update scripts

openproblems-bio · Sep 20, 2024 · 8d23fb8 · 8d23fb8
1 parent df4a6bc
commit 8d23fb8
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Showing 2 changed files with 6 additions and 2 deletions.
diff --git a/scripts/test_resources/2023_yao_mouse_brain_scrnaseq_10xv2.sh b/scripts/test_resources/2023_yao_mouse_brain_scrnaseq_10xv2.sh
@@ -22,8 +22,8 @@ param_list:
     dataset_organism: mus_musculus
 
 do_subsample: true
-n_obs: 500
-n_vars: 2000
+n_obs: 400
+n_vars: 10000
 
 output_dataset: "\$id/dataset.h5ad"
 output_meta: "\$id/dataset_meta.yaml"

diff --git a/scripts/test_resources/test_pipeline.sh b/scripts/test_resources/test_pipeline.sh
@@ -4,6 +4,10 @@ set -e
 
 OUT_DIR="resources_test/task_ist_preprocessing/mouse_brain_combined"
 
+rm -rf $OUT_DIR
+mkdir -p $OUT_DIR
+
+
 # run dataset preprocessor
 viash run src/data_processors/process_dataset/config.vsh.yaml -- \
   --input_scrnaseq resources_test/common/2023_yao_mouse_brain_scrnaseq_10xv2/dataset.h5ad \