Clear the fastq-dump cache after each sample

FredHutch · Feb 6, 2018 · a43afe6 · a43afe6
1 parent 161c604
commit a43afe6
Showing 1 changed file with 8 additions and 0 deletions.
diff --git a/lib/fastq_helpers.py b/lib/fastq_helpers.py
@@ -94,6 +94,14 @@ def get_sra(accession, temp_folder):
         temp_folder, accession
     ])
 
+    # Clear the cache
+    logging.info("Clearing the cache for fastq-dump")
+    run_cmds([
+        "rm",
+        "-f",
+        "/root/ncbi/public/sra/{}*".format(accession)
+    ])
+
     # Combine any multiple files that were found
     logging.info("Concatenating output files")
     with open(local_path + ".temp", "wt") as fo: