add executable to runners

openproblems-bio · Jun 27, 2024 · c9b4511 · c9b4511
1 parent 9352a48
commit c9b4511
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Showing 10 changed files with 10 additions and 0 deletions.
diff --git a/src/control_methods/no_denoising/config.vsh.yaml b/src/control_methods/no_denoising/config.vsh.yaml
@@ -19,6 +19,7 @@ engines:
     image: ghcr.io/openproblems-bio/base_python:1.0.4
 
 runners:
+  - type: executable
   - type: nextflow
     directives: 
       label: [midtime, midmem, midcpu]
diff --git a/src/control_methods/perfect_denoising/config.vsh.yaml b/src/control_methods/perfect_denoising/config.vsh.yaml
@@ -20,6 +20,7 @@ engines:
     image: ghcr.io/openproblems-bio/base_python:1.0.4
 
 runners:
+  - type: executable
   - type: nextflow
     directives: 
       label: [midtime, midmem, midcpu]
diff --git a/src/methods/alra/config.vsh.yaml b/src/methods/alra/config.vsh.yaml
@@ -39,6 +39,7 @@ engines:
         cran: [ Matrix, rsvd ]
         github: KlugerLab/ALRA
 runners:
+  - type: executable
   - type: nextflow
     directives: 
       label: [midtime, highmem, highcpu]
diff --git a/src/methods/dca/config.vsh.yaml b/src/methods/dca/config.vsh.yaml
@@ -40,6 +40,7 @@ engines:
           - jsonschema
           - "git+https://github.com/scottgigante-immunai/dca.git@patch-1"
 runners:
+  - type: executable
   - type: nextflow
     directives: 
       label: [midtime, highmem, highcpu]
diff --git a/src/methods/knn_smoothing/config.vsh.yaml b/src/methods/knn_smoothing/config.vsh.yaml
@@ -38,6 +38,7 @@ engines:
         github:
           - scottgigante-immunai/knn-smoothing@python_package
 runners:
+  - type: executable
   - type: nextflow
     directives: 
       label: [midtime, highmem, highcpu]
diff --git a/src/methods/magic/config.vsh.yaml b/src/methods/magic/config.vsh.yaml
@@ -58,6 +58,7 @@ engines:
       - type: python
         pip: [scprep, magic-impute, scipy, scikit-learn<1.2]
 runners:
+  - type: executable
   - type: nextflow
     directives: 
       label: [midtime, highmem, highcpu]
diff --git a/src/methods/saver/config.vsh.yaml b/src/methods/saver/config.vsh.yaml
@@ -28,6 +28,7 @@ engines:
       - type: r
         github: mohuangx/SAVER
 runners:
+  - type: executable
   - type: nextflow
     directives: 
       label: [midtime, highmem, highcpu]
diff --git a/src/metrics/mse/config.vsh.yaml b/src/metrics/mse/config.vsh.yaml
@@ -25,6 +25,7 @@ engines:
           - scikit-learn
           - scprep
 runners:
+  - type: executable
   - type: nextflow
     directives: 
       label: [midtime, highmem, midcpu]
diff --git a/src/metrics/poisson/config.vsh.yaml b/src/metrics/poisson/config.vsh.yaml
@@ -23,6 +23,7 @@ engines:
       - type: python
         pip: scprep
 runners:
+  - type: executable
   - type: nextflow
     directives: 
       label: [midtime, highmem, midcpu]
diff --git a/src/process_dataset/config.vsh.yaml b/src/process_dataset/config.vsh.yaml
@@ -32,6 +32,7 @@ engines:
           - numpy
           - scipy
 runners:
+  - type: executable
   - type: nextflow
     directives:
       label: [highmem, midcpu , midtime]