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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/bedtools/bedtools_bamtofastq/.config.vsh.yaml
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@@ -187,7 +187,7 @@ build_info:
output: "target/executable/bedtools/bedtools_bamtofastq"
executable: "target/executable/bedtools/bedtools_bamtofastq/bedtools_bamtofastq"
viash_version: "0.9.0-RC7"
git_commit: "da3272d0118227ee788cd93b222201f557729397"
git_commit: "e6627ec728761fe63fe75b0a10ba51da2bccec21"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/bedtools/bedtools_bamtofastq/bedtools_bamtofastq
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@@ -483,9 +483,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var
LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo"
LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_bamtofastq"
LABEL org.opencontainers.image.created="2024-09-02T13:28:09Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:33Z"
LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/bedtools/bedtools_bed12tobed6/.config.vsh.yaml
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@@ -176,7 +176,7 @@ build_info:
output: "target/executable/bedtools/bedtools_bed12tobed6"
executable: "target/executable/bedtools/bedtools_bed12tobed6/bedtools_bed12tobed6"
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/bedtools/bedtools_bed12tobed6/bedtools_bed12tobed6
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@@ -480,9 +480,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var
LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo"
LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_bed12tobed6"
LABEL org.opencontainers.image.created="2024-09-02T13:28:07Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:32Z"
LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/bedtools/bedtools_bedtobam/.config.vsh.yaml
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@@ -214,7 +214,7 @@ build_info:
output: "target/executable/bedtools/bedtools_bedtobam"
executable: "target/executable/bedtools/bedtools_bedtobam/bedtools_bedtobam"
viash_version: "0.9.0-RC7"
git_commit: "da3272d0118227ee788cd93b222201f557729397"
git_commit: "e6627ec728761fe63fe75b0a10ba51da2bccec21"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/bedtools/bedtools_bedtobam/bedtools_bedtobam
View File

@@ -496,9 +496,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var
LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo"
LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_bedtobam"
LABEL org.opencontainers.image.created="2024-09-02T13:28:10Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:34Z"
LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/bedtools/bedtools_getfasta/.config.vsh.yaml
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@@ -232,7 +232,7 @@ build_info:
output: "target/executable/bedtools/bedtools_getfasta"
executable: "target/executable/bedtools/bedtools_getfasta/bedtools_getfasta"
viash_version: "0.9.0-RC7"
git_commit: "da3272d0118227ee788cd93b222201f557729397"
git_commit: "e6627ec728761fe63fe75b0a10ba51da2bccec21"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/bedtools/bedtools_getfasta/bedtools_getfasta
View File

@@ -526,9 +526,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var
LABEL org.opencontainers.image.authors="Dries Schaumont"
LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_getfasta"
LABEL org.opencontainers.image.created="2024-09-02T13:28:08Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:32Z"
LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/bedtools/bedtools_groupby/.config.vsh.yaml
View File

@@ -273,7 +273,7 @@ build_info:
output: "target/executable/bedtools/bedtools_groupby"
executable: "target/executable/bedtools/bedtools_groupby/bedtools_groupby"
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/bedtools/bedtools_groupby/bedtools_groupby
View File

@@ -552,9 +552,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var
LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo"
LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_groupby"
LABEL org.opencontainers.image.created="2024-09-02T13:28:09Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:34Z"
LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/bedtools/bedtools_intersect/.config.vsh.yaml
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@@ -410,7 +410,7 @@ build_info:
output: "target/executable/bedtools/bedtools_intersect"
executable: "target/executable/bedtools/bedtools_intersect/bedtools_intersect"
viash_version: "0.9.0-RC7"
git_commit: "da3272d0118227ee788cd93b222201f557729397"
git_commit: "e6627ec728761fe63fe75b0a10ba51da2bccec21"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/bedtools/bedtools_intersect/bedtools_intersect
View File

@@ -633,9 +633,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var
LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo"
LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_intersect"
LABEL org.opencontainers.image.created="2024-09-02T13:28:08Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:33Z"
LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/bedtools/bedtools_links/.config.vsh.yaml
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@@ -210,7 +210,7 @@ build_info:
output: "target/executable/bedtools/bedtools_links"
executable: "target/executable/bedtools/bedtools_links/bedtools_links"
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/bedtools/bedtools_links/bedtools_links
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@@ -500,9 +500,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var
LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo"
LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_links"
LABEL org.opencontainers.image.created="2024-09-02T13:28:08Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:33Z"
LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/bedtools/bedtools_merge/.config.vsh.yaml
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@@ -279,7 +279,7 @@ build_info:
output: "target/executable/bedtools/bedtools_merge"
executable: "target/executable/bedtools/bedtools_merge/bedtools_merge"
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/bedtools/bedtools_merge/bedtools_merge
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@@ -558,9 +558,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var
LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo"
LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_merge"
LABEL org.opencontainers.image.created="2024-09-02T13:28:07Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:32Z"
LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

2
target/executable/bedtools/bedtools_sort/.config.vsh.yaml
View File

@@ -222,7 +222,7 @@ build_info:
output: "target/executable/bedtools/bedtools_sort"
executable: "target/executable/bedtools/bedtools_sort/bedtools_sort"
viash_version: "0.9.0-RC7"
git_commit: "da3272d0118227ee788cd93b222201f557729397"
git_commit: "e6627ec728761fe63fe75b0a10ba51da2bccec21"
git_remote: "https://github.com/viash-hub/biobox"
package_config:
name: "biobox"

4
target/executable/bedtools/bedtools_sort/bedtools_sort
View File

@@ -509,9 +509,9 @@ RUN echo "bedtools: \"$(bedtools --version | sed -n 's/^bedtools //p')\"" > /var
LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo"
LABEL org.opencontainers.image.description="Companion container for running component bedtools bedtools_sort"
LABEL org.opencontainers.image.created="2024-09-02T13:28:09Z"
LABEL org.opencontainers.image.created="2024-09-03T08:58:34Z"
LABEL org.opencontainers.image.source="https://github.com/arq5x/bedtools2"
LABEL org.opencontainers.image.revision="da3272d0118227ee788cd93b222201f557729397"
LABEL org.opencontainers.image.revision="e6627ec728761fe63fe75b0a10ba51da2bccec21"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER