Commit a1d4744c authored by Venkat Malladi's avatar Venkat Malladi
Browse files

Merge branch '80-concurrent_issue' into ci-merge-test

parents ad917147 24f3252e
Pipeline #6416 canceled with stages
in 299 minutes and 11 seconds
...@@ -40,8 +40,6 @@ single_end_mouse: ...@@ -40,8 +40,6 @@ single_end_mouse:
script: script:
- NXF_OPTS="-Dleveldb.mmap=false" nextflow run workflow/main.nf --astrocyte true - NXF_OPTS="-Dleveldb.mmap=false" nextflow run workflow/main.nf --astrocyte true
- pytest -m singleend - pytest -m singleend
after_script:
- rm -rf work/
paired_end_human: paired_end_human:
stage: single stage: single
...@@ -52,8 +50,6 @@ paired_end_human: ...@@ -52,8 +50,6 @@ paired_end_human:
script: script:
- NXF_OPTS="-Dleveldb.mmap=false" nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_ENCSR729LGA_PE.txt" --genome 'GRCh38' --pairedEnd true --astrocyte false - NXF_OPTS="-Dleveldb.mmap=false" nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_ENCSR729LGA_PE.txt" --genome 'GRCh38' --pairedEnd true --astrocyte false
- pytest -m pairedend - pytest -m pairedend
after_script:
- rm -rf work/
single_end_single_control: single_end_single_control:
stage: single stage: single
...@@ -64,8 +60,6 @@ single_end_single_control: ...@@ -64,8 +60,6 @@ single_end_single_control:
script: script:
- NXF_OPTS="-Dleveldb.mmap=false" nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_single_contol_SE.txt" --genome 'GRCh38' --pairedEnd false --astrocyte false - NXF_OPTS="-Dleveldb.mmap=false" nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_single_contol_SE.txt" --genome 'GRCh38' --pairedEnd false --astrocyte false
- pytest -m singlecontrol - pytest -m singlecontrol
after_script:
- rm -rf work/
single_end_diff: single_end_diff:
stage: multiple stage: multiple
...@@ -77,8 +71,6 @@ single_end_diff: ...@@ -77,8 +71,6 @@ single_end_diff:
- NXF_OPTS="-Dleveldb.mmap=false" nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_diff_SE.txt" --genome 'GRCm38' --astrocyte false - NXF_OPTS="-Dleveldb.mmap=false" nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_diff_SE.txt" --genome 'GRCm38' --astrocyte false
- pytest -m singleend - pytest -m singleend
- pytest -m singlediff - pytest -m singlediff
after_script:
- rm -rf work/
paired_end_diff: paired_end_diff:
only: only:
...@@ -88,8 +80,6 @@ paired_end_diff: ...@@ -88,8 +80,6 @@ paired_end_diff:
- NXF_OPTS="-Dleveldb.mmap=false" nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_diff_PE.txt" --genome 'GRCh38' --pairedEnd true --astrocyte false - NXF_OPTS="-Dleveldb.mmap=false" nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_diff_PE.txt" --genome 'GRCh38' --pairedEnd true --astrocyte false
- pytest -m pairedend - pytest -m pairedend
- pytest -m paireddiff - pytest -m paireddiff
after_script:
- rm -rf work/
single_end_skip: single_end_skip:
stage: skip stage: skip
...@@ -98,8 +88,6 @@ single_end_skip: ...@@ -98,8 +88,6 @@ single_end_skip:
script: script:
- NXF_OPTS="-Dleveldb.mmap=false" nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_diff_SE.txt" --genome 'GRCm38' --skipDiff true --skipMotif true --skipPlotProfile true --astrocyte false - NXF_OPTS="-Dleveldb.mmap=false" nextflow run workflow/main.nf --designFile "$CI_PROJECT_DIR/test_data/design_diff_SE.txt" --genome 'GRCm38' --skipDiff true --skipMotif true --skipPlotProfile true --astrocyte false
- pytest -m singleskip_true - pytest -m singleskip_true
after_script:
- rm -rf work/
cleanup_job: cleanup_job:
......
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