From bdd95819bd3b7eb725e59df7d0071692a58daacd Mon Sep 17 00:00:00 2001 From: npetrill Date: Fri, 10 Jan 2025 10:50:18 -0500 Subject: [PATCH] update run_pipeline --- .github/workflows/test_exome_germline_single_sample.yml | 2 +- .github/workflows/test_illumina_genotyping_array.yml | 6 +----- .github/workflows/test_joint_genotyping.yml | 2 +- .../workflows/test_multisamplesmartseq2singlenucleus.yml | 2 +- .github/workflows/test_optimus.yml | 2 +- .github/workflows/test_pairedtag.yml | 2 +- .github/workflows/test_reblockGVCF.yml | 2 +- .github/workflows/test_rna_with_umis.yml | 2 +- .github/workflows/test_snm3c.yml | 2 +- .../test_ultima_genomics_whole_genome_germline.yml | 2 +- .github/workflows/test_variant_calling.yml | 2 +- .../workflows/test_whole_genome_germline_single_sample.yml | 2 +- 12 files changed, 12 insertions(+), 16 deletions(-) diff --git a/.github/workflows/test_exome_germline_single_sample.yml b/.github/workflows/test_exome_germline_single_sample.yml index 62c50d5159..66034edeee 100644 --- a/.github/workflows/test_exome_germline_single_sample.yml +++ b/.github/workflows/test_exome_germline_single_sample.yml @@ -70,7 +70,7 @@ env: jobs: - run_pipeline: + TestExomeGermlineSingleSample: runs-on: ubuntu-latest # Add "id-token" with the intended permissions. permissions: diff --git a/.github/workflows/test_illumina_genotyping_array.yml b/.github/workflows/test_illumina_genotyping_array.yml index 58955bee36..6200027f44 100644 --- a/.github/workflows/test_illumina_genotyping_array.yml +++ b/.github/workflows/test_illumina_genotyping_array.yml @@ -59,8 +59,7 @@ env: jobs: - run_pipeline: - name: Run Pipeline + TestIlluminaGenotypingArray: runs-on: ubuntu-latest # Add "id-token" with the intended permissions. permissions: @@ -68,9 +67,6 @@ jobs: id-token: 'write' steps: - - name: Echo Pipeline Name - run: echo "Running ${{ env.PIPELINE_NAME }}" - # actions/checkout MUST come before auth action - uses: actions/checkout@v3 with: diff --git a/.github/workflows/test_joint_genotyping.yml b/.github/workflows/test_joint_genotyping.yml index e511fe28c4..fe356157cd 100644 --- a/.github/workflows/test_joint_genotyping.yml +++ b/.github/workflows/test_joint_genotyping.yml @@ -62,7 +62,7 @@ env: jobs: - run_pipeline: + TestJointGenotyping: runs-on: ubuntu-latest # Add "id-token" with the intended permissions. permissions: diff --git a/.github/workflows/test_multisamplesmartseq2singlenucleus.yml b/.github/workflows/test_multisamplesmartseq2singlenucleus.yml index 8136316997..f50ab5ec2b 100644 --- a/.github/workflows/test_multisamplesmartseq2singlenucleus.yml +++ b/.github/workflows/test_multisamplesmartseq2singlenucleus.yml @@ -66,7 +66,7 @@ env: jobs: - run_pipeline: + TestMultiSampleSmartSeq2SingleNucleus: runs-on: ubuntu-latest # Add "id-token" with the intended permissions. permissions: diff --git a/.github/workflows/test_optimus.yml b/.github/workflows/test_optimus.yml index de2bc937e5..d2015f0d82 100644 --- a/.github/workflows/test_optimus.yml +++ b/.github/workflows/test_optimus.yml @@ -66,7 +66,7 @@ env: jobs: - run_pipeline: + TestOptimus: runs-on: ubuntu-latest # Add "id-token" with the intended permissions. permissions: diff --git a/.github/workflows/test_pairedtag.yml b/.github/workflows/test_pairedtag.yml index dd96537636..d52726b3cb 100644 --- a/.github/workflows/test_pairedtag.yml +++ b/.github/workflows/test_pairedtag.yml @@ -68,7 +68,7 @@ env: jobs: - run_pipeline: + TestPairedTag: runs-on: ubuntu-latest # Add "id-token" with the intended permissions. permissions: diff --git a/.github/workflows/test_reblockGVCF.yml b/.github/workflows/test_reblockGVCF.yml index 2dafcdb0fd..10e09430c3 100644 --- a/.github/workflows/test_reblockGVCF.yml +++ b/.github/workflows/test_reblockGVCF.yml @@ -60,7 +60,7 @@ env: jobs: - run_pipeline: + TestReblockGVCF: runs-on: ubuntu-latest # Add "id-token" with the intended permissions. permissions: diff --git a/.github/workflows/test_rna_with_umis.yml b/.github/workflows/test_rna_with_umis.yml index a435514d06..01e0b23a78 100644 --- a/.github/workflows/test_rna_with_umis.yml +++ b/.github/workflows/test_rna_with_umis.yml @@ -61,7 +61,7 @@ env: jobs: - run_pipeline: + TestRNAWithUMIsPipeline: runs-on: ubuntu-latest # Add "id-token" with the intended permissions. permissions: diff --git a/.github/workflows/test_snm3c.yml b/.github/workflows/test_snm3c.yml index 8ef91f0b23..b39370e82c 100644 --- a/.github/workflows/test_snm3c.yml +++ b/.github/workflows/test_snm3c.yml @@ -57,7 +57,7 @@ env: jobs: - run_pipeline: + Testsnm3C: runs-on: ubuntu-latest # Add "id-token" with the intended permissions. permissions: diff --git a/.github/workflows/test_ultima_genomics_whole_genome_germline.yml b/.github/workflows/test_ultima_genomics_whole_genome_germline.yml index 8427775797..13ea3ca66b 100644 --- a/.github/workflows/test_ultima_genomics_whole_genome_germline.yml +++ b/.github/workflows/test_ultima_genomics_whole_genome_germline.yml @@ -71,7 +71,7 @@ env: jobs: - run_pipeline: + TestUltimaGenomicsWholeGenomeGermline: runs-on: ubuntu-latest # Add "id-token" with the intended permissions. permissions: diff --git a/.github/workflows/test_variant_calling.yml b/.github/workflows/test_variant_calling.yml index 0e2e86b920..8227bc7df5 100644 --- a/.github/workflows/test_variant_calling.yml +++ b/.github/workflows/test_variant_calling.yml @@ -62,7 +62,7 @@ env: jobs: - run_pipeline: + TestVariantCalling: runs-on: ubuntu-latest # Add "id-token" with the intended permissions. permissions: diff --git a/.github/workflows/test_whole_genome_germline_single_sample.yml b/.github/workflows/test_whole_genome_germline_single_sample.yml index 04be49fdb9..030b99448e 100644 --- a/.github/workflows/test_whole_genome_germline_single_sample.yml +++ b/.github/workflows/test_whole_genome_germline_single_sample.yml @@ -71,7 +71,7 @@ env: jobs: - run_pipeline: + TestWholeGenomeGermlineSingleSample: runs-on: ubuntu-latest # Add "id-token" with the intended permissions. permissions: