Build branch v0.3 with version v0.3.9 (820318c)
Build pipeline: viash-hub.demultiplex.v0.3-5lwbd
Source commit: 820318c378
Source message: Bump version to v0.3.9
This commit is contained in:
@@ -1,6 +1,6 @@
|
||||
name: "interop_summary_to_csv"
|
||||
namespace: "io"
|
||||
version: "v0.3.8"
|
||||
version: "v0.3.9"
|
||||
argument_groups:
|
||||
- name: "Input arguments"
|
||||
arguments:
|
||||
@@ -43,8 +43,13 @@ resources:
|
||||
dest: "nextflow_labels.config"
|
||||
info: null
|
||||
status: "enabled"
|
||||
scope:
|
||||
image: "public"
|
||||
target: "public"
|
||||
requirements:
|
||||
commands:
|
||||
- "summary"
|
||||
- "index-summary"
|
||||
- "ps"
|
||||
license: "MIT"
|
||||
links:
|
||||
@@ -121,7 +126,7 @@ engines:
|
||||
id: "docker"
|
||||
image: "debian:stable-slim"
|
||||
target_registry: "images.viash-hub.com"
|
||||
target_tag: "v0.3.8"
|
||||
target_tag: "v0.3.9"
|
||||
namespace_separator: "/"
|
||||
setup:
|
||||
- type: "apt"
|
||||
@@ -145,29 +150,29 @@ build_info:
|
||||
engine: "docker|native"
|
||||
output: "target/executable/io/interop_summary_to_csv"
|
||||
executable: "target/executable/io/interop_summary_to_csv/interop_summary_to_csv"
|
||||
viash_version: "0.9.0"
|
||||
git_commit: "dafe2d829079bd5a9f5eb4e7cf63e92edbf1a742"
|
||||
viash_version: "0.9.4"
|
||||
git_commit: "820318c378d8119e2aa98768282e43c2aa017ba7"
|
||||
git_remote: "https://github.com/viash-hub/demultiplex"
|
||||
git_tag: "v0.3.5-9-gdafe2d8"
|
||||
git_tag: "v0.3.8-5-g820318c"
|
||||
package_config:
|
||||
name: "demultiplex"
|
||||
version: "v0.3.8"
|
||||
version: "v0.3.9"
|
||||
description: "Demultiplexing pipeline\n"
|
||||
info:
|
||||
test_resources:
|
||||
- path: "gs://viash-hub-test-data/demultiplex/v2/"
|
||||
dest: "testData"
|
||||
viash_version: "0.9.0"
|
||||
viash_version: "0.9.4"
|
||||
source: "src"
|
||||
target: "target"
|
||||
config_mods:
|
||||
- ".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].directives.tag\
|
||||
- ".requirements.commands += ['ps']\n.runners[.type == 'nextflow'].directives.tag\
|
||||
\ := '$id'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n\
|
||||
.runners[.type == 'nextflow'].config.script := 'includeConfig(\"nextflow_labels.config\"\
|
||||
)'\n"
|
||||
- ".engines += { type: \"native\" }"
|
||||
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
|
||||
- ".engines[.type == 'docker'].target_tag := 'v0.3.8'"
|
||||
- ".engines[.type == 'docker'].target_tag := 'v0.3.9'"
|
||||
keywords:
|
||||
- "bioinformatics"
|
||||
- "sequence"
|
||||
|
||||
@@ -1,8 +1,8 @@
|
||||
#!/usr/bin/env bash
|
||||
|
||||
# interop_summary_to_csv v0.3.8
|
||||
# interop_summary_to_csv v0.3.9
|
||||
#
|
||||
# This wrapper script is auto-generated by viash 0.9.0 and is thus a derivative
|
||||
# This wrapper script is auto-generated by viash 0.9.4 and is thus a derivative
|
||||
# work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
|
||||
# Intuitive.
|
||||
#
|
||||
@@ -169,22 +169,6 @@ VIASH_META_CONFIG="$VIASH_META_RESOURCES_DIR/.config.vsh.yaml"
|
||||
VIASH_META_TEMP_DIR="$VIASH_TEMP"
|
||||
|
||||
|
||||
# ViashHelp: Display helpful explanation about this executable
|
||||
function ViashHelp {
|
||||
echo "interop_summary_to_csv v0.3.8"
|
||||
echo ""
|
||||
echo "Input arguments:"
|
||||
echo " --input"
|
||||
echo " type: file, required parameter, file must exist"
|
||||
echo " Sequencing run folder (*not* InterOp folder)."
