vsh/htrnaseq
1
0
Fork 0
Code Issues Pull Requests Actions Packages Projects Releases Wiki Activity

Build branch htrnaseq/main with version main to htrnaseq on branch main (92755e8)

Browse Source 
Build pipeline: viash-hub.htrnaseq.main-666pl

Source commit: 92755e84e7

Source message: Runner: output state and rework publishing (#68)

* add eset output param

* add outputs to publishing and runner

* update publishing

* Update publishing

* Remove debug statements

* Undo change to integration test script

* Add asserts

* Fix asserts and canonicalization of publish paths

* Move fData to folder

* Add CHANGELOG entry [ci skip]

---------

Co-authored-by: Dries Schaumont <5946712+DriesSchaumont@users.noreply.github.com>
This commit is contained in:
CI
2025-09-02 08:17:05 +00:00
parent b51996294b
commit f683dfcf8e
111 changed files with 1549 additions and 573 deletions
Download Patch File Download Diff File Expand all files Collapse all files

5
target/executable/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml
View File

@@ -155,9 +155,8 @@ build_info:
output: "target/executable/integration_test_components/htrnaseq/check_eset"
executable: "target/executable/integration_test_components/htrnaseq/check_eset/check_eset"
viash_version: "0.9.4"
git_commit: "d70fdf2a6f13819db25bfe0ac9ddb14d0aa5c247"
git_commit: "92755e84e7e2b17cc44664388d6fbb444a26cffd"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.7.2-14-gd70fdf2"
package_config:
name: "htrnaseq"
version: "main"
@@ -187,7 +186,7 @@ package_config:
target: "target"
config_mods:
- ".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script\
\ := 'includeConfig(\"nextflow_labels.config\")'\n.resources += {path: '/src/config/labels.config',\
\ += 'includeConfig(\"nextflow_labels.config\")'\n.resources += {path: '/src/config/labels.config',\
\ dest: 'nextflow_labels.config'}\n.resources += {path: '/_viash.yaml', dest:\
\ '_viash.yaml'}\n"
- ".engines += { type: \"native\" }"

2
target/executable/integration_test_components/htrnaseq/check_eset/_viash.yaml
View File

@@ -14,7 +14,7 @@ info:
dest: resources_test
config_mods: |
.requirements.commands := ['ps']
.runners[.type == 'nextflow'].config.script := 'includeConfig("nextflow_labels.config")'
.runners[.type == 'nextflow'].config.script += 'includeConfig("nextflow_labels.config")'
.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}
.resources += {path: '/_viash.yaml', dest: '_viash.yaml'}
version: main

4
target/executable/integration_test_components/htrnaseq/check_eset/check_eset
View File

@@ -455,9 +455,9 @@ RUN Rscript -e 'options(warn = 2); if (!requireNamespace("remotes", quietly = TR
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="2025-08-18T10:20:36Z"
LABEL org.opencontainers.image.created="2025-09-02T07:26:23Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
LABEL org.opencontainers.image.revision="d70fdf2a6f13819db25bfe0ac9ddb14d0aa5c247"
LABEL org.opencontainers.image.revision="92755e84e7e2b17cc44664388d6fbb444a26cffd"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER

5
target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/.config.vsh.yaml
View File

@@ -164,9 +164,8 @@ 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: "0.9.4"
git_commit: "d70fdf2a6f13819db25bfe0ac9ddb14d0aa5c247"
git_commit: "92755e84e7e2b17cc44664388d6fbb444a26cffd"
git_remote: "https://github.com/viash-hub/htrnaseq"
git_tag: "v0.7.2-14-gd70fdf2"
package_config:
name: "htrnaseq"
version: "main"
@@ -196,7 +195,7 @@ package_config:
target: "target"
config_mods:
- ".requirements.commands := ['ps']\n.runners[.type == 'nextflow'].config.script\
\ := 'includeConfig(\"nextflow_labels.config\")'\n.resources += {path: '/src/config/labels.config',\
\ += 'includeConfig(\"nextflow_labels.config\")'\n.resources += {path: '/src/config/labels.config',\
\ dest: 'nextflow_labels.config'}\n.resources += {path: '/_viash.yaml', dest:\
\ '_viash.yaml'}\n"
- ".engines += { type: \"native\" }"

2
target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/_viash.yaml
View File

@@ -14,7 +14,7 @@ info:
dest: resources_test
config_mods: |
.requirements.commands := ['ps']
.runners[.type == 'nextflow'].config.script := 'includeConfig("nextflow_labels.config")'
.runners[.type == 'nextflow'].config.script += 'includeConfig("nextflow_labels.config")'
.resources += {path: '/src/config/labels.config', dest: 'nextflow_labels.config'}
.resources += {path: '/_viash.yaml', dest: '_viash.yaml'}
version: main

4
target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/check_cutadapt_output
View File

@@ -457,9 +457,9 @@ 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="2025-08-18T10:20:36Z"
LABEL org.opencontainers.image.created="2025-09-02T07:26:23Z"
LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
LABEL org.opencontainers.image.revision="d70fdf2a6f13819db25bfe0ac9ddb14d0aa5c247"
LABEL org.opencontainers.image.revision="92755e84e7e2b17cc44664388d6fbb444a26cffd"
LABEL org.opencontainers.image.version="main"
VIASHDOCKER