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Build branch v0.5 with version v0.5.5 (04bc538)

Browse Source 
Build pipeline: viash-hub.htrnaseq.v0.5-nr288

Source commit: 04bc53879d

Source message: Bump version to v0.5.5
This commit is contained in:
CI
2025-02-28 14:11:22 +00:00
parent 57190206fe
commit c7c4845b30
80 changed files with 463 additions and 368 deletions
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6
CHANGELOG.md
View File

@@ -1,3 +1,9 @@
# htrnaseq v0.5.5
## New functionality
* Add `umi_length` parameter to the `runner` workflow (PR #46)
# htrnaseq v0.5.4
* Fix missing barcodes in the output from `generate_pool_statistics`, which caused an assertion error in `create_pdata`.

2
_viash.yaml
View File

@@ -1,5 +1,5 @@
name: htrnaseq
version: v0.5.4
version: v0.5.5
description: |
High-throughput pipeline [WIP]
license: MIT

6
src/workflows/runner/config.vsh.yaml
View File

@@ -23,6 +23,12 @@ argument_groups:
type: string
multiple: true
default: ["Undetermined"]
- name: "--umi_length"
description: |
Length of the UMI sequences
type: integer
min: 1
default: 10
- name: Metadata arguments
arguments:
- name: --id

1
src/workflows/runner/main.nf
View File

@@ -75,6 +75,7 @@ workflow run_wf {
barcodesFasta: "barcodesFasta",
genomeDir: "genomeDir",
annotation: "annotation",
umi_length: "umi_length",
],
toState: { id, result, state -> state + result }
)

11
target/executable/eset/create_eset/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "create_eset"
namespace: "eset"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -172,7 +172,7 @@ engines:
id: "docker"
image: "rocker/r2u:24.04"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "r"
@@ -198,11 +198,12 @@ build_info:
output: "target/executable/eset/create_eset"
executable: "target/executable/eset/create_eset/create_eset"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -217,7 +218,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

14
target/executable/eset/create_eset/create_eset
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# create_eset v0.5.4
# create_eset v0.5.5
#
# 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
@@ -175,7 +175,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "create_eset v0.5.4"
echo "create_eset v0.5.5"
echo ""
echo "Arguments:"
echo " --pDataFile"
@@ -477,10 +477,10 @@ RUN Rscript -e 'if (!requireNamespace("remotes", quietly = TRUE)) install.packag
LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke"
LABEL org.opencontainers.image.description="Companion container for running component eset create_eset"
LABEL org.opencontainers.image.created="2025-02-21T11:04:39Z"
LABEL org.opencontainers.image.created="2025-02-28T13:28:36Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
LABEL org.opencontainers.image.revision="e41d8828866c686d58001cec72ff3e86b2ddf9dc"
LABEL org.opencontainers.image.version="v0.5.4"
LABEL org.opencontainers.image.revision="04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
LABEL org.opencontainers.image.version="v0.5.5"
VIASHDOCKER
fi
@@ -616,7 +616,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "create_eset v0.5.4"
echo "create_eset v0.5.5"
exit
;;
--pDataFile)
@@ -768,7 +768,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/eset/create_eset:v0.5.4'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/eset/create_eset:v0.5.5'
fi
# print dockerfile

11
target/executable/eset/create_fdata/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "create_fdata"
namespace: "eset"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -148,7 +148,7 @@ engines:
id: "docker"
image: "python:3.12-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -177,11 +177,12 @@ build_info:
output: "target/executable/eset/create_fdata"
executable: "target/executable/eset/create_fdata/create_fdata"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -196,7 +197,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

14
target/executable/eset/create_fdata/create_fdata
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# create_fdata v0.5.4
# create_fdata v0.5.5
#
# 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
@@ -175,7 +175,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "create_fdata v0.5.4"
echo "create_fdata v0.5.5"
echo ""
echo "Create a fdata file"
echo ""
@@ -478,10 +478,10 @@ RUN pip install --upgrade pip && \
LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke"
LABEL org.opencontainers.image.description="Companion container for running component eset create_fdata"
LABEL org.opencontainers.image.created="2025-02-21T11:04:40Z"
LABEL org.opencontainers.image.created="2025-02-28T13:28:35Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
LABEL org.opencontainers.image.revision="e41d8828866c686d58001cec72ff3e86b2ddf9dc"
LABEL org.opencontainers.image.version="v0.5.4"
LABEL org.opencontainers.image.revision="04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
LABEL org.opencontainers.image.version="v0.5.5"
VIASHDOCKER
fi
@@ -617,7 +617,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "create_fdata v0.5.4"
echo "create_fdata v0.5.5"
exit
;;
--gtf)
@@ -730,7 +730,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/eset/create_fdata:v0.5.4'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/eset/create_fdata:v0.5.5'
fi
# print dockerfile

11
target/executable/eset/create_pdata/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "create_pdata"
namespace: "eset"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -162,7 +162,7 @@ engines:
id: "docker"
image: "python:3.12-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -191,11 +191,12 @@ build_info:
output: "target/executable/eset/create_pdata"
executable: "target/executable/eset/create_pdata/create_pdata"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -210,7 +211,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

14
target/executable/eset/create_pdata/create_pdata
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# create_pdata v0.5.4
# create_pdata v0.5.5
#
# 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
@@ -175,7 +175,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "create_pdata v0.5.4"
echo "create_pdata v0.5.5"
echo ""
echo "Create a pdata file by combining the mapping statistics"
echo ""
@@ -488,10 +488,10 @@ RUN pip install --upgrade pip && \
LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke"
LABEL org.opencontainers.image.description="Companion container for running component eset create_pdata"
LABEL org.opencontainers.image.created="2025-02-21T11:04:39Z"
LABEL org.opencontainers.image.created="2025-02-28T13:28:37Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
LABEL org.opencontainers.image.revision="e41d8828866c686d58001cec72ff3e86b2ddf9dc"
LABEL org.opencontainers.image.version="v0.5.4"
LABEL org.opencontainers.image.revision="04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
LABEL org.opencontainers.image.version="v0.5.5"
VIASHDOCKER
fi
@@ -627,7 +627,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "create_pdata v0.5.4"
echo "create_pdata v0.5.5"
exit
;;
--star_stats_file)
@@ -751,7 +751,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/eset/create_pdata:v0.5.4'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/eset/create_pdata:v0.5.5'
fi
# print dockerfile

11
target/executable/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "check_eset"
namespace: "integration_test_components/htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -128,7 +128,7 @@ engines:
id: "docker"
image: "bioconductor/bioconductor_docker:3.19"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "r"
@@ -148,11 +148,12 @@ build_info:
output: "target/executable/integration_test_components/htrnaseq/check_eset"
executable: "target/executable/integration_test_components/htrnaseq/check_eset/check_eset"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -167,7 +168,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

14
target/executable/integration_test_components/htrnaseq/check_eset/check_eset
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# check_eset v0.5.4
# check_eset v0.5.5
#
# 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
@@ -174,7 +174,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "check_eset v0.5.4"
echo "check_eset v0.5.5"
echo ""
echo "This component test the ExpressionSet object as output by the main pipeline."
echo ""
@@ -470,10 +470,10 @@ RUN Rscript -e 'if (!requireNamespace("remotes", quietly = TRUE)) install.packag
LABEL org.opencontainers.image.authors="Dries Schaumont"
LABEL org.opencontainers.image.description="Companion container for running component integration_test_components/htrnaseq check_eset"
LABEL org.opencontainers.image.created="2025-02-21T11:04:40Z"
LABEL org.opencontainers.image.created="2025-02-28T13:28:37Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
LABEL org.opencontainers.image.revision="e41d8828866c686d58001cec72ff3e86b2ddf9dc"
LABEL org.opencontainers.image.version="v0.5.4"
LABEL org.opencontainers.image.revision="04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
LABEL org.opencontainers.image.version="v0.5.5"
VIASHDOCKER
fi
@@ -609,7 +609,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "check_eset v0.5.4"
echo "check_eset v0.5.5"
exit
;;
--eset)
@@ -728,7 +728,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/integration_test_components/htrnaseq/check_eset:v0.5.4'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/integration_test_components/htrnaseq/check_eset:v0.5.5'
fi
# print dockerfile

11
target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "check_cutadapt_output"
namespace: "integration_test_components/well_demultiplexing"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -135,7 +135,7 @@ engines:
id: "docker"
image: "python:3.12-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -158,11 +158,12 @@ build_info:
output: "target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output"
executable: "target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/check_cutadapt_output"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -177,7 +178,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

14
target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/check_cutadapt_output
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# check_cutadapt_output v0.5.4
# check_cutadapt_output v0.5.5
#
# 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
@@ -174,7 +174,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "check_cutadapt_output v0.5.4"
echo "check_cutadapt_output v0.5.5"
echo ""
echo "This component test the cutadapt output from the well_demultiplex subworkflow."
echo ""
@@ -476,10 +476,10 @@ RUN pip install --upgrade pip && \
LABEL org.opencontainers.image.authors="Dries Schaumont"
LABEL org.opencontainers.image.description="Companion container for running component integration_test_components/well_demultiplexing check_cutadapt_output"
LABEL org.opencontainers.image.created="2025-02-21T11:04:39Z"
LABEL org.opencontainers.image.created="2025-02-28T13:28:36Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
LABEL org.opencontainers.image.revision="e41d8828866c686d58001cec72ff3e86b2ddf9dc"
LABEL org.opencontainers.image.version="v0.5.4"
LABEL org.opencontainers.image.revision="04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
LABEL org.opencontainers.image.version="v0.5.5"
VIASHDOCKER
fi
@@ -615,7 +615,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "check_cutadapt_output v0.5.4"
echo "check_cutadapt_output v0.5.5"
exit
;;
--fastq_r1)
@@ -757,7 +757,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/integration_test_components/well_demultiplexing/check_cutadapt_output:v0.5.4'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/integration_test_components/well_demultiplexing/check_cutadapt_output:v0.5.5'
fi
# print dockerfile

11
target/executable/io/publish_fastqs/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "publish_fastqs"
namespace: "io"
version: "v0.5.4"
version: "v0.5.5"
argument_groups:
- name: "Input arguments"
arguments:
@@ -125,7 +125,7 @@ engines:
id: "docker"
image: "debian:stable-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -143,11 +143,12 @@ build_info:
output: "target/executable/io/publish_fastqs"
executable: "target/executable/io/publish_fastqs/publish_fastqs"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -162,7 +163,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

14
target/executable/io/publish_fastqs/publish_fastqs
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# publish_fastqs v0.5.4
# publish_fastqs v0.5.5
#
# 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
@@ -171,7 +171,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "publish_fastqs v0.5.4"
echo "publish_fastqs v0.5.5"
echo ""
echo "Publish the fastq files per well"
echo ""
@@ -470,10 +470,10 @@ RUN apt-get update && \
rm -rf /var/lib/apt/lists/*
LABEL org.opencontainers.image.description="Companion container for running component io publish_fastqs"
LABEL org.opencontainers.image.created="2025-02-21T11:04:38Z"
LABEL org.opencontainers.image.created="2025-02-28T13:28:36Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
LABEL org.opencontainers.image.revision="e41d8828866c686d58001cec72ff3e86b2ddf9dc"
LABEL org.opencontainers.image.version="v0.5.4"
LABEL org.opencontainers.image.revision="04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
LABEL org.opencontainers.image.version="v0.5.5"
VIASHDOCKER
fi
@@ -609,7 +609,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "publish_fastqs v0.5.4"
echo "publish_fastqs v0.5.5"
exit
;;
--input_r1)
@@ -745,7 +745,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/io/publish_fastqs:v0.5.4'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/io/publish_fastqs:v0.5.5'
fi
# print dockerfile

11
target/executable/io/publish_results/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "publish_results"
namespace: "io"
version: "v0.5.4"
version: "v0.5.5"
argument_groups:
- name: "Input arguments"
arguments:
@@ -169,7 +169,7 @@ engines:
id: "docker"
image: "debian:stable-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -187,11 +187,12 @@ build_info:
output: "target/executable/io/publish_results"
executable: "target/executable/io/publish_results/publish_results"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -206,7 +207,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

14
target/executable/io/publish_results/publish_results
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# publish_results v0.5.4
# publish_results v0.5.5
#
# 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
@@ -171,7 +171,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "publish_results v0.5.4"
echo "publish_results v0.5.5"
echo ""
echo "Publish the results"
echo ""
@@ -484,10 +484,10 @@ RUN apt-get update && \
rm -rf /var/lib/apt/lists/*
LABEL org.opencontainers.image.description="Companion container for running component io publish_results"
LABEL org.opencontainers.image.created="2025-02-21T11:04:38Z"
LABEL org.opencontainers.image.created="2025-02-28T13:28:35Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
LABEL org.opencontainers.image.revision="e41d8828866c686d58001cec72ff3e86b2ddf9dc"
LABEL org.opencontainers.image.version="v0.5.4"
LABEL org.opencontainers.image.revision="04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
LABEL org.opencontainers.image.version="v0.5.5"
VIASHDOCKER
fi
@@ -623,7 +623,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "publish_results v0.5.4"
echo "publish_results v0.5.5"
exit
;;
--star_output)
@@ -838,7 +838,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/io/publish_results:v0.5.4'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/io/publish_results:v0.5.5'
fi
# print dockerfile

11
target/executable/parallel_map/.config.vsh.yaml
View File

@@ -1,5 +1,5 @@
name: "parallel_map"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -242,7 +242,7 @@ engines:
id: "docker"
image: "debian:stable-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -279,11 +279,12 @@ build_info:
output: "target/executable/parallel_map"
executable: "target/executable/parallel_map/parallel_map"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -298,7 +299,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

14
target/executable/parallel_map/parallel_map
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# parallel_map v0.5.4
# parallel_map v0.5.5
#
# 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
@@ -175,7 +175,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "parallel_map v0.5.4"
echo "parallel_map v0.5.5"
echo ""
echo "Map wells in batch, using STAR"
echo "Spliced Transcripts Alignment to a Reference (C) Alexander Dobin"
@@ -540,10 +540,10 @@ ENV STAR_BINARY=STAR
COPY STAR /usr/local/bin/$STAR_BINARY
LABEL org.opencontainers.image.authors="Dries Schaumont, Toni Verbeiren"
LABEL org.opencontainers.image.description="Companion container for running component parallel_map"
LABEL org.opencontainers.image.created="2025-02-21T11:04:40Z"
LABEL org.opencontainers.image.created="2025-02-28T13:28:37Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
LABEL org.opencontainers.image.revision="e41d8828866c686d58001cec72ff3e86b2ddf9dc"
LABEL org.opencontainers.image.version="v0.5.4"
LABEL org.opencontainers.image.revision="04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
LABEL org.opencontainers.image.version="v0.5.5"
VIASHDOCKER
fi
@@ -679,7 +679,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "parallel_map v0.5.4"
echo "parallel_map v0.5.5"
exit
;;
--input_r1)
@@ -881,7 +881,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/parallel_map:v0.5.4'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/parallel_map:v0.5.5'
fi
# print dockerfile

11
target/executable/report/create_report/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "create_report"
namespace: "report"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -153,7 +153,7 @@ engines:
id: "docker"
image: "rocker/r2u:24.04"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -201,11 +201,12 @@ build_info:
output: "target/executable/report/create_report"
executable: "target/executable/report/create_report/create_report"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -220,7 +221,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

14
target/executable/report/create_report/create_report
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# create_report v0.5.4
# create_report v0.5.5
#
# 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
@@ -175,7 +175,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "create_report v0.5.4"
echo "create_report v0.5.5"
echo ""
echo "Create a basic QC report in HTML format based on a number of esets."
echo ""
@@ -476,10 +476,10 @@ RUN Rscript -e 'if (!requireNamespace("remotes", quietly = TRUE)) install.packag
LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke"
LABEL org.opencontainers.image.description="Companion container for running component report create_report"
LABEL org.opencontainers.image.created="2025-02-21T11:04:40Z"
LABEL org.opencontainers.image.created="2025-02-28T13:28:36Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
LABEL org.opencontainers.image.revision="e41d8828866c686d58001cec72ff3e86b2ddf9dc"
LABEL org.opencontainers.image.version="v0.5.4"
LABEL org.opencontainers.image.revision="04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
LABEL org.opencontainers.image.version="v0.5.5"
VIASHDOCKER
fi
@@ -615,7 +615,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "create_report v0.5.4"
echo "create_report v0.5.5"
exit
;;
--eset)
@@ -734,7 +734,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/report/create_report:v0.5.4'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/report/create_report:v0.5.5'
fi
# print dockerfile

11
target/executable/stats/combine_star_logs/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "combine_star_logs"
namespace: "stats"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -169,7 +169,7 @@ engines:
id: "docker"
image: "python:3.12-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -198,11 +198,12 @@ build_info:
output: "target/executable/stats/combine_star_logs"
executable: "target/executable/stats/combine_star_logs/combine_star_logs"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -217,7 +218,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

14
target/executable/stats/combine_star_logs/combine_star_logs
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# combine_star_logs v0.5.4
# combine_star_logs v0.5.5
#
# 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
@@ -174,7 +174,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "combine_star_logs v0.5.4"
echo "combine_star_logs v0.5.5"
echo ""
echo "Arguments:"
echo " --barcodes"
@@ -490,10 +490,10 @@ RUN pip install --upgrade pip && \
LABEL org.opencontainers.image.authors="Dries Schaumont"
LABEL org.opencontainers.image.description="Companion container for running component stats combine_star_logs"
LABEL org.opencontainers.image.created="2025-02-21T11:04:38Z"
LABEL org.opencontainers.image.created="2025-02-28T13:28:37Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
LABEL org.opencontainers.image.revision="e41d8828866c686d58001cec72ff3e86b2ddf9dc"
LABEL org.opencontainers.image.version="v0.5.4"
LABEL org.opencontainers.image.revision="04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
LABEL org.opencontainers.image.version="v0.5.5"
VIASHDOCKER
fi
@@ -629,7 +629,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "combine_star_logs v0.5.4"
echo "combine_star_logs v0.5.5"
exit
;;
--barcodes)
@@ -799,7 +799,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/stats/combine_star_logs:v0.5.4'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/stats/combine_star_logs:v0.5.5'
fi
# print dockerfile

11
target/executable/stats/generate_pool_statistics/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "generate_pool_statistics"
namespace: "stats"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -153,7 +153,7 @@ engines:
id: "docker"
image: "python:3.12-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -182,11 +182,12 @@ build_info:
output: "target/executable/stats/generate_pool_statistics"
executable: "target/executable/stats/generate_pool_statistics/generate_pool_statistics"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -201,7 +202,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

14
target/executable/stats/generate_pool_statistics/generate_pool_statistics
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# generate_pool_statistics v0.5.4
# generate_pool_statistics v0.5.5
#
# 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
@@ -175,7 +175,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "generate_pool_statistics v0.5.4"
echo "generate_pool_statistics v0.5.5"
echo ""
echo "Arguments:"
echo " --nrReadsNrGenesPerChrom"
@@ -483,10 +483,10 @@ RUN pip install --upgrade pip && \
LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke"
LABEL org.opencontainers.image.description="Companion container for running component stats generate_pool_statistics"
LABEL org.opencontainers.image.created="2025-02-21T11:04:38Z"
LABEL org.opencontainers.image.created="2025-02-28T13:28:36Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
LABEL org.opencontainers.image.revision="e41d8828866c686d58001cec72ff3e86b2ddf9dc"
LABEL org.opencontainers.image.version="v0.5.4"
LABEL org.opencontainers.image.revision="04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
LABEL org.opencontainers.image.version="v0.5.5"
VIASHDOCKER
fi
@@ -622,7 +622,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "generate_pool_statistics v0.5.4"
echo "generate_pool_statistics v0.5.5"
exit
;;
--nrReadsNrGenesPerChrom)
@@ -741,7 +741,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/stats/generate_pool_statistics:v0.5.4'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/stats/generate_pool_statistics:v0.5.5'
fi
# print dockerfile

11
target/executable/stats/generate_well_statistics/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "generate_well_statistics"
namespace: "stats"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -224,7 +224,7 @@ engines:
id: "docker"
image: "debian:stable-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "docker"
@@ -264,11 +264,12 @@ build_info:
output: "target/executable/stats/generate_well_statistics"
executable: "target/executable/stats/generate_well_statistics/generate_well_statistics"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -283,7 +284,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

14
target/executable/stats/generate_well_statistics/generate_well_statistics
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# generate_well_statistics v0.5.4
# generate_well_statistics v0.5.5
#
# 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
@@ -175,7 +175,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "generate_well_statistics v0.5.4"
echo "generate_well_statistics v0.5.5"
echo ""
echo "Generate summary statistics from BAM files generated by STAR solo."
echo ""
@@ -520,10 +520,10 @@ RUN pip install --upgrade pip && \
LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke"
LABEL org.opencontainers.image.description="Companion container for running component stats generate_well_statistics"
LABEL org.opencontainers.image.created="2025-02-21T11:04:39Z"
LABEL org.opencontainers.image.created="2025-02-28T13:28:36Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
LABEL org.opencontainers.image.revision="e41d8828866c686d58001cec72ff3e86b2ddf9dc"
LABEL org.opencontainers.image.version="v0.5.4"
LABEL org.opencontainers.image.revision="04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
LABEL org.opencontainers.image.version="v0.5.5"
VIASHDOCKER
fi
@@ -659,7 +659,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "generate_well_statistics v0.5.4"
echo "generate_well_statistics v0.5.5"
exit
;;
--input)
@@ -838,7 +838,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/stats/generate_well_statistics:v0.5.4'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/stats/generate_well_statistics:v0.5.5'
fi
# print dockerfile

11
target/nextflow/eset/create_eset/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "create_eset"
namespace: "eset"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -172,7 +172,7 @@ engines:
id: "docker"
image: "rocker/r2u:24.04"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "r"
@@ -198,11 +198,12 @@ build_info:
output: "target/nextflow/eset/create_eset"
executable: "target/nextflow/eset/create_eset/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -217,7 +218,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

17
target/nextflow/eset/create_eset/main.nf
View File

@@ -1,4 +1,4 @@
// create_eset v0.5.4
// create_eset v0.5.5
//
// 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
@@ -2810,7 +2810,7 @@ meta = [
"config": processConfig(readJsonBlob('''{
"name" : "create_eset",
"namespace" : "eset",
"version" : "v0.5.4",
"version" : "v0.5.5",
"authors" : [
{
"name" : "Dries Schaumont",
@@ -3036,7 +3036,7 @@ meta = [
"id" : "docker",
"image" : "rocker/r2u:24.04",
"target_registry" : "images.viash-hub.com",
"target_tag" : "v0.5.4",
"target_tag" : "v0.5.5",
"namespace_separator" : "/",
"setup" : [
{
@@ -3072,12 +3072,13 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/eset/create_eset",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3094,7 +3095,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",
@@ -3946,7 +3947,7 @@ meta["defaults"] = [
"container" : {
"registry" : "images.viash-hub.com",
"image" : "vsh/htrnaseq/eset/create_eset",
"tag" : "v0.5.4"
"tag" : "v0.5.5"
},
"tag" : "$id"
}'''),

2
target/nextflow/eset/create_eset/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'eset/create_eset'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
author = 'Dries Schaumont, Marijke Van Moerbeke'
}

11
target/nextflow/eset/create_fdata/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "create_fdata"
namespace: "eset"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -148,7 +148,7 @@ engines:
id: "docker"
image: "python:3.12-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -177,11 +177,12 @@ build_info:
output: "target/nextflow/eset/create_fdata"
executable: "target/nextflow/eset/create_fdata/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -196,7 +197,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

17
target/nextflow/eset/create_fdata/main.nf
View File

@@ -1,4 +1,4 @@
// create_fdata v0.5.4
// create_fdata v0.5.5
//
// 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
@@ -2810,7 +2810,7 @@ meta = [
"config": processConfig(readJsonBlob('''{
"name" : "create_fdata",
"namespace" : "eset",
"version" : "v0.5.4",
"version" : "v0.5.5",
"authors" : [
{
"name" : "Dries Schaumont",
@@ -3003,7 +3003,7 @@ meta = [
"id" : "docker",
"image" : "python:3.12-slim",
"target_registry" : "images.viash-hub.com",
"target_tag" : "v0.5.4",
"target_tag" : "v0.5.5",
"namespace_separator" : "/",
"setup" : [
{
@@ -3044,12 +3044,13 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/eset/create_fdata",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3066,7 +3067,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",
@@ -3613,7 +3614,7 @@ meta["defaults"] = [
"container" : {
"registry" : "images.viash-hub.com",
"image" : "vsh/htrnaseq/eset/create_fdata",
"tag" : "v0.5.4"
"tag" : "v0.5.5"
},
"tag" : "$id"
}'''),

2
target/nextflow/eset/create_fdata/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'eset/create_fdata'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
description = 'Create a fdata file\n'
author = 'Dries Schaumont, Marijke Van Moerbeke'
}

11
target/nextflow/eset/create_pdata/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "create_pdata"
namespace: "eset"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -162,7 +162,7 @@ engines:
id: "docker"
image: "python:3.12-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -191,11 +191,12 @@ build_info:
output: "target/nextflow/eset/create_pdata"
executable: "target/nextflow/eset/create_pdata/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -210,7 +211,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

17
target/nextflow/eset/create_pdata/main.nf
View File

@@ -1,4 +1,4 @@
// create_pdata v0.5.4
// create_pdata v0.5.5
//
// 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
@@ -2810,7 +2810,7 @@ meta = [
"config": processConfig(readJsonBlob('''{
"name" : "create_pdata",
"namespace" : "eset",
"version" : "v0.5.4",
"version" : "v0.5.5",
"authors" : [
{
"name" : "Dries Schaumont",
@@ -3017,7 +3017,7 @@ meta = [
"id" : "docker",
"image" : "python:3.12-slim",
"target_registry" : "images.viash-hub.com",
"target_tag" : "v0.5.4",
"target_tag" : "v0.5.5",
"namespace_separator" : "/",
"setup" : [
{
@@ -3058,12 +3058,13 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/eset/create_pdata",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3080,7 +3081,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",
@@ -3553,7 +3554,7 @@ meta["defaults"] = [
"container" : {
"registry" : "images.viash-hub.com",
"image" : "vsh/htrnaseq/eset/create_pdata",
"tag" : "v0.5.4"
"tag" : "v0.5.5"
},
"tag" : "$id"
}'''),

2
target/nextflow/eset/create_pdata/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'eset/create_pdata'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
description = 'Create a pdata file by combining the mapping statistics \n'
author = 'Dries Schaumont, Marijke Van Moerbeke'
}

11
target/nextflow/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "check_eset"
namespace: "integration_test_components/htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -128,7 +128,7 @@ engines:
id: "docker"
image: "bioconductor/bioconductor_docker:3.19"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "r"
@@ -148,11 +148,12 @@ build_info:
output: "target/nextflow/integration_test_components/htrnaseq/check_eset"
executable: "target/nextflow/integration_test_components/htrnaseq/check_eset/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -167,7 +168,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

17
target/nextflow/integration_test_components/htrnaseq/check_eset/main.nf
View File

@@ -1,4 +1,4 @@
// check_eset v0.5.4
// check_eset v0.5.5
//
// 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
@@ -2809,7 +2809,7 @@ meta = [
"config": processConfig(readJsonBlob('''{
"name" : "check_eset",
"namespace" : "integration_test_components/htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"authors" : [
{
"name" : "Dries Schaumont",
@@ -2971,7 +2971,7 @@ meta = [
"id" : "docker",
"image" : "bioconductor/bioconductor_docker:3.19",
"target_registry" : "images.viash-hub.com",
"target_tag" : "v0.5.4",
"target_tag" : "v0.5.5",
"namespace_separator" : "/",
"setup" : [
{
@@ -2997,12 +2997,13 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/integration_test_components/htrnaseq/check_eset",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3019,7 +3020,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",
@@ -3646,7 +3647,7 @@ meta["defaults"] = [
"container" : {
"registry" : "images.viash-hub.com",
"image" : "vsh/htrnaseq/integration_test_components/htrnaseq/check_eset",
"tag" : "v0.5.4"
"tag" : "v0.5.5"
},
"tag" : "$id"
}'''),

2
target/nextflow/integration_test_components/htrnaseq/check_eset/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'integration_test_components/htrnaseq/check_eset'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
description = 'This component test the ExpressionSet object as output by the main pipeline.'
author = 'Dries Schaumont'
}

11
target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "check_cutadapt_output"
namespace: "integration_test_components/well_demultiplexing"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -135,7 +135,7 @@ engines:
id: "docker"
image: "python:3.12-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -158,11 +158,12 @@ build_info:
output: "target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output"
executable: "target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -177,7 +178,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

17
target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output/main.nf
View File

@@ -1,4 +1,4 @@
// check_cutadapt_output v0.5.4
// check_cutadapt_output v0.5.5
//
// 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
@@ -2809,7 +2809,7 @@ meta = [
"config": processConfig(readJsonBlob('''{
"name" : "check_cutadapt_output",
"namespace" : "integration_test_components/well_demultiplexing",
"version" : "v0.5.4",
"version" : "v0.5.5",
"authors" : [
{
"name" : "Dries Schaumont",
@@ -2978,7 +2978,7 @@ meta = [
"id" : "docker",
"image" : "python:3.12-slim",
"target_registry" : "images.viash-hub.com",
"target_tag" : "v0.5.4",
"target_tag" : "v0.5.5",
"namespace_separator" : "/",
"setup" : [
{
@@ -3009,12 +3009,13 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3031,7 +3032,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",
@@ -3527,7 +3528,7 @@ meta["defaults"] = [
"container" : {
"registry" : "images.viash-hub.com",
"image" : "vsh/htrnaseq/integration_test_components/well_demultiplexing/check_cutadapt_output",
"tag" : "v0.5.4"
"tag" : "v0.5.5"
},
"tag" : "$id"
}'''),

2
target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'integration_test_components/well_demultiplexing/check_cutadapt_output'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
description = 'This component test the cutadapt output from the well_demultiplex subworkflow.'
author = 'Dries Schaumont'
}

11
target/nextflow/io/publish_fastqs/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "publish_fastqs"
namespace: "io"
version: "v0.5.4"
version: "v0.5.5"
argument_groups:
- name: "Input arguments"
arguments:
@@ -125,7 +125,7 @@ engines:
id: "docker"
image: "debian:stable-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -143,11 +143,12 @@ build_info:
output: "target/nextflow/io/publish_fastqs"
executable: "target/nextflow/io/publish_fastqs/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -162,7 +163,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

17
target/nextflow/io/publish_fastqs/main.nf
View File

@@ -1,4 +1,4 @@
// publish_fastqs v0.5.4
// publish_fastqs v0.5.5
//
// 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
@@ -2806,7 +2806,7 @@ meta = [
"config": processConfig(readJsonBlob('''{
"name" : "publish_fastqs",
"namespace" : "io",
"version" : "v0.5.4",
"version" : "v0.5.5",
"argument_groups" : [
{
"name" : "Input arguments",
@@ -2960,7 +2960,7 @@ meta = [
"id" : "docker",
"image" : "debian:stable-slim",
"target_registry" : "images.viash-hub.com",
"target_tag" : "v0.5.4",
"target_tag" : "v0.5.5",
"namespace_separator" : "/",
"setup" : [
{
@@ -2983,12 +2983,13 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/io/publish_fastqs",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3005,7 +3006,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",
@@ -3440,7 +3441,7 @@ meta["defaults"] = [
"container" : {
"registry" : "images.viash-hub.com",
"image" : "vsh/htrnaseq/io/publish_fastqs",
"tag" : "v0.5.4"
"tag" : "v0.5.5"
},
"tag" : "$id"
}'''),

2
target/nextflow/io/publish_fastqs/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'io/publish_fastqs'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
description = 'Publish the fastq files per well'
}

11
target/nextflow/io/publish_results/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "publish_results"
namespace: "io"
version: "v0.5.4"
version: "v0.5.5"
argument_groups:
- name: "Input arguments"
arguments:
@@ -169,7 +169,7 @@ engines:
id: "docker"
image: "debian:stable-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -187,11 +187,12 @@ build_info:
output: "target/nextflow/io/publish_results"
executable: "target/nextflow/io/publish_results/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -206,7 +207,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

17
target/nextflow/io/publish_results/main.nf
View File

@@ -1,4 +1,4 @@
// publish_results v0.5.4
// publish_results v0.5.5
//
// 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
@@ -2806,7 +2806,7 @@ meta = [
"config": processConfig(readJsonBlob('''{
"name" : "publish_results",
"namespace" : "io",
"version" : "v0.5.4",
"version" : "v0.5.5",
"argument_groups" : [
{
"name" : "Input arguments",
@@ -3009,7 +3009,7 @@ meta = [
"id" : "docker",
"image" : "debian:stable-slim",
"target_registry" : "images.viash-hub.com",
"target_tag" : "v0.5.4",
"target_tag" : "v0.5.5",
"namespace_separator" : "/",
"setup" : [
{
@@ -3032,12 +3032,13 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/io/publish_results",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3054,7 +3055,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",
@@ -3516,7 +3517,7 @@ meta["defaults"] = [
"container" : {
"registry" : "images.viash-hub.com",
"image" : "vsh/htrnaseq/io/publish_results",
"tag" : "v0.5.4"
"tag" : "v0.5.5"
},
"tag" : "$id"
}'''),

2
target/nextflow/io/publish_results/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'io/publish_results'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
description = 'Publish the results'
}

11
target/nextflow/parallel_map/.config.vsh.yaml
View File

@@ -1,5 +1,5 @@
name: "parallel_map"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -242,7 +242,7 @@ engines:
id: "docker"
image: "debian:stable-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -279,11 +279,12 @@ build_info:
output: "target/nextflow/parallel_map"
executable: "target/nextflow/parallel_map/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -298,7 +299,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

17
target/nextflow/parallel_map/main.nf
View File

@@ -1,4 +1,4 @@
// parallel_map v0.5.4
// parallel_map v0.5.5
//
// 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
@@ -2809,7 +2809,7 @@ meta = [
"resources_dir": moduleDir.toRealPath().normalize(),
"config": processConfig(readJsonBlob('''{
"name" : "parallel_map",
"version" : "v0.5.4",
"version" : "v0.5.5",
"authors" : [
{
"name" : "Dries Schaumont",
@@ -3097,7 +3097,7 @@ meta = [
"id" : "docker",
"image" : "debian:stable-slim",
"target_registry" : "images.viash-hub.com",
"target_tag" : "v0.5.4",
"target_tag" : "v0.5.5",
"namespace_separator" : "/",
"setup" : [
{
@@ -3144,12 +3144,13 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/parallel_map",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3166,7 +3167,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",
@@ -3911,7 +3912,7 @@ meta["defaults"] = [
"container" : {
"registry" : "images.viash-hub.com",
"image" : "vsh/htrnaseq/parallel_map",
"tag" : "v0.5.4"
"tag" : "v0.5.5"
},
"tag" : "$id"
}'''),

2
target/nextflow/parallel_map/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'parallel_map'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
description = 'Map wells in batch, using STAR\nSpliced Transcripts Alignment to a Reference (C) Alexander Dobin\nhttps://github.com/alexdobin/STAR\n'
author = 'Dries Schaumont, Toni Verbeiren'
}

11
target/nextflow/report/create_report/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "create_report"
namespace: "report"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -153,7 +153,7 @@ engines:
id: "docker"
image: "rocker/r2u:24.04"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -201,11 +201,12 @@ build_info:
output: "target/nextflow/report/create_report"
executable: "target/nextflow/report/create_report/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -220,7 +221,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

17
target/nextflow/report/create_report/main.nf
View File

@@ -1,4 +1,4 @@
// create_report v0.5.4
// create_report v0.5.5
//
// 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
@@ -2810,7 +2810,7 @@ meta = [
"config": processConfig(readJsonBlob('''{
"name" : "create_report",
"namespace" : "report",
"version" : "v0.5.4",
"version" : "v0.5.5",
"authors" : [
{
"name" : "Dries Schaumont",
@@ -3016,7 +3016,7 @@ meta = [
"id" : "docker",
"image" : "rocker/r2u:24.04",
"target_registry" : "images.viash-hub.com",
"target_tag" : "v0.5.4",
"target_tag" : "v0.5.5",
"namespace_separator" : "/",
"setup" : [
{
@@ -3077,12 +3077,13 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/report/create_report",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3099,7 +3100,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",
@@ -3561,7 +3562,7 @@ meta["defaults"] = [
"container" : {
"registry" : "images.viash-hub.com",
"image" : "vsh/htrnaseq/report/create_report",
"tag" : "v0.5.4"
"tag" : "v0.5.5"
},
"tag" : "$id"
}'''),

2
target/nextflow/report/create_report/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'report/create_report'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
description = 'Create a basic QC report in HTML format based on a number of esets.\n'
author = 'Dries Schaumont, Marijke Van Moerbeke'
}

11
target/nextflow/stats/combine_star_logs/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "combine_star_logs"
namespace: "stats"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -169,7 +169,7 @@ engines:
id: "docker"
image: "python:3.12-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -198,11 +198,12 @@ build_info:
output: "target/nextflow/stats/combine_star_logs"
executable: "target/nextflow/stats/combine_star_logs/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -217,7 +218,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

17
target/nextflow/stats/combine_star_logs/main.nf
View File

@@ -1,4 +1,4 @@
// combine_star_logs v0.5.4
// combine_star_logs v0.5.5
//
// 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
@@ -2809,7 +2809,7 @@ meta = [
"config": processConfig(readJsonBlob('''{
"name" : "combine_star_logs",
"namespace" : "stats",
"version" : "v0.5.4",
"version" : "v0.5.5",
"authors" : [
{
"name" : "Dries Schaumont",
@@ -3019,7 +3019,7 @@ meta = [
"id" : "docker",
"image" : "python:3.12-slim",
"target_registry" : "images.viash-hub.com",
"target_tag" : "v0.5.4",
"target_tag" : "v0.5.5",
"namespace_separator" : "/",
"setup" : [
{
@@ -3060,12 +3060,13 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/stats/combine_star_logs",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3082,7 +3083,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",
@@ -3718,7 +3719,7 @@ meta["defaults"] = [
"container" : {
"registry" : "images.viash-hub.com",
"image" : "vsh/htrnaseq/stats/combine_star_logs",
"tag" : "v0.5.4"
"tag" : "v0.5.5"
},
"tag" : "$id"
}'''),

2
target/nextflow/stats/combine_star_logs/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'stats/combine_star_logs'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
author = 'Dries Schaumont'
}

11
target/nextflow/stats/generate_pool_statistics/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "generate_pool_statistics"
namespace: "stats"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -153,7 +153,7 @@ engines:
id: "docker"
image: "python:3.12-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "apt"
@@ -182,11 +182,12 @@ build_info:
output: "target/nextflow/stats/generate_pool_statistics"
executable: "target/nextflow/stats/generate_pool_statistics/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -201,7 +202,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

17
target/nextflow/stats/generate_pool_statistics/main.nf
View File

@@ -1,4 +1,4 @@
// generate_pool_statistics v0.5.4
// generate_pool_statistics v0.5.5
//
// 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
@@ -2810,7 +2810,7 @@ meta = [
"config": processConfig(readJsonBlob('''{
"name" : "generate_pool_statistics",
"namespace" : "stats",
"version" : "v0.5.4",
"version" : "v0.5.5",
"authors" : [
{
"name" : "Dries Schaumont",
@@ -3003,7 +3003,7 @@ meta = [
"id" : "docker",
"image" : "python:3.12-slim",
"target_registry" : "images.viash-hub.com",
"target_tag" : "v0.5.4",
"target_tag" : "v0.5.5",
"namespace_separator" : "/",
"setup" : [
{
@@ -3044,12 +3044,13 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/stats/generate_pool_statistics",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3066,7 +3067,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",
@@ -3573,7 +3574,7 @@ meta["defaults"] = [
"container" : {
"registry" : "images.viash-hub.com",
"image" : "vsh/htrnaseq/stats/generate_pool_statistics",
"tag" : "v0.5.4"
"tag" : "v0.5.5"
},
"tag" : "$id"
}'''),

2
target/nextflow/stats/generate_pool_statistics/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'stats/generate_pool_statistics'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
author = 'Dries Schaumont, Marijke Van Moerbeke'
}

11
target/nextflow/stats/generate_well_statistics/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "generate_well_statistics"
namespace: "stats"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -224,7 +224,7 @@ engines:
id: "docker"
image: "debian:stable-slim"
target_registry: "images.viash-hub.com"
target_tag: "v0.5.4"
target_tag: "v0.5.5"
namespace_separator: "/"
setup:
- type: "docker"
@@ -264,11 +264,12 @@ build_info:
output: "target/nextflow/stats/generate_well_statistics"
executable: "target/nextflow/stats/generate_well_statistics/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -283,7 +284,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

17
target/nextflow/stats/generate_well_statistics/main.nf
View File

@@ -1,4 +1,4 @@
// generate_well_statistics v0.5.4
// generate_well_statistics v0.5.5
//
// 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
@@ -2810,7 +2810,7 @@ meta = [
"config": processConfig(readJsonBlob('''{
"name" : "generate_well_statistics",
"namespace" : "stats",
"version" : "v0.5.4",
"version" : "v0.5.5",
"authors" : [
{
"name" : "Dries Schaumont",
@@ -3084,7 +3084,7 @@ meta = [
"id" : "docker",
"image" : "debian:stable-slim",
"target_registry" : "images.viash-hub.com",
"target_tag" : "v0.5.4",
"target_tag" : "v0.5.5",
"namespace_separator" : "/",
"setup" : [
{
@@ -3139,12 +3139,13 @@ meta = [
"engine" : "docker|native",
"output" : "target/nextflow/stats/generate_well_statistics",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3161,7 +3162,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",
@@ -3659,7 +3660,7 @@ meta["defaults"] = [
"container" : {
"registry" : "images.viash-hub.com",
"image" : "vsh/htrnaseq/stats/generate_well_statistics",
"tag" : "v0.5.4"
"tag" : "v0.5.5"
},
"tag" : "$id"
}'''),

2
target/nextflow/stats/generate_well_statistics/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'stats/generate_well_statistics'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
description = 'Generate summary statistics from BAM files generated by STAR solo.'
author = 'Dries Schaumont, Marijke Van Moerbeke'
}

9
target/nextflow/utils/listInputDir/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "listInputDir"
namespace: "utils"
version: "v0.5.4"
version: "v0.5.5"
argument_groups:
- name: "Arguments"
arguments:
@@ -165,11 +165,12 @@ build_info:
output: "target/nextflow/utils/listInputDir"
executable: "target/nextflow/utils/listInputDir/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -184,7 +185,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

13
target/nextflow/utils/listInputDir/main.nf
View File

@@ -1,4 +1,4 @@
// listInputDir v0.5.4
// listInputDir v0.5.5
//
// 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
@@ -2806,7 +2806,7 @@ meta = [
"config": processConfig(readJsonBlob('''{
"name" : "listInputDir",
"namespace" : "utils",
"version" : "v0.5.4",
"version" : "v0.5.5",
"argument_groups" : [
{
"name" : "Arguments",
@@ -3004,12 +3004,13 @@ meta = [
"engine" : "native|native",
"output" : "target/nextflow/utils/listInputDir",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3026,7 +3027,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",

2
target/nextflow/utils/listInputDir/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'utils/listInputDir'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
description = 'List the contents of a directory and parse contained fastq files'
}

9
target/nextflow/workflows/htrnaseq/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "htrnaseq"
namespace: "workflows"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -323,8 +323,9 @@ build_info:
output: "target/nextflow/workflows/htrnaseq"
executable: "target/nextflow/workflows/htrnaseq/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
dependencies:
- "target/nextflow/stats/combine_star_logs"
- "target/nextflow/stats/generate_pool_statistics"
@@ -338,7 +339,7 @@ build_info:
- "target/nextflow/report/create_report"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -353,7 +354,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

13
target/nextflow/workflows/htrnaseq/main.nf
View File

@@ -1,4 +1,4 @@
// htrnaseq v0.5.4
// htrnaseq v0.5.5
//
// 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
@@ -2809,7 +2809,7 @@ meta = [
"config": processConfig(readJsonBlob('''{
"name" : "htrnaseq",
"namespace" : "workflows",
"version" : "v0.5.4",
"version" : "v0.5.5",
"authors" : [
{
"name" : "Dries Schaumont",
@@ -3229,12 +3229,13 @@ meta = [
"engine" : "native|native",
"output" : "target/nextflow/workflows/htrnaseq",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3251,7 +3252,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",

2
target/nextflow/workflows/htrnaseq/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'workflows/htrnaseq'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
author = 'Dries Schaumont'
}

20
target/nextflow/workflows/runner/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "runner"
namespace: "workflows"
version: "v0.5.4"
version: "v0.5.5"
argument_groups:
- name: "Input arguments"
arguments:
@@ -51,6 +51,17 @@ argument_groups:
direction: "input"
multiple: true
multiple_sep: ";"
- type: "integer"
name: "--umi_length"
description: "Length of the UMI sequences\n"
info: null
default:
- 10
required: false
min: 1
direction: "input"
multiple: false
multiple_sep: ";"
- name: "Metadata arguments"
arguments:
- type: "string"
@@ -207,8 +218,9 @@ build_info:
output: "target/nextflow/workflows/runner"
executable: "target/nextflow/workflows/runner/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
dependencies:
- "target/nextflow/utils/listInputDir"
- "target/nextflow/workflows/htrnaseq"
@@ -216,7 +228,7 @@ build_info:
- "target/nextflow/io/publish_results"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -231,7 +243,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

