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Build branch main with version main (6e6b139)

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

Source commit: 6e6b13939c

Source message: nanoplot (#95)

* nanoplot

* test_data

* reinitiate

* gitignore

* namespace

* Testing NanoPlot in CLI

* NanoPlot complete

* Updated docker engine

* Docker

* Delete taget directory

* Deleted

* Input file

* fastq with more reads

* Delete config.vsh.yaml

* Pull request changes

* Delete var directory

* Config arguments complete

* Update help.txt

* Update config file

* Test files

* runners script

* gitignore default

* Move output

* Delete output directory

* Runners script complete

* Test script

* default output

* test data

* params passed correctly

* outdir

* test script

* input files

* all test files

* test data < 100 KB

* test script update

* Update CHANGELOG.md

* Update CHANGELOG.md

* Test cases in directories

* rm .gz .pickle .feather files

* reduce test input size

* Multiple separator ";" and check there is only one input file

---------

Co-authored-by: jakubmajercik <jakub.majercik@gmail.com>
Co-authored-by: Emma Rousseau <emmarou1@icloud.com>
This commit is contained in:
CI
2024-10-26 10:17:08 +00:00
parent 0cdbd262c7
commit 5ae0d0b0ba
287 changed files with 10378 additions and 739 deletions
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6
target/executable/bcftools/bcftools_annotate/.config.vsh.yaml
View File

@@ -469,9 +469,9 @@ build_info:
output: "target/executable/bcftools/bcftools_annotate"
executable: "target/executable/bcftools/bcftools_annotate/bcftools_annotate"
viash_version: "0.9.0"
git_commit: "7fb67a98539868b9af788338fb5f46d34ab742f7"
git_remote: "https://x-access-token:ghs_lv5GvifOUhTQDSxrDFIWt5FoCBy00e2Tt6iO@github.com/viash-hub/biobox"
git_tag: "v0.2.0-11-g7fb67a9"
git_commit: "6e6b13939c9d719f1cd7ff5a91a6562e0a6e2e29"
git_remote: "https://x-access-token:ghs_yMJ96XEhcHROF2pqaopOfHbmZnWq3J2wWhaj@github.com/viash-hub/biobox"
git_tag: "v0.2.0-12-g6e6b139"
package_config:
name: "biobox"
version: "main"

4
target/executable/bcftools/bcftools_annotate/bcftools_annotate
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@@ -650,9 +650,9 @@ RUN echo "bcftools: \"$(bcftools --version | grep 'bcftools' | sed -n 's/^bcftoo
LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo"
LABEL org.opencontainers.image.description="Companion container for running component bcftools bcftools_annotate"
LABEL org.opencontainers.image.created="2024-10-18T09:18:48Z"
LABEL org.opencontainers.image.created="2024-10-26T09:56:42Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/bcftools"
LABEL org.opencontainers.image.revision="7fb67a98539868b9af788338fb5f46d34ab742f7"
LABEL org.opencontainers.image.revision="6e6b13939c9d719f1cd7ff5a91a6562e0a6e2e29"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

6
target/executable/bcftools/bcftools_concat/.config.vsh.yaml
View File

@@ -335,9 +335,9 @@ build_info:
output: "target/executable/bcftools/bcftools_concat"
executable: "target/executable/bcftools/bcftools_concat/bcftools_concat"
viash_version: "0.9.0"
git_commit: "7fb67a98539868b9af788338fb5f46d34ab742f7"
git_remote: "https://x-access-token:ghs_lv5GvifOUhTQDSxrDFIWt5FoCBy00e2Tt6iO@github.com/viash-hub/biobox"
git_tag: "v0.2.0-11-g7fb67a9"
git_commit: "6e6b13939c9d719f1cd7ff5a91a6562e0a6e2e29"
git_remote: "https://x-access-token:ghs_yMJ96XEhcHROF2pqaopOfHbmZnWq3J2wWhaj@github.com/viash-hub/biobox"
git_tag: "v0.2.0-12-g6e6b139"
package_config:
name: "biobox"
version: "main"

4
target/executable/bcftools/bcftools_concat/bcftools_concat
View File

@@ -566,9 +566,9 @@ RUN echo "bcftools: \"$(bcftools --version | grep 'bcftools' | sed -n 's/^bcftoo
LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo"
LABEL org.opencontainers.image.description="Companion container for running component bcftools bcftools_concat"
LABEL org.opencontainers.image.created="2024-10-18T09:18:49Z"
LABEL org.opencontainers.image.created="2024-10-26T09:56:43Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/bcftools"
LABEL org.opencontainers.image.revision="7fb67a98539868b9af788338fb5f46d34ab742f7"
LABEL org.opencontainers.image.revision="6e6b13939c9d719f1cd7ff5a91a6562e0a6e2e29"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

6
target/executable/bcftools/bcftools_norm/.config.vsh.yaml
View File

@@ -416,9 +416,9 @@ build_info:
output: "target/executable/bcftools/bcftools_norm"
executable: "target/executable/bcftools/bcftools_norm/bcftools_norm"
viash_version: "0.9.0"
git_commit: "7fb67a98539868b9af788338fb5f46d34ab742f7"
git_remote: "https://x-access-token:ghs_lv5GvifOUhTQDSxrDFIWt5FoCBy00e2Tt6iO@github.com/viash-hub/biobox"
git_tag: "v0.2.0-11-g7fb67a9"
git_commit: "6e6b13939c9d719f1cd7ff5a91a6562e0a6e2e29"
git_remote: "https://x-access-token:ghs_yMJ96XEhcHROF2pqaopOfHbmZnWq3J2wWhaj@github.com/viash-hub/biobox"
git_tag: "v0.2.0-12-g6e6b139"
package_config:
name: "biobox"
version: "main"

4
target/executable/bcftools/bcftools_norm/bcftools_norm
View File

@@ -589,9 +589,9 @@ RUN echo "bcftools: \"$(bcftools --version | grep 'bcftools' | sed -n 's/^bcftoo
LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo"
LABEL org.opencontainers.image.description="Companion container for running component bcftools bcftools_norm"
LABEL org.opencontainers.image.created="2024-10-18T09:18:49Z"
LABEL org.opencontainers.image.created="2024-10-26T09:56:44Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/bcftools"
LABEL org.opencontainers.image.revision="7fb67a98539868b9af788338fb5f46d34ab742f7"
LABEL org.opencontainers.image.revision="6e6b13939c9d719f1cd7ff5a91a6562e0a6e2e29"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

6
target/executable/bcftools/bcftools_sort/.config.vsh.yaml
View File

@@ -185,9 +185,9 @@ build_info:
output: "target/executable/bcftools/bcftools_sort"
executable: "target/executable/bcftools/bcftools_sort/bcftools_sort"
viash_version: "0.9.0"
git_commit: "7fb67a98539868b9af788338fb5f46d34ab742f7"
git_remote: "https://x-access-token:ghs_lv5GvifOUhTQDSxrDFIWt5FoCBy00e2Tt6iO@github.com/viash-hub/biobox"
git_tag: "v0.2.0-11-g7fb67a9"
git_commit: "6e6b13939c9d719f1cd7ff5a91a6562e0a6e2e29"
git_remote: "https://x-access-token:ghs_yMJ96XEhcHROF2pqaopOfHbmZnWq3J2wWhaj@github.com/viash-hub/biobox"
git_tag: "v0.2.0-12-g6e6b139"
package_config:
name: "biobox"
version: "main"

4
target/executable/bcftools/bcftools_sort/bcftools_sort
View File

@@ -483,9 +483,9 @@ RUN echo "bcftools: \"$(bcftools --version | grep 'bcftools' | sed -n 's/^bcftoo
LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo"
LABEL org.opencontainers.image.description="Companion container for running component bcftools bcftools_sort"
LABEL org.opencontainers.image.created="2024-10-18T09:18:49Z"
LABEL org.opencontainers.image.created="2024-10-26T09:56:44Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/bcftools"
LABEL org.opencontainers.image.revision="7fb67a98539868b9af788338fb5f46d34ab742f7"
LABEL org.opencontainers.image.revision="6e6b13939c9d719f1cd7ff5a91a6562e0a6e2e29"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

6
target/executable/bcftools/bcftools_stats/.config.vsh.yaml
View File

@@ -458,9 +458,9 @@ build_info:
output: "target/executable/bcftools/bcftools_stats"
executable: "target/executable/bcftools/bcftools_stats/bcftools_stats"
viash_version: "0.9.0"
git_commit: "7fb67a98539868b9af788338fb5f46d34ab742f7"
git_remote: "https://x-access-token:ghs_lv5GvifOUhTQDSxrDFIWt5FoCBy00e2Tt6iO@github.com/viash-hub/biobox"
git_tag: "v0.2.0-11-g7fb67a9"
git_commit: "6e6b13939c9d719f1cd7ff5a91a6562e0a6e2e29"
git_remote: "https://x-access-token:ghs_yMJ96XEhcHROF2pqaopOfHbmZnWq3J2wWhaj@github.com/viash-hub/biobox"
git_tag: "v0.2.0-12-g6e6b139"
package_config:
name: "biobox"
version: "main"

4
target/executable/bcftools/bcftools_stats/bcftools_stats
View File

@@ -626,9 +626,9 @@ RUN echo "bcftools: \"$(bcftools --version | grep 'bcftools' | sed -n 's/^bcftoo
LABEL org.opencontainers.image.authors="Theodoro Gasperin Terra Camargo"
LABEL org.opencontainers.image.description="Companion container for running component bcftools bcftools_stats"
LABEL org.opencontainers.image.created="2024-10-18T09:18:48Z"
LABEL org.opencontainers.image.created="2024-10-26T09:56:43Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/bcftools"
LABEL org.opencontainers.image.revision="7fb67a98539868b9af788338fb5f46d34ab742f7"
LABEL org.opencontainers.image.revision="6e6b13939c9d719f1cd7ff5a91a6562e0a6e2e29"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER