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--- trinity-software [2015/06/11 12:55] – aorth
+++ trinity-software [2015/07/31 11:59] – joguya
@@ Line 14: / Line 14: @@
 <code>$module avail trinity</code>
-**Note:** Trinity creates millions of small files -- which causes problems on the HPC storage server -- so you must direct output from these jobs to ///var/scratch// instead of your home folder. For example:
+**Note:**
+  * You should always use the **--full_cleanup** option so that Trinity can clean up after itself by removing all the intermediary files it has created except for the final Trinity.fasta results file.
+  * Trinity creates millions of small files -- which causes problems on the HPC storage server -- so you must direct output from these jobs to ///var/scratch// instead of your home folder. For example:
 <code>#!/bin/env bash