oops, parallel-fastq-dump is maybe using /tmp

src/batch_processor.py

@@ -45,7 +45,8 @@ def process_file(accession, region):
         # download reads from accession
         os.system('mkdir -p out/')
         os.system('prefetch '+accession)
-        os.system('/parallel-fastq-dump --split-files --outdir out/ --threads 4 --sra-id '+accession)
+        os.system('mkdir -p tmp/')
+        os.system('/parallel-fastq-dump --split-files --outdir out/ --tmpdir tmp/ --threads 4 --sra-id '+accession)
 
         files = os.listdir(os.getcwd() + "/out/")
         print("after fastq-dump, dir listing of out/", files)