools_idxstats/.config.vsh.yaml
@@ -169,7 +169,7 @@ build_info:
output: "target/nextflow/samtools/samtools_idxstats"
executable: "target/nextflow/samtools/samtools_idxstats/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/samtools/samtools_idxstats/main.nf b/target/nextflow/samtools/samtools_idxstats/main.nf
index edfb7d3f..18706277 100644
--- a/target/nextflow/samtools/samtools_idxstats/main.nf
+++ b/target/nextflow/samtools/samtools_idxstats/main.nf
@@ -2988,7 +2988,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/samtools/samtools_idxstats",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/samtools/samtools_index/.config.vsh.yaml b/target/nextflow/samtools/samtools_index/.config.vsh.yaml
index ab699347..6415b281 100644
--- a/target/nextflow/samtools/samtools_index/.config.vsh.yaml
+++ b/target/nextflow/samtools/samtools_index/.config.vsh.yaml
@@ -175,7 +175,7 @@ build_info:
output: "target/nextflow/samtools/samtools_index"
executable: "target/nextflow/samtools/samtools_index/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/samtools/samtools_index/main.nf b/target/nextflow/samtools/samtools_index/main.nf
index 24b525f4..4f5ba0d3 100644
--- a/target/nextflow/samtools/samtools_index/main.nf
+++ b/target/nextflow/samtools/samtools_index/main.nf
@@ -3001,7 +3001,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/samtools/samtools_index",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/samtools/samtools_sort/.config.vsh.yaml b/target/nextflow/samtools/samtools_sort/.config.vsh.yaml
index ea66684a..b1bc8a4a 100644
--- a/target/nextflow/samtools/samtools_sort/.config.vsh.yaml
+++ b/target/nextflow/samtools/samtools_sort/.config.vsh.yaml
@@ -318,7 +318,7 @@ build_info:
output: "target/nextflow/samtools/samtools_sort"
executable: "target/nextflow/samtools/samtools_sort/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/samtools/samtools_sort/main.nf b/target/nextflow/samtools/samtools_sort/main.nf
index 3acf7f24..31e42e23 100644
--- a/target/nextflow/samtools/samtools_sort/main.nf
+++ b/target/nextflow/samtools/samtools_sort/main.nf
@@ -3173,7 +3173,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/samtools/samtools_sort",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/samtools/samtools_stats/.config.vsh.yaml b/target/nextflow/samtools/samtools_stats/.config.vsh.yaml
index a02b8768..0b31b5f6 100644
--- a/target/nextflow/samtools/samtools_stats/.config.vsh.yaml
+++ b/target/nextflow/samtools/samtools_stats/.config.vsh.yaml
@@ -380,7 +380,7 @@ build_info:
output: "target/nextflow/samtools/samtools_stats"
executable: "target/nextflow/samtools/samtools_stats/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/samtools/samtools_stats/main.nf b/target/nextflow/samtools/samtools_stats/main.nf
index cedc5cdd..ec947a2d 100644
--- a/target/nextflow/samtools/samtools_stats/main.nf
+++ b/target/nextflow/samtools/samtools_stats/main.nf
@@ -3238,7 +3238,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/samtools/samtools_stats",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/samtools/samtools_view/.config.vsh.yaml b/target/nextflow/samtools/samtools_view/.config.vsh.yaml
index 7f5fe76a..bc03fd35 100644
--- a/target/nextflow/samtools/samtools_view/.config.vsh.yaml
+++ b/target/nextflow/samtools/samtools_view/.config.vsh.yaml
@@ -651,7 +651,7 @@ build_info:
output: "target/nextflow/samtools/samtools_view"
executable: "target/nextflow/samtools/samtools_view/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/samtools/samtools_view/main.nf b/target/nextflow/samtools/samtools_view/main.nf
index 5d4e000d..a3dca569 100644
--- a/target/nextflow/samtools/samtools_view/main.nf
+++ b/target/nextflow/samtools/samtools_view/main.nf
@@ -3424,7 +3424,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/samtools/samtools_view",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/star/star_align_reads/.config.vsh.yaml b/target/nextflow/star/star_align_reads/.config.vsh.yaml
index 37048212..12608754 100644
--- a/target/nextflow/star/star_align_reads/.config.vsh.yaml
+++ b/target/nextflow/star/star_align_reads/.config.vsh.yaml
@@ -2108,7 +2108,7 @@ build_info:
output: "target/nextflow/star/star_align_reads"
executable: "target/nextflow/star/star_align_reads/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/star/star_align_reads/main.nf b/target/nextflow/star/star_align_reads/main.nf
index ba70b199..5e29fb76 100644
--- a/target/nextflow/star/star_align_reads/main.nf
+++ b/target/nextflow/star/star_align_reads/main.nf
@@ -5023,7 +5023,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/star/star_align_reads",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
diff --git a/target/nextflow/star/star_genome_generate/.config.vsh.yaml b/target/nextflow/star/star_genome_generate/.config.vsh.yaml
index de7ec325..aaab8953 100644
--- a/target/nextflow/star/star_genome_generate/.config.vsh.yaml
+++ b/target/nextflow/star/star_genome_generate/.config.vsh.yaml
@@ -319,7 +319,7 @@ build_info:
output: "target/nextflow/star/star_genome_generate"
executable: "target/nextflow/star/star_genome_generate/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/star/star_genome_generate/main.nf b/target/nextflow/star/star_genome_generate/main.nf
index 7951cd22..6379edda 100644
--- a/target/nextflow/star/star_genome_generate/main.nf
+++ b/target/nextflow/star/star_genome_generate/main.nf
@@ -3143,7 +3143,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/star/star_genome_generate",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {
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 76671cfe..1b7feac1 100644
--- a/target/nextflow/umi_tools/umi_tools_dedup/.config.vsh.yaml
+++ b/target/nextflow/umi_tools/umi_tools_dedup/.config.vsh.yaml
@@ -597,7 +597,7 @@ build_info:
output: "target/nextflow/umi_tools/umi_tools_dedup"
executable: "target/nextflow/umi_tools/umi_tools_dedup/main.nf"
viash_version: "0.9.0-RC6"
- git_commit: "58d7dacfc28af316aebc8f11c3facc6c9671e94b"
+ git_commit: "e6420cd80f226128b7223ff79ce1297f99993657"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"
diff --git a/target/nextflow/umi_tools/umi_tools_dedup/main.nf b/target/nextflow/umi_tools/umi_tools_dedup/main.nf
index 620d5b3e..b99fa2fd 100644
--- a/target/nextflow/umi_tools/umi_tools_dedup/main.nf
+++ b/target/nextflow/umi_tools/umi_tools_dedup/main.nf
@@ -3435,7 +3435,7 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/umi_tools/umi_tools_dedup",
"viash_version" : "0.9.0-RC6",
- "git_commit" : "58d7dacfc28af316aebc8f11c3facc6c9671e94b",
+ "git_commit" : "e6420cd80f226128b7223ff79ce1297f99993657",
"git_remote" : "https://github.com/viash-hub/biobox"
},
"package_config" : {