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Build branch main with version main (8f525f5)

Browse Source 
Build pipeline: viash-hub.biobox.main-x27rr

Source commit: 8f525f5e40

Source message: Bedtools_Intersect (#94)

* Initial Commit

* Update config.vsh.yaml

* creating templates

* Update config.vsh.yaml

* Update script.sh

* Added output

* Update config.vsh.yaml

* Update test.sh

* Update test.sh

* More tests

* small changes

* update

- change some var names
- debugged
- added more test

* Update CHANGELOG.md

* Update

* Update help.txt
This commit is contained in:
CI
2024-07-31 19:42:45 +00:00
parent 02c1c9ebea
commit 2f26c0291a
151 changed files with 8077 additions and 175 deletions
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2
target/executable/samtools/samtools_collate/.config.vsh.yaml
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@@ -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: "da414e72c60758895b16818309d6c147c288dd84"
git_commit: "8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/samtools/samtools_collate/samtools_collate
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@@ -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="2024-07-29T07:58:10Z"
LABEL org.opencontainers.image.created="2024-07-31T19:23:08Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da414e72c60758895b16818309d6c147c288dd84"
LABEL org.opencontainers.image.revision="8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/samtools/samtools_faidx/.config.vsh.yaml
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@@ -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: "da414e72c60758895b16818309d6c147c288dd84"
git_commit: "8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/samtools/samtools_faidx/samtools_faidx
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@@ -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="2024-07-29T07:58:11Z"
LABEL org.opencontainers.image.created="2024-07-31T19:23:09Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da414e72c60758895b16818309d6c147c288dd84"
LABEL org.opencontainers.image.revision="8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/samtools/samtools_fasta/.config.vsh.yaml
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@@ -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: "da414e72c60758895b16818309d6c147c288dd84"
git_commit: "8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/samtools/samtools_fasta/samtools_fasta
View File

@@ -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="2024-07-29T07:58:08Z"
LABEL org.opencontainers.image.created="2024-07-31T19:23:07Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da414e72c60758895b16818309d6c147c288dd84"
LABEL org.opencontainers.image.revision="8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/samtools/samtools_fastq/.config.vsh.yaml
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@@ -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: "da414e72c60758895b16818309d6c147c288dd84"
git_commit: "8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/samtools/samtools_fastq/samtools_fastq
View File

@@ -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="2024-07-29T07:58:11Z"
LABEL org.opencontainers.image.created="2024-07-31T19:23:09Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da414e72c60758895b16818309d6c147c288dd84"
LABEL org.opencontainers.image.revision="8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/samtools/samtools_flagstat/.config.vsh.yaml
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@@ -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: "da414e72c60758895b16818309d6c147c288dd84"
git_commit: "8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/samtools/samtools_flagstat/samtools_flagstat
View File

@@ -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="2024-07-29T07:58:09Z"
LABEL org.opencontainers.image.created="2024-07-31T19:23:07Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da414e72c60758895b16818309d6c147c288dd84"
LABEL org.opencontainers.image.revision="8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/samtools/samtools_idxstats/.config.vsh.yaml
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@@ -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: "da414e72c60758895b16818309d6c147c288dd84"
git_commit: "8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/samtools/samtools_idxstats/samtools_idxstats
View File

@@ -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="2024-07-29T07:58:09Z"
LABEL org.opencontainers.image.created="2024-07-31T19:23:08Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da414e72c60758895b16818309d6c147c288dd84"
LABEL org.opencontainers.image.revision="8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/samtools/samtools_index/.config.vsh.yaml
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@@ -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: "da414e72c60758895b16818309d6c147c288dd84"
git_commit: "8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/samtools/samtools_index/samtools_index
View File

@@ -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="2024-07-29T07:58:10Z"
LABEL org.opencontainers.image.created="2024-07-31T19:23:08Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da414e72c60758895b16818309d6c147c288dd84"
LABEL org.opencontainers.image.revision="8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/samtools/samtools_sort/.config.vsh.yaml
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@@ -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: "da414e72c60758895b16818309d6c147c288dd84"
git_commit: "8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/samtools/samtools_sort/samtools_sort
View File

@@ -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="2024-07-29T07:58:10Z"
LABEL org.opencontainers.image.created="2024-07-31T19:23:09Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da414e72c60758895b16818309d6c147c288dd84"
LABEL org.opencontainers.image.revision="8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/samtools/samtools_stats/.config.vsh.yaml
View File

@@ -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: "da414e72c60758895b16818309d6c147c288dd84"
git_commit: "8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/samtools/samtools_stats/samtools_stats
View File

@@ -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="2024-07-29T07:58:09Z"
LABEL org.opencontainers.image.created="2024-07-31T19:23:07Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da414e72c60758895b16818309d6c147c288dd84"
LABEL org.opencontainers.image.revision="8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/samtools/samtools_view/.config.vsh.yaml
View File

@@ -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: "da414e72c60758895b16818309d6c147c288dd84"
git_commit: "8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/samtools/samtools_view/samtools_view
View File

@@ -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="2024-07-29T07:58:08Z"
LABEL org.opencontainers.image.created="2024-07-31T19:23:06Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da414e72c60758895b16818309d6c147c288dd84"
LABEL org.opencontainers.image.revision="8f525f5e40301ad51bc1cd9587c0febbef84bd7d"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER