ci: re-enable pra

.github/workflows/publish.yml

@@ -57,10 +57,9 @@ jobs:
       - name: Run Snakemake workflow for DMMMs
         shell: bash --login {0}
         run: snakemake --cores 4 --configfile configs/dmmm.yaml --show-failed-logs -s spras/Snakefile
-      # TODO: re-enable PRAs once RN/synthetic data PRs are merged.
-      # - name: Run Snakemake workflow for PRAs
-      #   shell: bash --login {0}
-      #   run: snakemake --cores 1 --configfile configs/pra.yaml --show-failed-logs -s spras/Snakefile
+      - name: Run Snakemake workflow for PRAs
+        shell: bash --login {0}
+        run: snakemake --cores 1 --configfile configs/pra.yaml --show-failed-logs -s spras/Snakefile
       - name: Setup PNPM
         uses: pnpm/action-setup@v4
         with:

datasets/rn-muscle-skeletal/Snakefile

@@ -8,7 +8,7 @@ rule get_interactome:
     output:
         "raw/Muscle_Skeletal-Dec2018.tsv"
     shell:
-        "uv run gdown https://drive.google.com/file/d/1mkvWrCkeDz1DU-PSEsRaGNM20EcpVLwE/view?usp=sharing -O raw/Muscle_Skeletal-Dec2018.tsv"
+        "uv run gdown https://drive.google.com/uc?id=1mkvWrCkeDz1DU-PSEsRaGNM20EcpVLwE -O raw/Muscle_Skeletal-Dec2018.tsv"
 
 rule process_interactome:
     input:

run_snakemake.sh

@@ -15,6 +15,7 @@ cd "$(dirname "$0")"
 main() {
     uv run snakemake --cores 1 -d datasets/yeast-osmotic-stress -s datasets/yeast-osmotic-stress/Snakefile
     uv run snakemake --cores 1 -d datasets/hiv -s datasets/hiv/Snakefile
+    uv run snakemake --cores 1 -d datasets/rn-muscle-skeletal -s datasets/rn-muscle-skeletal/Snakefile
 }
 
 main "$@"