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Build branch main with version main (38f635a)

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Build pipeline: viash-hub.biobox.main-dz9k8

Source commit: 38f635ad57

Source message: Add agat convert genscan2gff (#100)

* add config

* add help

* add test data and expected output adn the script to obtain them

* add running script

* add test script

* update changelog

* cleanup

* fix tests

* format description

* remove unused argument --inflate-off

* update --config description

* add requirements

* create temporary directory and clean up on exit

* add GENSCAN in keywords

* add set -e to test

* fix create temporary directory

* add set -eo pipefail to test

* add set -eo pipefail to script

* fix create temporary directory

* update --config description

* cleanup changelog

* cleanup changelog

* Update deprecated variable

---------

Co-authored-by: Robrecht Cannoodt <rcannood@gmail.com>
This commit is contained in:
CI
2024-09-17 07:19:20 +00:00
parent 4b61e09a56
commit f47054953e
255 changed files with 8531 additions and 1561 deletions
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9
target/executable/samtools/samtools_fastq/.config.vsh.yaml
View File

@@ -432,15 +432,16 @@ build_info:
engine: "docker|native"
output: "target/executable/samtools/samtools_fastq"
executable: "target/executable/samtools/samtools_fastq/samtools_fastq"
viash_version: "0.9.0-RC7"
git_commit: "124d50ce5318b612e4a1e4da1be705523cd6eab7"
git_remote: "https://x-access-token:ghs_royCfknE2TdPwJPOM1bW31Qho8HPrM4SPutG@github.com/viash-hub/biobox"
viash_version: "0.9.0"
git_commit: "38f635ad57ef05550bba3a0864c81627f84f5ad2"
git_remote: "https://x-access-token:ghs_wFnCgH6LWyegjU3sAMvKhUKRQxXHxx2DXwds@github.com/viash-hub/biobox"
git_tag: "v0.2.0-2-g38f635a"
package_config:
name: "biobox"
version: "main"
description: "A collection of bioinformatics tools for working with sequence data.\n"
info: null
viash_version: "0.9.0-RC7"
viash_version: "0.9.0"
source: "src"
target: "target"
config_mods:

10
target/executable/samtools/samtools_fastq/samtools_fastq
View File

@@ -2,9 +2,9 @@
# samtools_fastq main
#
# This wrapper script is auto-generated by viash 0.9.0-RC7 and is thus a
# derivative work thereof. This software comes with ABSOLUTELY NO WARRANTY from
# Data Intuitive.
# This wrapper script is auto-generated by viash 0.9.0 and is thus a derivative
# work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
# Intuitive.
#
# The component may contain files which fall under a different license. The
# authors of this component should specify the license in the header of such
@@ -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="2024-09-16T07:55:05Z"
LABEL org.opencontainers.image.created="2024-09-17T06:47:23Z"
LABEL org.opencontainers.image.source="https://github.com/samtools/samtools"
LABEL org.opencontainers.image.revision="124d50ce5318b612e4a1e4da1be705523cd6eab7"
LABEL org.opencontainers.image.revision="38f635ad57ef05550bba3a0864c81627f84f5ad2"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER