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Build branch main with version main (e6627ec)

Browse Source 
Build pipeline: viash-hub.biobox.main-v4lxs

Source commit: e6627ec728

Source message: FastQC (#92)

* Starting Component

* Creating Files

* update on config file

* Update on test.sh

* Update on config

* Update script.sh

* Update on script.sh

* trying to figure multiple: true

* Update on script.sh

* Update on script

* Adding some tests

* More tests

* Update on script.sh

* Added more tests

* Small Changes

* Update test.sh

* Update on Script and Test

- change the --zip and --html to take wild card '*'

* Added one more test

* Removed test_data dir

* More description

* Update CHANGELOG.md

* Update on config and script

- meta_cpus
- meta_tmp_dir

* Bug Fixed

* unset_if_false

* Updating Tests

* Update script.sh

* debugging

* Minor changes

* Update config.vsh.yaml

* Update config.vsh.yaml

* Required Changes

- large changes on script.sh

* Update config.vsh.yaml

* Adding extra links

* tmpdir bug

* Updating tests

* minor changes

* Adding extra output options

--summary
--data

* minor change

* Update script.sh

* small change in config
This commit is contained in:
CI
2024-09-03 09:13:58 +00:00
parent f066ef0ffa
commit ddad38b4a3
211 changed files with 7517 additions and 250 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-RC7"
git_commit: "da3272d0118227ee788cd93b222201f557729397"
git_commit: "e6627ec728761fe63fe75b0a10ba51da2bccec21"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/samtools/samtools_collate/samtools_collate
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@@ -519,9 +519,9 @@ 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="2024-09-02T13:28:12Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:37Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

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

@@ -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-RC7"
git_commit: "da3272d0118227ee788cd93b222201f557729397"
git_commit: "e6627ec728761fe63fe75b0a10ba51da2bccec21"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/samtools/samtools_faidx/samtools_faidx
View File

@@ -512,9 +512,9 @@ 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="2024-09-02T13:28:12Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:37Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
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-RC7"
git_commit: "da3272d0118227ee788cd93b222201f557729397"
git_commit: "e6627ec728761fe63fe75b0a10ba51da2bccec21"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/samtools/samtools_fasta/samtools_fasta
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_fasta"
LABEL org.opencontainers.image.created="2024-09-02T13:28:13Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:37Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

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

@@ -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-RC7"
git_commit: "da3272d0118227ee788cd93b222201f557729397"
git_commit: "e6627ec728761fe63fe75b0a10ba51da2bccec21"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

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

@@ -626,9 +626,9 @@ 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="2024-09-02T13:28:12Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:36Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

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

@@ -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-RC7"
git_commit: "da3272d0118227ee788cd93b222201f557729397"
git_commit: "e6627ec728761fe63fe75b0a10ba51da2bccec21"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

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

@@ -474,9 +474,9 @@ 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="2024-09-02T13:28:11Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:36Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

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

@@ -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-RC7"
git_commit: "da3272d0118227ee788cd93b222201f557729397"
git_commit: "e6627ec728761fe63fe75b0a10ba51da2bccec21"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

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

@@ -478,9 +478,9 @@ 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="2024-09-02T13:28:11Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:35Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

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

@@ -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-RC7"
git_commit: "da3272d0118227ee788cd93b222201f557729397"
git_commit: "e6627ec728761fe63fe75b0a10ba51da2bccec21"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

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

@@ -485,9 +485,9 @@ 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="2024-09-02T13:28:10Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:35Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
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-RC7"
git_commit: "da3272d0118227ee788cd93b222201f557729397"
git_commit: "e6627ec728761fe63fe75b0a10ba51da2bccec21"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

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

@@ -556,9 +556,9 @@ 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="2024-09-02T13:28:13Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:38Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
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-RC7"
git_commit: "da3272d0118227ee788cd93b222201f557729397"
git_commit: "e6627ec728761fe63fe75b0a10ba51da2bccec21"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

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

@@ -575,9 +575,9 @@ 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="2024-09-02T13:28:13Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:38Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
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-RC7"
git_commit: "da3272d0118227ee788cd93b222201f557729397"
git_commit: "e6627ec728761fe63fe75b0a10ba51da2bccec21"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

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

@@ -825,9 +825,9 @@ 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="2024-09-02T13:28:11Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:35Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER