From cae7a9f548d5bc889472fce88a4f5b3dfadd7734 Mon Sep 17 00:00:00 2001 From: SarahOuologuem Date: Thu, 14 Mar 2024 11:20:21 +0000 Subject: [PATCH] remove unnecessary condaenv cmd --- .github/workflows/spatial_deconvolution-ci.yml | 1 - .github/workflows/spatial_ingestion_merfish-ci.yml | 5 ----- .github/workflows/spatial_ingestion_visium-ci.yml | 5 ----- 3 files changed, 11 deletions(-) diff --git a/.github/workflows/spatial_deconvolution-ci.yml b/.github/workflows/spatial_deconvolution-ci.yml index 1161bea0..b22e40da 100644 --- a/.github/workflows/spatial_deconvolution-ci.yml +++ b/.github/workflows/spatial_deconvolution-ci.yml @@ -78,7 +78,6 @@ jobs: - name: Replace template contents in configuration file run: | cd deconvolution - sed -i 's+condaenv:+conda_env: pipeline_env+g' pipeline.yml sed -i 's+use_gpu:+use_gpu: False+g' pipeline.yml sed -i 's+max_epochs: 400+max_epochs: 50+g' pipeline.yml diff --git a/.github/workflows/spatial_ingestion_merfish-ci.yml b/.github/workflows/spatial_ingestion_merfish-ci.yml index cbc2c30a..89812404 100644 --- a/.github/workflows/spatial_ingestion_merfish-ci.yml +++ b/.github/workflows/spatial_ingestion_merfish-ci.yml @@ -82,11 +82,6 @@ jobs: cd spatial/ingestion_merfish curl -o pipeline.yml https://raw.githubusercontent.com/DendrouLab/panpipes-tutorials/main/docs/ingesting_merfish_data/pipeline.yml - - name: Replace template contents in configuration file - run: | - cd spatial/ingestion_merfish - sed -i 's+condaenv:+conda_env: pipeline_env+g' pipeline.yml - - name: File tree if: env.debug == 'true' run: tree spatial/ingestion_merfish diff --git a/.github/workflows/spatial_ingestion_visium-ci.yml b/.github/workflows/spatial_ingestion_visium-ci.yml index c8113205..8fb57e05 100644 --- a/.github/workflows/spatial_ingestion_visium-ci.yml +++ b/.github/workflows/spatial_ingestion_visium-ci.yml @@ -85,11 +85,6 @@ jobs: cd spatial/ingestion curl -o pipeline.yml https://raw.githubusercontent.com/DendrouLab/panpipes-tutorials/main/docs/ingesting_visium_data/pipeline.yml - - name: Replace template contents in configuration file - run: | - cd spatial/ingestion - sed -i 's+condaenv:+conda_env: pipeline_env+g' pipeline.yml - - name: File tree if: env.debug == 'true' run: tree spatial/ingestion