Commit cbe7e6e4 authored by Devin OKelly's avatar Devin OKelly
Browse files

Fixed nextflow flags, removed astrocyte_cli verbosity

parent 199723ff
......@@ -54,7 +54,7 @@ nextflow_test_docker:
- module load nextflow/20.01.0
- module load singularity/3.5.3
- cd $CI_PROJECT_DIR/workflow
- nextflow -C $CI_PROJECT_DIR/workflow/configs/biohpc_docker.config run main.nf -with-trace -with-timeline -resume --verbose -bq
- nextflow -C $CI_PROJECT_DIR/workflow/configs/biohpc_docker.config run main.nf -with-trace -with-timeline -resume --verbose -bg
artifacts:
paths:
- $CI_PROJECT_DIR/workflow/.nextflow.log
......@@ -66,7 +66,7 @@ nextflow_test_singularity:
- module load nextflow/20.01.0
- module load singularity/3.5.3
- cd $CI_PROJECT_DIR/workflow
- nextflow -C $CI_PROJECT_DIR/workflow/configs/biohpc_singularity.config run main.nf -with-trace -with-timeline -resume --verbose -bq
- nextflow -C $CI_PROJECT_DIR/workflow/configs/biohpc_singularity.config run main.nf -with-trace -with-timeline -resume --verbose -bg
artifacts:
paths:
- $CI_PROJECT_DIR/workflow/.nextflow.log
......@@ -79,7 +79,7 @@ astrocyte_test:
extends: .astrocyte
stage: test
script:
- astrocyte_cli test "$CI_PROJECT_DIR" --verbose
- astrocyte_cli test "$CI_PROJECT_DIR"
- test -s "$CI_PROJECT_DIR/workflow/output/mobydick.txt.uppercase.tolines.wordcount"
artifacts:
paths:
......
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