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Commit 99a28790 authored by Gervaise Henry's avatar Gervaise Henry :cowboy:
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Update .gitlab-ci.yml

parent 8b341c8a
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1 merge request!43Develop
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.gitlab-ci.yml
+ 7
− 8
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...@@ -30,8 +30,7 @@ getData: ...@@ -30,8 +30,7 @@ getData:
- push - push
- tags - tags
except: except:
- merge_requests - merge_requests - $CI_MERGE_REQUEST_TARGET_BRANCH_NAME == "master"
script:
- ln -sfn `readlink -e ./test_data/auth/cookies.txt` ~/.bdbag/deriva-cookies.txt - ln -sfn `readlink -e ./test_data/auth/cookies.txt` ~/.bdbag/deriva-cookies.txt
- unzip ./test_data/bag/Replicate_Q-Y5F6.zip - unzip ./test_data/bag/Replicate_Q-Y5F6.zip
- singularity run 'docker://bicf/gudmaprbkfilexfer:2.0.1_indev' bash ./workflow/scripts/bdbagFetch.sh Replicate_Q-Y5F6 Replicate_Q-Y5F6 TEST - singularity run 'docker://bicf/gudmaprbkfilexfer:2.0.1_indev' bash ./workflow/scripts/bdbagFetch.sh Replicate_Q-Y5F6 Replicate_Q-Y5F6 TEST
...@@ -215,7 +214,7 @@ integration_se: ...@@ -215,7 +214,7 @@ integration_se:
stage: integration stage: integration
only: [merge_requests] only: [merge_requests]
except: except:
- $CI_MERGE_REQUEST_TARGET_BRANCH_NAME == "master" - $CI_MERGE_REQUEST_TARGET_BRANCH_NAME =~ /master/
script: script:
- hostname - hostname
- ulimit -a - ulimit -a
...@@ -238,7 +237,7 @@ integration_pe: ...@@ -238,7 +237,7 @@ integration_pe:
stage: integration stage: integration
only: [merge_requests] only: [merge_requests]
except: except:
- $CI_MERGE_REQUEST_TARGET_BRANCH_NAME == "master" - $CI_MERGE_REQUEST_TARGET_BRANCH_NAME =~ /master/
script: script:
- hostname - hostname
- ulimit -a - ulimit -a
...@@ -262,7 +261,7 @@ override_inputBag: ...@@ -262,7 +261,7 @@ override_inputBag:
stage: integration stage: integration
only: [merge_requests] only: [merge_requests]
except: except:
- $CI_MERGE_REQUEST_TARGET_BRANCH_NAME == "master" - $CI_MERGE_REQUEST_TARGET_BRANCH_NAME =~ /master/
script: script:
- hostname - hostname
- ulimit -a - ulimit -a
...@@ -283,7 +282,7 @@ override_fastq: ...@@ -283,7 +282,7 @@ override_fastq:
stage: integration stage: integration
only: [merge_requests] only: [merge_requests]
except: except:
- $CI_MERGE_REQUEST_TARGET_BRANCH_NAME == "master" - $CI_MERGE_REQUEST_TARGET_BRANCH_NAME =~ /master/
script: script:
- hostname - hostname
- ulimit -a - ulimit -a
...@@ -304,7 +303,7 @@ override_species: ...@@ -304,7 +303,7 @@ override_species:
stage: integration stage: integration
only: [merge_requests] only: [merge_requests]
except: except:
- $CI_MERGE_REQUEST_TARGET_BRANCH_NAME == "master" - $CI_MERGE_REQUEST_TARGET_BRANCH_NAME =~ /master/
script: script:
- hostname - hostname
- ulimit -a - ulimit -a
...@@ -326,7 +325,7 @@ consistency: ...@@ -326,7 +325,7 @@ consistency:
stage: consistency stage: consistency
only: [merge_requests] only: [merge_requests]
except: except:
- $CI_MERGE_REQUEST_TARGET_BRANCH_NAME == "master" - $CI_MERGE_REQUEST_TARGET_BRANCH_NAME =~ /master/
script: script:
- grep -m 1 \"Assigned\":.[0-9] SE_multiqc_data.json | grep -oe '\([0-9.]*\)' > assignedSE.txt - grep -m 1 \"Assigned\":.[0-9] SE_multiqc_data.json | grep -oe '\([0-9.]*\)' > assignedSE.txt
- grep -m 1 \"Assigned\":.[0-9] PE_multiqc_data.json | grep -oe '\([0-9.]*\)' > assignedPE.txt - grep -m 1 \"Assigned\":.[0-9] PE_multiqc_data.json | grep -oe '\([0-9.]*\)' > assignedPE.txt
......
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