full run umap

Author: quentinblampey

novae_benchmark/pan_tissue_umap.py

@@ -60,7 +60,7 @@ def main():
 
     print("adata:", adata_full)
 
-    for n_obs in [1_000, 1_000_000, 10_000_000, None]:
+    for n_obs in [5_000_000, None]:
         if n_obs is not None and n_obs < adata_full.n_obs:
             adata = sc.pp.subsample(adata_full, n_obs=n_obs, copy=True)
         else:

remote/umaps.sh

@@ -2,7 +2,7 @@
 #SBATCH --job-name=novae
 #SBATCH --output=/gpfs/workdir/blampeyq/.jobs_outputs/%j
 #SBATCH --mem=128G
-#SBATCH --time=24:00:00
+#SBATCH --time=7-00:00:00
 #SBATCH --cpus-per-task=2
 #SBATCH --partition=cpu_long