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Commit b45c214e authored by Gervaise Henry's avatar Gervaise Henry 🤠
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Use profiles in ci

parent 1baad703
2 merge requests!63Develop,!59Resolve "BUG: thread error on Astrocyte"
Pipeline #6069 failed with stages
in 12 seconds
...@@ -40,7 +40,7 @@ simple_1: ...@@ -40,7 +40,7 @@ simple_1:
- develop - develop
- master - master
script: script:
- nextflow run workflow/main.nf --fastq "test_data/hu.v3s1r500/*.fastq.gz" --designFile "test_data/hu.v3s1r500/design.csv" --genome 'GRCh38-3.0.0' --kitVersion 'three' --version '3.1.0' -with-tower - nextflow run workflow/main.nf -profile biohpc,cluster --fastq "test_data/hu.v3s1r500/*.fastq.gz" --designFile "test_data/hu.v3s1r500/design.csv" --genome 'GRCh38-3.0.0' --kitVersion 'three' --version '3.1.0' -with-tower
- pytest -m count310 - pytest -m count310
artifacts: artifacts:
name: "$CI_JOB_NAME" name: "$CI_JOB_NAME"
...@@ -65,7 +65,7 @@ simple_2: ...@@ -65,7 +65,7 @@ simple_2:
- master - master
- tags - tags
script: script:
- nextflow run workflow/main.nf --fastq "test_data/mu.v3s1r500/*.fastq.gz" --designFile "test_data/mu.v3s1r500/design.csv" --genome 'mm10-3.0.0' --kitVersion 'three' --version '3.1.0' -with-tower - nextflow run workflow/main.nf -profile biohpc,cluster --fastq "test_data/mu.v3s1r500/*.fastq.gz" --designFile "test_data/mu.v3s1r500/design.csv" --genome 'mm10-3.0.0' --kitVersion 'three' --version '3.1.0' -with-tower
- pytest -m count310 - pytest -m count310
artifacts: artifacts:
name: "$CI_JOB_NAME" name: "$CI_JOB_NAME"
...@@ -89,7 +89,7 @@ detailed_1: ...@@ -89,7 +89,7 @@ detailed_1:
refs: refs:
- tags - tags
script: script:
- nextflow run workflow/main.nf --fastq "test_data/hu.v3s2r10k/*.fastq.gz" --designFile "test_data/hu.v3s2r10k/design.csv" --genome 'GRCh38-3.0.0' --kitVersion 'auto' --version '3.1.0' -with-tower - nextflow run workflow/main.nf -profile biohpc,cluster --fastq "test_data/hu.v3s2r10k/*.fastq.gz" --designFile "test_data/hu.v3s2r10k/design.csv" --genome 'GRCh38-3.0.0' --kitVersion 'auto' --version '3.1.0' -with-tower
- pytest -m count310 - pytest -m count310
artifacts: artifacts:
name: "$CI_JOB_NAME" name: "$CI_JOB_NAME"
...@@ -114,7 +114,7 @@ detailed_2: ...@@ -114,7 +114,7 @@ detailed_2:
refs: refs:
- tags - tags
script: script:
- nextflow run workflow/main.nf --fastq "test_data/hu.v3s2r10k/*.fastq.gz" --designFile "test_data/hu.v3s2r10k/design.csv" --genome 'GRCh38-3.0.0' --kitVersion 'auto' --version '3.0.2' -with-tower - nextflow run workflow/main.nf -profile biohpc,cluster --fastq "test_data/hu.v3s2r10k/*.fastq.gz" --designFile "test_data/hu.v3s2r10k/design.csv" --genome 'GRCh38-3.0.0' --kitVersion 'auto' --version '3.0.2' -with-tower
- pytest -m count302 - pytest -m count302
artifacts: artifacts:
name: "$CI_JOB_NAME" name: "$CI_JOB_NAME"
...@@ -138,7 +138,7 @@ detailed_3: ...@@ -138,7 +138,7 @@ detailed_3:
refs: refs:
- tags - tags
script: script:
- nextflow run workflow/main.nf --fastq "test_data/mu.v3s2r10k/*.fastq.gz" --designFile "test_data/mu.v3s2r10k/design.csv" --genome 'mm10-3.0.0' --kitVersion 'three' --version '3.0.1' -with-tower - nextflow run workflow/main.nf -profile biohpc,cluster --fastq "test_data/mu.v3s2r10k/*.fastq.gz" --designFile "test_data/mu.v3s2r10k/design.csv" --genome 'mm10-3.0.0' --kitVersion 'three' --version '3.0.1' -with-tower
- pytest -m count301 - pytest -m count301
artifacts: artifacts:
name: "$CI_JOB_NAME" name: "$CI_JOB_NAME"
...@@ -162,7 +162,7 @@ detailed_4: ...@@ -162,7 +162,7 @@ detailed_4:
refs: refs:
- tags - tags
script: script:
- nextflow run workflow/main.nf --fastq "test_data/hu.v2s2r10k/*.fastq.gz" --designFile "test_data/hu.v2s2r10k/design.csv" --genome 'GRCh38-1.2.0' --kitVersion 'two' --version '2.1.1' -with-tower - nextflow run workflow/main.nf -profile biohpc,cluster --fastq "test_data/hu.v2s2r10k/*.fastq.gz" --designFile "test_data/hu.v2s2r10k/design.csv" --genome 'GRCh38-1.2.0' --kitVersion 'two' --version '2.1.1' -with-tower
- pytest -m count211 - pytest -m count211
artifacts: artifacts:
name: "$CI_JOB_NAME" name: "$CI_JOB_NAME"
......
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