reversing memory change in map_reads.py

workflow/scripts/map_reads.py

@@ -179,8 +179,10 @@ def align_pe(fastq, sai, reference, fastq_basename):
     # Determine the available memory on the host system (kB).
     avail_sys_mem = int(subprocess.check_output("grep MemTotal /proc/meminfo | grep -o '[0-9]*'", shell=True).decode("utf-8").strip())
     # Divide the total by the number of processors and apply a scaling factor (0.85) to not use all memory.
-    #mem_per_thread = math.floor((avail_sys_mem // cpu_count()) * 0.85)
-    mem_per_thread = math.floor( avail_sys_mem * 0.7)
+    mem_per_thread = math.floor((avail_sys_mem // cpu_count()) * 0.85)
+    #mem_per_thread = math.floor( avail_sys_mem * 0.7)
+    mem_per_thread = mem_per_thread * 4
+
     steps = [
         "cat %s" % (sam_filename),
         "grep -v -F -f %s" % (badcigar_filename),