diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml index f3b389f4071fa6aedf10a70f76c127343cd28f49..f205b10747a551f998c4a1d9ef3e29dafe3c4390 100755 --- a/.gitlab-ci.yml +++ b/.gitlab-ci.yml @@ -3,11 +3,11 @@ before_script: - module load python/3.6.1-2-anaconda - module load nextflow/0.31.1_Ignite - mkdir test_data/hu.v2s1r500 - - mkdir test_data/mu.v2s2r10k - - mkdir test_data/hu.v3s2r10k - - ln -s /project/shared/bicf_workflow_ref/workflow_testdata/cellranger/cellranger_count/hu.v2s1r500/* test_data/hu.v2s1r500/ - - ln -s /project/shared/bicf_workflow_ref/workflow_testdata/cellranger/cellranger_count/mu.v2s2r10k/* test_data/mu.v2s2r10k/ - - ln -s /project/shared/bicf_workflow_ref/workflow_testdata/cellranger/cellranger_count/hu.v3s2r10k/* test_data/hu.v3s2r10k/ + - mkdir -p test_data/mu.v2s2r10k + - mkdir -p test_data/hu.v3s2r10k + - ln -sfn /project/shared/bicf_workflow_ref/workflow_testdata/cellranger/cellranger_count/hu.v2s1r500/* test_data/hu.v2s1r500/ + - ln -sfn /project/shared/bicf_workflow_ref/workflow_testdata/cellranger/cellranger_count/mu.v2s2r10k/* test_data/mu.v2s2r10k/ + - ln -sfn /project/shared/bicf_workflow_ref/workflow_testdata/cellranger/cellranger_count/hu.v3s2r10k/* test_data/hu.v3s2r10k/ stages: - astrocyte