Differences

This shows you the differences between two versions of the page.

--- stampede2 [2017/12/21 19:44] – edit
+++ stampede2 [2020/07/07 17:05] (current) – admin
@@ Line 1: / Line 1: @@
-The instructions here assume you know the basics of running NAMD and have done it on a cluster like DT already. The details specific to Stampede2 are presented here.
+The instructions here assume you know the basics of running NAMD and have done it on a cluster like DT already. The details specific to Stampede2 are presented here. Stampede2 has 1T of space for each user, so clear out your data once in a while.
 Your working directory should look similar to this\\
 /work/04431/ewang125/stampede2\\
-Note that you need the stampede2 directory which was introduced during the Stampede-Stampede2 transition.\\
+Note that you need the stampede2 directory.\\
-Also, you can type ''cdw''  to go to your work directory
+Also, you can type ''cdw''  to go to your work directory. To setup your directory for group readability please do the following:
+<code commend>
+cdw
+setfacl -d -m u:jklauda:rw .
+</code>
@@ Line 16: / Line 21: @@
 . ''last.seqno''
+Example files using the KNL nodes. Use 1 node per job!\\
 {{ :prod.tar.gz |}}
+Only dyn.csh changes if you're using the SKX nodes. For 30k atoms, 2 nodes is optimal. For 70k atoms, 3 nodes is ok but 4 is not ok. 4 tasks per node is recommended\\
+{{ :dyn.csh.gz |}}
+An important note: in ''dyn.scr'', you need to cd directly to the working directory. If you have a lot of jobs, you may find it tedious to change every file.