diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml index 34c2a65f8383e4cec2352ff23fcf7e6048812827..9d6b9540fde99ee9f2fdf0fa776fe6e5a98f1b7c 100644 --- a/.gitlab-ci.yml +++ b/.gitlab-ci.yml @@ -32,7 +32,7 @@ single_end_mouse: only: - master script: - - nextflow run workflow/main.nf --astrocyte true -resume + - nextflow run workflow/main.nf --astrocyte true - pytest -m singleend paired_end_human: @@ -42,7 +42,7 @@ paired_end_human: except: - master script: - - nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_ENCSR729LGA_PE.txt" --genome 'GRCh38' --pairedEnd true --astrocyte false -resume + - nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_ENCSR729LGA_PE.txt" --genome 'GRCh38' --pairedEnd true --astrocyte false - pytest -m pairedend single_end_single_control: @@ -52,7 +52,7 @@ single_end_single_control: except: - master script: - - nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_single_contol_SE.txt" --genome 'GRCh38' --pairedEnd false --astrocyte false -resume + - nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_single_contol_SE.txt" --genome 'GRCh38' --pairedEnd false --astrocyte false single_end_diff: stage: multiple @@ -61,7 +61,7 @@ single_end_diff: except: - master script: - - nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_diff_SE.txt" --genome 'GRCm38' --astrocyte false -resume + - nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_diff_SE.txt" --genome 'GRCm38' --astrocyte false - pytest -m singleend - pytest -m singlediff @@ -70,7 +70,7 @@ paired_end_diff: - master stage: multiple script: - - nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_diff_PE.txt" --genome 'GRCh38' --pairedEnd true --astrocyte false -resume + - nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_diff_PE.txt" --genome 'GRCh38' --pairedEnd true --astrocyte false - pytest -m pairedend - pytest -m paireddiff @@ -79,5 +79,5 @@ single_end_skip: only: - master script: - - nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_diff_SE.txt" --genome 'GRCm38' --skipDiff true --skipMotif true --skipPlotProfile true --astrocyte false -resume + - nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_diff_SE.txt" --genome 'GRCm38' --skipDiff true --skipMotif true --skipPlotProfile true --astrocyte false - pytest -m singleskip_true