run all steps

ablab · Feb 20, 2024 · de74f33 · de74f33
1 parent 7584b3b
commit de74f33
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Showing 5 changed files with 11 additions and 1 deletion.
diff --git a/.github/workflows/ILP.PB.yml b/.github/workflows/ILP.PB.yml
@@ -29,6 +29,7 @@ jobs:
           fetch-depth: 1
 
       - name: 'ILP PacBio Camk2b'
+        if: always()
         shell: bash
         env:
           STEP_NAME: ILP.PB.Camk2b
@@ -37,6 +38,7 @@ jobs:
           python3 ${{env.LAUNCHER}} ${{env.CFG_DIR}}/${{env.STEP_NAME}}.cfg -o ${{env.OUTPUT_BASE}}
 
       - name: 'ILP PacBio BIN1'
+        if: always()
         shell: bash
         env:
           STEP_NAME: ILP.PB.BIN1

diff --git a/.github/workflows/SIRVs.Set4.R10.yml b/.github/workflows/SIRVs.Set4.R10.yml
@@ -31,10 +31,11 @@ jobs:
           fetch-depth: 1
 
       - name: 'IsoQuant SIRVs'
+        if: always()
         shell: bash
         env:
           STEP_NAME: SIRVs.Set4.R10
         run: |
           export PATH=$PATH:${{env.BIN_PATH}}
-          python3 ${{env.LAUNCHER}} ${{env.CFG_DIR}}/${{env.RUN_NAME}}.cfg -o ${{env.OUTPUT_BASE}}
+          python3 ${{env.LAUNCHER}} ${{env.CFG_DIR}}/${{env.STEP_NAME}}.cfg -o ${{env.OUTPUT_BASE}}
 
diff --git a/.github/workflows/SIRVs.Set4.simulated_R10.yml b/.github/workflows/SIRVs.Set4.simulated_R10.yml
@@ -31,6 +31,7 @@ jobs:
           fetch-depth: 1
 
       - name: 'SIRVs.simulated_R10'
+        if: always()
         shell: bash
         env:
           STEP_NAME: SIRVs.simulated_R10
@@ -39,6 +40,7 @@ jobs:
           python3 ${{env.LAUNCHER}} ${{env.CFG_DIR}}/${{env.STEP_NAME}}.cfg -o ${{env.OUTPUT_BASE}}
 
       - name: 'SIRVs.simulated_R10_no_trunc'
+        if: always()
         shell: bash
         env:
           STEP_NAME: SIRVs.simulated_R10_no_trunc
@@ -47,6 +49,7 @@ jobs:
           python3 ${{env.LAUNCHER}} ${{env.CFG_DIR}}/${{env.STEP_NAME}}.cfg -o ${{env.OUTPUT_BASE}}
 
       - name: 'SIRVs.simulated_R10_real_exp'
+        if: always()
         shell: bash
         env:
           STEP_NAME: SIRVs.simulated_R10_real_exp

diff --git a/.github/workflows/SIRVs.Set4.simulated_R9.yml b/.github/workflows/SIRVs.Set4.simulated_R9.yml
@@ -31,6 +31,7 @@ jobs:
           fetch-depth: 1
 
       - name: 'SIRVs simulated ONT R9'
+        if: always()
         shell: bash
         env:
           STEP_NAME: SIRVs.simulated_R9_real_exp
@@ -39,6 +40,7 @@ jobs:
           python3 ${{env.LAUNCHER}} ${{env.CFG_DIR}}/${{env.STEP_NAME}}.cfg -o ${{env.OUTPUT_BASE}}
 
       - name: 'SIRVs simulated ONT R9 real expression'
+        if: always()
         shell: bash
         env:
           STEP_NAME: SIRVs.simulated_R9_real_exp

diff --git a/.github/workflows/SIRVs.Set4.simulated_perfect.yml b/.github/workflows/SIRVs.Set4.simulated_perfect.yml
@@ -31,6 +31,7 @@ jobs:
           fetch-depth: 1
 
       - name: 'SIRVs.simulated_perfect'
+        if: always()
         shell: bash
         env:
           STEP_NAME: SIRVs.simulated_perfect
@@ -39,6 +40,7 @@ jobs:
           python3 ${{env.LAUNCHER}} ${{env.CFG_DIR}}/${{env.STEP_NAME}}.cfg -o ${{env.OUTPUT_BASE}}
 
       - name: 'IsoQuant: perfect reads with polyA'
+        if: always()
         shell: bash
         env:
           STEP_NAME: SIRVs.simulated_perfect_polya