|
||||
echo ""
|
||||
echo "Output arguments:"
|
||||
echo " --output_run_summary"
|
||||
echo " type: file, required parameter, output, file must exist"
|
||||
echo ""
|
||||
echo " --output_index_summary"
|
||||
echo " type: file, required parameter, output, file must exist"
|
||||
}
|
||||
|
||||
# initialise variables
|
||||
VIASH_MODE='run'
|
||||
@@ -470,10 +454,10 @@ tar -C /tmp/ --no-same-owner --no-same-permissions -xvf /tmp/interop.tar.gz && \
|
||||
mv /tmp/interop-1.3.1-Linux-GNU/bin/index-summary /tmp/interop-1.3.1-Linux-GNU/bin/summary /usr/local/bin/
|
||||
|
||||
LABEL org.opencontainers.image.description="Companion container for running component io interop_summary_to_csv"
|
||||
LABEL org.opencontainers.image.created="2025-03-27T16:00:55Z"
|
||||
LABEL org.opencontainers.image.created="2025-04-25T12:13:39Z"
|
||||
LABEL org.opencontainers.image.source="https://github.com/viash-hub/demultiplex"
|
||||
LABEL org.opencontainers.image.revision="dafe2d829079bd5a9f5eb4e7cf63e92edbf1a742"
|
||||
LABEL org.opencontainers.image.version="v0.3.8"
|
||||
LABEL org.opencontainers.image.revision="820318c378d8119e2aa98768282e43c2aa017ba7"
|
||||
LABEL org.opencontainers.image.version="v0.3.9"
|
||||
|
||||
VIASHDOCKER
|
||||
fi
|
||||
@@ -587,6 +571,48 @@ fi
|
||||
# initialise docker variables
|
||||
VIASH_DOCKER_RUN_ARGS=(-i --rm)
|
||||
|
||||
|
||||
# ViashHelp: Display helpful explanation about this executable
|
||||
function ViashHelp {
|
||||
echo "interop_summary_to_csv v0.3.9"
|
||||
echo ""
|
||||
echo "Input arguments:"
|
||||
echo " --input"
|
||||
echo " type: file, required parameter, file must exist"
|
||||
echo " Sequencing run folder (*not* InterOp folder)."
|
||||
echo ""
|
||||
echo "Output arguments:"
|
||||
echo " --output_run_summary"
|
||||
echo " type: file, required parameter, output, file must exist"
|
||||
echo ""
|
||||
echo " --output_index_summary"
|
||||
echo " type: file, required parameter, output, file must exist"
|
||||
echo ""
|
||||
echo "Viash built in Computational Requirements:"
|
||||
echo " ---cpus=INT"
|
||||
echo " Number of CPUs to use"
|
||||
echo " ---memory=STRING"
|
||||
echo " Amount of memory to use. Examples: 4GB, 3MiB."
|
||||
echo ""
|
||||
echo "Viash built in Docker:"
|
||||
echo " ---setup=STRATEGY"
|
||||
echo " Setup the docker container. Options are: alwaysbuild, alwayscachedbuild, ifneedbebuild, ifneedbecachedbuild, alwayspull, alwayspullelsebuild, alwayspullelsecachedbuild, ifneedbepull, ifneedbepullelsebuild, ifneedbepullelsecachedbuild, push, pushifnotpresent, donothing."
|
||||
echo " Default: ifneedbepullelsecachedbuild"
|
||||
echo " ---dockerfile"
|
||||
echo " Print the dockerfile to stdout."
|
||||
echo " ---docker_run_args=ARG"
|
||||
echo " Provide runtime arguments to Docker. See the documentation on \`docker run\` for more information."
|
||||
echo " ---docker_image_id"
|
||||
echo " Print the docker image id to stdout."
|
||||
echo " ---debug"
|
||||
echo " Enter the docker container for debugging purposes."
|
||||
echo ""
|
||||
echo "Viash built in Engines:"
|
||||
echo " ---engine=ENGINE_ID"
|
||||
echo " Specify the engine to use. Options are: docker, native."
|
||||
echo " Default: docker"
|
||||
}
|
||||
|
||||
# initialise array
|
||||
VIASH_POSITIONAL_ARGS=''
|
||||
|
||||
@@ -609,7 +635,7 @@ while [[ $# -gt 0 ]]; do
|
||||
shift 1
|
||||
;;
|
||||
--version)
|
||||
echo "interop_summary_to_csv v0.3.8"
|
||||
echo "interop_summary_to_csv v0.3.9"
|
||||
exit
|
||||
;;
|
||||
--input)
|
||||
@@ -733,7 +759,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
|
||||
|
||||
# determine docker image id
|
||||
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
|
||||
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/demultiplex/io/interop_summary_to_csv:v0.3.8'
|
||||
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/demultiplex/io/interop_summary_to_csv:v0.3.9'
|
||||
fi
|
||||
|
||||
# print dockerfile
|
||||
@@ -755,13 +781,13 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
|
||||
# build docker image
|
||||
elif [ "$VIASH_MODE" == "setup" ]; then
|
||||
ViashDockerSetup "$VIASH_DOCKER_IMAGE_ID" "$VIASH_SETUP_STRATEGY"
|
||||
ViashDockerCheckCommands "$VIASH_DOCKER_IMAGE_ID" 'ps' 'bash'
|
||||
ViashDockerCheckCommands "$VIASH_DOCKER_IMAGE_ID" 'summary' 'index-summary' 'ps' 'bash'
|
||||
exit 0
|
||||
fi
|
||||
|
||||
# check if docker image exists
|
||||
ViashDockerSetup "$VIASH_DOCKER_IMAGE_ID" ifneedbepullelsecachedbuild
|
||||
ViashDockerCheckCommands "$VIASH_DOCKER_IMAGE_ID" 'ps' 'bash'
|
||||
ViashDockerCheckCommands "$VIASH_DOCKER_IMAGE_ID" 'summary' 'index-summary' 'ps' 'bash'
|
||||
fi
|
||||
|
||||
# setting computational defaults
|
||||
|
||||
@@ -1,6 +1,6 @@
|
||||
name: "publish"
|
||||
namespace: "io"
|
||||
version: "v0.3.8"
|
||||
version: "v0.3.9"
|
||||
argument_groups:
|
||||
- name: "Input arguments"
|
||||
arguments:
|
||||
@@ -100,6 +100,9 @@ resources:
|
||||
description: "Publish the processed results of the run"
|
||||
info: null
|
||||
status: "enabled"
|
||||
scope:
|
||||
image: "public"
|
||||
target: "public"
|
||||
requirements:
|
||||
commands:
|
||||
- "ps"
|
||||
@@ -178,7 +181,7 @@ engines:
|
||||
id: "docker"
|
||||
image: "debian:stable-slim"
|
||||
target_registry: "images.viash-hub.com"
|
||||
target_tag: "v0.3.8"
|
||||
target_tag: "v0.3.9"
|
||||
namespace_separator: "/"
|
||||
setup:
|
||||
- type: "apt"
|
||||
@@ -195,29 +198,29 @@ build_info:
|
||||
engine: "docker|native"
|
||||
output: "target/executable/io/publish"
|
||||
executable: "target/executable/io/publish/publish"
|
||||
viash_version: "0.9.0"
|
||||
git_commit: "dafe2d829079bd5a9f5eb4e7cf63e92edbf1a742"
|
||||
viash_version: "0.9.4"
|
||||
git_commit: "820318c378d8119e2aa98768282e43c2aa017ba7"
|
||||
git_remote: "https://github.com/viash-hub/demultiplex"
|
||||
git_tag: "v0.3.5-9-gdafe2d8"
|
||||
git_tag: "v0.3.8-5-g820318c"
|
||||
package_config:
|
||||
name: "demultiplex"
|
||||
version: "v0.3.8"
|
||||
version: "v0.3.9"
|
||||
description: "Demultiplexing pipeline\n"
|
||||
info:
|
||||
test_resources:
|
||||
- path: "gs://viash-hub-test-data/demultiplex/v2/"
|
||||
dest: "testData"
|
||||
viash_version: "0.9.0"
|
||||
viash_version: "0.9.4"
|
||||
source: "src"
|
||||
target: "target"
|
||||
config_mods:
|
||||
- ".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].directives.tag\
|
||||
- ".requirements.commands += ['ps']\n.runners[.type == 'nextflow'].directives.tag\
|
||||
\ := '$id'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n\
|
||||
.runners[.type == 'nextflow'].config.script := 'includeConfig(\"nextflow_labels.config\"\
|
||||
)'\n"
|
||||
- ".engines += { type: \"native\" }"
|
||||
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
|
||||
- ".engines[.type == 'docker'].target_tag := 'v0.3.8'"
|
||||
- ".engines[.type == 'docker'].target_tag := 'v0.3.9'"
|
||||
keywords:
|
||||
- "bioinformatics"
|
||||
- "sequence"
|
||||
|
||||
@@ -1,8 +1,8 @@
|
||||
#!/usr/bin/env bash
|
||||
|
||||
# publish v0.3.8
|
||||
# publish v0.3.9
|
||||
#
|
||||
# This wrapper script is auto-generated by viash 0.9.0 and is thus a derivative
|
||||
# This wrapper script is auto-generated by viash 0.9.4 and is thus a derivative
|
||||
# work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
|
||||
# Intuitive.
|
||||
#
|
||||
@@ -169,46 +169,6 @@ VIASH_META_CONFIG="$VIASH_META_RESOURCES_DIR/.config.vsh.yaml"
|
||||
VIASH_META_TEMP_DIR="$VIASH_TEMP"
|
||||
|
||||
|
||||
# ViashHelp: Display helpful explanation about this executable
|
||||
function ViashHelp {
|
||||
echo "publish v0.3.8"
|
||||
echo ""
|
||||
echo "Publish the processed results of the run"
|
||||
echo ""
|
||||
echo "Input arguments:"
|
||||
echo " --input"
|
||||
echo " type: file, required parameter, file must exist"
|
||||
echo " Directory to write fastq data to"
|
||||
echo ""
|
||||
echo " --input_falco"
|
||||
echo " type: file, required parameter, multiple values allowed, file must exist"
|
||||
echo " Directory to write falco output to"
|
||||
echo ""
|
||||
echo " --input_multiqc"
|
||||
echo " type: file, required parameter, file must exist"
|
||||
echo " Location where to write the MultiQC report to."
|
||||
echo ""
|
||||
echo " --input_run_information"
|
||||
echo " type: file, required parameter, file must exist"
|
||||
echo " Location where to write the run information to."
|
||||
echo ""
|
||||
echo "Output arguments:"
|
||||
echo " --output"
|
||||
echo " type: file, output, file must exist"
|
||||
echo " default: fastq"
|
||||
echo ""
|
||||
echo " --output_falco"
|
||||
echo " type: file, output, file must exist"
|
||||
echo " default: qc/fastqc"
|
||||
echo ""
|
||||
echo " --output_multiqc"
|
||||
echo " type: file, output, file must exist"
|
||||
echo " default: qc/multiqc_report.html"
|
||||
echo ""
|
||||
echo " --output_run_information"
|
||||
echo " type: file, output, file must exist"
|
||||
echo " default: run_information.csv"
|
||||
}
|
||||
|
||||
# initialise variables
|
||||
VIASH_MODE='run'
|
||||
@@ -490,10 +450,10 @@ RUN apt-get update && \
|
||||
rm -rf /var/lib/apt/lists/*
|
||||
|
||||
LABEL org.opencontainers.image.description="Companion container for running component io publish"
|
||||
LABEL org.opencontainers.image.created="2025-03-27T16:00:54Z"
|
||||
LABEL org.opencontainers.image.created="2025-04-25T12:13:38Z"
|
||||
LABEL org.opencontainers.image.source="https://github.com/viash-hub/demultiplex"
|
||||
LABEL org.opencontainers.image.revision="dafe2d829079bd5a9f5eb4e7cf63e92edbf1a742"
|
||||
LABEL org.opencontainers.image.version="v0.3.8"
|
||||
LABEL org.opencontainers.image.revision="820318c378d8119e2aa98768282e43c2aa017ba7"
|
||||
LABEL org.opencontainers.image.version="v0.3.9"
|
||||
|
||||
VIASHDOCKER
|
||||
fi
|
||||
@@ -607,6 +567,72 @@ fi
|
||||
# initialise docker variables
|
||||
VIASH_DOCKER_RUN_ARGS=(-i --rm)
|
||||
|
||||
|
||||
# ViashHelp: Display helpful explanation about this executable
|
||||
function ViashHelp {
|
||||
echo "publish v0.3.9"
|
||||
echo ""
|
||||
echo "Publish the processed results of the run"
|
||||
echo ""
|
||||
echo "Input arguments:"
|
||||
echo " --input"
|
||||
echo " type: file, required parameter, file must exist"
|
||||
echo " Directory to write fastq data to"
|
||||
echo ""
|
||||
echo " --input_falco"
|
||||
echo " type: file, required parameter, multiple values allowed, file must exist"
|
||||
echo " Directory to write falco output to"
|
||||
echo ""
|
||||
echo " --input_multiqc"
|
||||
echo " type: file, required parameter, file must exist"
|
||||
echo " Location where to write the MultiQC report to."
|
||||
echo ""
|
||||
echo " --input_run_information"
|
||||
echo " type: file, required parameter, file must exist"
|
||||
echo " Location where to write the run information to."
|
||||
echo ""
|
||||
echo "Output arguments:"
|
||||
echo " --output"
|
||||
echo " type: file, output, file must exist"
|
||||
echo " default: fastq"
|
||||
echo ""
|
||||
echo " --output_falco"
|
||||
echo " type: file, output, file must exist"
|
||||
echo " default: qc/fastqc"
|
||||
echo ""
|
||||
echo " --output_multiqc"
|
||||
echo " type: file, output, file must exist"
|
||||
echo " default: qc/multiqc_report.html"
|
||||
echo ""
|
||||
echo " --output_run_information"
|
||||
echo " type: file, output, file must exist"
|
||||
echo " default: run_information.csv"
|
||||
echo ""
|
||||
echo "Viash built in Computational Requirements:"
|
||||
echo " ---cpus=INT"
|
||||
echo " Number of CPUs to use"
|
||||
echo " ---memory=STRING"
|
||||
echo " Amount of memory to use. Examples: 4GB, 3MiB."
|
||||
echo ""
|
||||
echo "Viash built in Docker:"
|
||||
echo " ---setup=STRATEGY"
|
||||
echo " Setup the docker container. Options are: alwaysbuild, alwayscachedbuild, ifneedbebuild, ifneedbecachedbuild, alwayspull, alwayspullelsebuild, alwayspullelsecachedbuild, ifneedbepull, ifneedbepullelsebuild, ifneedbepullelsecachedbuild, push, pushifnotpresent, donothing."
|
||||
echo " Default: ifneedbepullelsecachedbuild"
|
||||
echo " ---dockerfile"
|
||||
echo " Print the dockerfile to stdout."
|
||||
echo " ---docker_run_args=ARG"
|
||||
echo " Provide runtime arguments to Docker. See the documentation on \`docker run\` for more information."
|
||||
echo " ---docker_image_id"
|
||||
echo " Print the docker image id to stdout."
|
||||
echo " ---debug"
|
||||
echo " Enter the docker container for debugging purposes."
|
||||
echo ""
|
||||
echo "Viash built in Engines:"
|
||||
echo " ---engine=ENGINE_ID"
|
||||
echo " Specify the engine to use. Options are: docker, native."
|
||||
echo " Default: docker"
|
||||
}
|
||||
|
||||
# initialise array
|
||||
VIASH_POSITIONAL_ARGS=''
|
||||
|
||||
@@ -629,7 +655,7 @@ while [[ $# -gt 0 ]]; do
|
||||
shift 1
|
||||
;;
|
||||
--version)
|
||||
echo "publish v0.3.8"
|
||||
echo "publish v0.3.9"
|
||||
exit
|
||||
;;
|
||||
--input)
|
||||
@@ -814,7 +840,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
|
||||
|
||||
# determine docker image id
|
||||
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
|
||||
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/demultiplex/io/publish:v0.3.8'
|
||||
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/demultiplex/io/publish:v0.3.9'
|
||||
fi
|
||||
|
||||
# print dockerfile
|
||||
|
||||
@@ -1,6 +1,6 @@
|
||||
name: "untar"
|
||||
namespace: "io"
|
||||
version: "v0.3.8"
|
||||
version: "v0.3.9"
|
||||
argument_groups:
|
||||
- name: "Input arguments"
|
||||
arguments:
|
||||
@@ -57,6 +57,9 @@ test_resources:
|
||||
is_executable: true
|
||||
info: null
|
||||
status: "enabled"
|
||||
scope:
|
||||
image: "public"
|
||||
target: "public"
|
||||
requirements:
|
||||
commands:
|
||||
- "ps"
|
||||
@@ -135,7 +138,7 @@ engines:
|
||||
id: "docker"
|
||||
image: "debian:stable-slim"
|
||||
target_registry: "images.viash-hub.com"
|
||||
target_tag: "v0.3.8"
|
||||
target_tag: "v0.3.9"
|
||||
namespace_separator: "/"
|
||||
setup:
|
||||
- type: "apt"
|
||||
@@ -152,29 +155,29 @@ build_info:
|
||||
engine: "docker|native"
|
||||
output: "target/executable/io/untar"
|
||||
executable: "target/executable/io/untar/untar"
|
||||
viash_version: "0.9.0"
|
||||
git_commit: "dafe2d829079bd5a9f5eb4e7cf63e92edbf1a742"
|
||||
viash_version: "0.9.4"
|
||||
git_commit: "820318c378d8119e2aa98768282e43c2aa017ba7"
|
||||
git_remote: "https://github.com/viash-hub/demultiplex"
|
||||
git_tag: "v0.3.5-9-gdafe2d8"
|
||||
git_tag: "v0.3.8-5-g820318c"
|
||||
package_config:
|
||||
name: "demultiplex"
|
||||
version: "v0.3.8"
|
||||
version: "v0.3.9"
|
||||
description: "Demultiplexing pipeline\n"
|
||||
info:
|
||||
test_resources:
|
||||
- path: "gs://viash-hub-test-data/demultiplex/v2/"
|
||||
dest: "testData"
|
||||
viash_version: "0.9.0"
|
||||
viash_version: "0.9.4"
|
||||
source: "src"
|
||||
target: "target"
|
||||
config_mods:
|
||||
- ".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].directives.tag\
|
||||
- ".requirements.commands += ['ps']\n.runners[.type == 'nextflow'].directives.tag\
|
||||
\ := '$id'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n\
|
||||
.runners[.type == 'nextflow'].config.script := 'includeConfig(\"nextflow_labels.config\"\
|
||||
)'\n"
|
||||
- ".engines += { type: \"native\" }"
|
||||
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
|
||||
- ".engines[.type == 'docker'].target_tag := 'v0.3.8'"
|
||||
- ".engines[.type == 'docker'].target_tag := 'v0.3.9'"
|
||||
keywords:
|
||||
- "bioinformatics"
|
||||
- "sequence"
|
||||
|
||||
@@ -1,8 +1,8 @@
|
||||
#!/usr/bin/env bash
|
||||
|
||||
# untar v0.3.8
|
||||
# untar v0.3.9
|
||||
#
|
||||
# This wrapper script is auto-generated by viash 0.9.0 and is thus a derivative
|
||||
# This wrapper script is auto-generated by viash 0.9.4 and is thus a derivative
|
||||
# work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
|
||||
# Intuitive.
|
||||
#
|
||||
@@ -169,32 +169,6 @@ VIASH_META_CONFIG="$VIASH_META_RESOURCES_DIR/.config.vsh.yaml"
|
||||
VIASH_META_TEMP_DIR="$VIASH_TEMP"
|
||||
|
||||
|
||||
# ViashHelp: Display helpful explanation about this executable
|
||||
function ViashHelp {
|
||||
echo "untar v0.3.8"
|
||||
echo ""
|
||||
echo "Unpack a .tar file. When the contents of the .tar file is just a single"
|
||||
echo "directory,"
|
||||
echo "put the contents of the directory into the output folder instead of that"
|
||||
echo "directory."
|
||||
echo ""
|
||||
echo "Input arguments:"
|
||||
echo " --input"
|
||||
echo " type: file, required parameter, file must exist"
|
||||
echo " Tarball file to be unpacked."
|
||||
echo ""
|
||||
echo "Output arguments:"
|
||||
echo " --output"
|
||||
echo " type: file, required parameter, output, file must exist"
|
||||
echo " Directory to write the contents of the .tar file to."
|
||||
echo ""
|
||||
echo "Other arguments:"
|
||||
echo " -e, --exclude"
|
||||
echo " type: string"
|
||||
echo " example: docs/figures"
|
||||
echo " Prevents any file or member whose name matches the shell wildcard"
|
||||
echo " (pattern) from being extracted."
|
||||
}
|
||||
|
||||
# initialise variables
|
||||
VIASH_MODE='run'
|
||||
@@ -476,10 +450,10 @@ RUN apt-get update && \
|
||||
rm -rf /var/lib/apt/lists/*
|
||||
|
||||
LABEL org.opencontainers.image.description="Companion container for running component io untar"
|
||||
LABEL org.opencontainers.image.created="2025-03-27T16:00:54Z"
|
||||
LABEL org.opencontainers.image.created="2025-04-25T12:13:38Z"
|
||||
LABEL org.opencontainers.image.source="https://github.com/viash-hub/demultiplex"
|
||||
LABEL org.opencontainers.image.revision="dafe2d829079bd5a9f5eb4e7cf63e92edbf1a742"
|
||||
LABEL org.opencontainers.image.version="v0.3.8"
|
||||
LABEL org.opencontainers.image.revision="820318c378d8119e2aa98768282e43c2aa017ba7"
|
||||
LABEL org.opencontainers.image.version="v0.3.9"
|
||||
|
||||
VIASHDOCKER
|
||||
fi
|
||||
@@ -593,6 +567,58 @@ fi
|
||||
# initialise docker variables
|
||||
VIASH_DOCKER_RUN_ARGS=(-i --rm)
|
||||
|
||||
|
||||
# ViashHelp: Display helpful explanation about this executable
|
||||
function ViashHelp {
|
||||
echo "untar v0.3.9"
|
||||
echo ""
|
||||
echo "Unpack a .tar file. When the contents of the .tar file is just a single"
|
||||
echo "directory,"
|
||||
echo "put the contents of the directory into the output folder instead of that"
|
||||
echo "directory."
|
||||
echo ""
|
||||
echo "Input arguments:"
|
||||
echo " --input"
|
||||
echo " type: file, required parameter, file must exist"
|
||||
echo " Tarball file to be unpacked."
|
||||
echo ""
|
||||
echo "Output arguments:"
|
||||
echo " --output"
|
||||
echo " type: file, required parameter, output, file must exist"
|
||||
echo " Directory to write the contents of the .tar file to."
|
||||
echo ""
|
||||
echo "Other arguments:"
|
||||
echo " -e, --exclude"
|
||||
echo " type: string"
|
||||
echo " example: docs/figures"
|
||||
echo " Prevents any file or member whose name matches the shell wildcard"
|
||||
echo " (pattern) from being extracted."
|
||||
echo ""
|
||||
echo "Viash built in Computational Requirements:"
|
||||
echo " ---cpus=INT"
|
||||
echo " Number of CPUs to use"
|
||||
echo " ---memory=STRING"
|
||||
echo " Amount of memory to use. Examples: 4GB, 3MiB."
|
||||
echo ""
|
||||
echo "Viash built in Docker:"
|
||||
echo " ---setup=STRATEGY"
|
||||
echo " Setup the docker container. Options are: alwaysbuild, alwayscachedbuild, ifneedbebuild, ifneedbecachedbuild, alwayspull, alwayspullelsebuild, alwayspullelsecachedbuild, ifneedbepull, ifneedbepullelsebuild, ifneedbepullelsecachedbuild, push, pushifnotpresent, donothing."
|
||||
echo " Default: ifneedbepullelsecachedbuild"
|
||||
echo " ---dockerfile"
|
||||
echo " Print the dockerfile to stdout."
|
||||
echo " ---docker_run_args=ARG"
|
||||
echo " Provide runtime arguments to Docker. See the documentation on \`docker run\` for more information."
|
||||
echo " ---docker_image_id"
|
||||
echo " Print the docker image id to stdout."
|
||||
echo " ---debug"
|
||||
echo " Enter the docker container for debugging purposes."
|
||||
echo ""
|
||||
echo "Viash built in Engines:"
|
||||
echo " ---engine=ENGINE_ID"
|
||||
echo " Specify the engine to use. Options are: docker, native."
|
||||
echo " Default: docker"
|
||||
}
|
||||
|
||||
# initialise array
|
||||
VIASH_POSITIONAL_ARGS=''
|
||||
|
||||
@@ -615,7 +641,7 @@ while [[ $# -gt 0 ]]; do
|
||||
shift 1
|
||||
;;
|
||||
--version)
|
||||
echo "untar v0.3.8"
|
||||
echo "untar v0.3.9"
|
||||
exit
|
||||
;;
|
||||
--input)
|
||||
@@ -745,7 +771,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
|
||||
|
||||
# determine docker image id
|
||||
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
|
||||
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/demultiplex/io/untar:v0.3.8'
|
||||
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/demultiplex/io/untar:v0.3.9'
|
||||
fi
|
||||
|
||||
# print dockerfile
|
||||
|
||||
Reference in New Issue
Block a user