diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml index 94c45b3e53e6ca58477585f212045c841a751c04..9043d72cccd6bb5ca21f9219f30e9b068ddeb5ad 100644 --- a/.gitlab-ci.yml +++ b/.gitlab-ci.yml @@ -5,7 +5,7 @@ before_script: - module load nextflow/19.09.0 - ln -sfn /project/BICF/BICF_Core/shared/gudmap/test_data/* ./test_data/ - mkdir -p ~/.deriva - - mkdir -p ~/.bdbag + - mkdir -p ~/.bdbatestg stages: - unit @@ -38,8 +38,6 @@ parseMetadata: getRef: stage: unit script: - - #singularity run 'docker://bicf/awscli:1.1' aws s3 ls s3://bicf-references/mouse/0.0.1/GRCm38.P6 - - #singularity run 'docker://bicf/awscli:1.1' aws s3 ls s3://bicf-references/human/0.0.1/GRCh38.p12 - mkdir -p hu - mkdir -p mo - cp -R /project/BICF/BICF_Core/shared/gudmap/references/GRCh38.p12.v31/hisat2 ./hu/