27
target/nextflow/workflows/runner/main.nf
View File

@@ -1,4 +1,4 @@
// runner v0.5.4
// runner v0.5.5
//
// 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
@@ -2806,7 +2806,7 @@ meta = [
"config": processConfig(readJsonBlob('''{
"name" : "runner",
"namespace" : "workflows",
"version" : "v0.5.4",
"version" : "v0.5.5",
"argument_groups" : [
{
"name" : "Input arguments",
@@ -2863,6 +2863,19 @@ meta = [
"direction" : "input",
"multiple" : true,
"multiple_sep" : ";"
},
{
"type" : "integer",
"name" : "--umi_length",
"description" : "Length of the UMI sequences\n",
"default" : [
10
],
"required" : false,
"min" : 1,
"direction" : "input",
"multiple" : false,
"multiple_sep" : ";"
}
]
},
@@ -3069,12 +3082,13 @@ meta = [
"engine" : "native|native",
"output" : "target/nextflow/workflows/runner",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3091,7 +3105,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",
@@ -3197,6 +3211,7 @@ workflow run_wf {
barcodesFasta: "barcodesFasta",
genomeDir: "genomeDir",
annotation: "annotation",
umi_length: "umi_length",
],
toState: { id, result, state -> state + result }
)

2
target/nextflow/workflows/runner/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'workflows/runner'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
description = 'Runner for HT RNA-seq pipeline'
}

11
target/nextflow/workflows/runner/nextflow_schema.json
View File

@@ -64,6 +64,17 @@
}
,
"umi_length": {
"type":
"integer",
"description": "Type: `integer`, default: `10`. Length of the UMI sequences\n",
"help_text": "Type: `integer`, default: `10`. Length of the UMI sequences\n"
,
"default":10
}
}
},

9
target/nextflow/workflows/well_demultiplex/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "well_demultiplex"
namespace: "workflows"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -211,14 +211,15 @@ build_info:
output: "target/nextflow/workflows/well_demultiplex"
executable: "target/nextflow/workflows/well_demultiplex/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
dependencies:
- "target/dependencies/vsh/vsh/biobox/v0.3.0/nextflow/cutadapt"
- "target/dependencies/vsh/vsh/craftbox/v0.1.0/nextflow/concat_text"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -233,7 +234,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

13
target/nextflow/workflows/well_demultiplex/main.nf
View File

@@ -1,4 +1,4 @@
// well_demultiplex v0.5.4
// well_demultiplex v0.5.5
//
// 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
@@ -2810,7 +2810,7 @@ meta = [
"config": processConfig(readJsonBlob('''{
"name" : "well_demultiplex",
"namespace" : "workflows",
"version" : "v0.5.4",
"version" : "v0.5.5",
"authors" : [
{
"name" : "Dries Schaumont",
@@ -3084,12 +3084,13 @@ meta = [
"engine" : "native|native",
"output" : "target/nextflow/workflows/well_demultiplex",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3106,7 +3107,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",

2
target/nextflow/workflows/well_demultiplex/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'workflows/well_demultiplex'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
description = 'Demultiplexing on well level'
author = 'Dries Schaumont, Marijke Van Moerbeke'
}

9
target/nextflow/workflows/well_metadata/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "well_metadata"
namespace: "workflows"
version: "v0.5.4"
version: "v0.5.5"
authors:
- name: "Dries Schaumont"
roles:
@@ -209,11 +209,12 @@ build_info:
output: "target/nextflow/workflows/well_metadata"
executable: "target/nextflow/workflows/well_metadata/main.nf"
viash_version: "0.9.0"
git_commit: "e41d8828866c686d58001cec72ff3e86b2ddf9dc"
git_commit: "04bc53879dc3f81f5792359eab8fa6dbf697ac4f"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.5.4-3-g04bc538"
package_config:
name: "htrnaseq"
version: "v0.5.4"
version: "v0.5.5"
description: "High-throughput pipeline [WIP]\n"
info:
test_resources:
@@ -228,7 +229,7 @@ package_config:
\ dest: 'nextflow_labels.config'}\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.4'"
- ".engines[.type == 'docker'].target_tag := 'v0.5.5'"
keywords:
- "bioinformatics"
- "sequence"

13
target/nextflow/workflows/well_metadata/main.nf
View File

@@ -1,4 +1,4 @@
// well_metadata v0.5.4
// well_metadata v0.5.5
//
// 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
@@ -2809,7 +2809,7 @@ meta = [
"config": processConfig(readJsonBlob('''{
"name" : "well_metadata",
"namespace" : "workflows",
"version" : "v0.5.4",
"version" : "v0.5.5",
"authors" : [
{
"name" : "Dries Schaumont",
@@ -3064,12 +3064,13 @@ meta = [
"engine" : "native|native",
"output" : "target/nextflow/workflows/well_metadata",
"viash_version" : "0.9.0",
"git_commit" : "e41d8828866c686d58001cec72ff3e86b2ddf9dc",
"git_remote" : "https://github.com/viash-hub/htrnaseq"
"git_commit" : "04bc53879dc3f81f5792359eab8fa6dbf697ac4f",
"git_remote" : "https://github.com/viash-hub/htrnaseq",
"git_tag" : "v0.5.4-3-g04bc538"
},
"package_config" : {
"name" : "htrnaseq",
"version" : "v0.5.4",
"version" : "v0.5.5",
"description" : "High-throughput pipeline [WIP]\n",
"info" : {
"test_resources" : [
@@ -3086,7 +3087,7 @@ meta = [
".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script := 'includeConfig(\\"nextflow_labels.config\\")'\n.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}\n",
".engines += { type: \\"native\\" }",
".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
".engines[.type == 'docker'].target_tag := 'v0.5.4'"
".engines[.type == 'docker'].target_tag := 'v0.5.5'"
],
"keywords" : [
"bioinformatics",

2
target/nextflow/workflows/well_metadata/nextflow.config
View File

@@ -2,7 +2,7 @@ manifest {
name = 'workflows/well_metadata'
mainScript = 'main.nf'
nextflowVersion = '!>=20.12.1-edge'
version = 'v0.5.4'
version = 'v0.5.5'
author = 'Dries Schaumont'
}