Stata
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(Difference between revisions)
(New page: Running stata in batch mode on the barleys: <pre> [chekh@corn-image-new.stanford.edu] /mnt/glusterfs/chekh [0] $ cat test.do clear sysuse auto describe [chekh@corn-image-new.stanford.ed...) |
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Looks like stata doesn't print anything to stdin or stderr, but does create a .log file with the same name as your .do file. | Looks like stata doesn't print anything to stdin or stderr, but does create a .log file with the same name as your .do file. | ||
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| + | ==using module== | ||
| + | We're trying to move away from /usr/sweet/bin, using [[FarmShare software | modules]] instead. So your stata session looks more like: | ||
| + | |||
| + | <pre> | ||
| + | [chekh@barley02.stanford.edu] /mnt/glusterfs [130] | ||
| + | $ source /mnt/glusterfs/software/free/modules/tcl/init/bash | ||
| + | +(0):WARN:0: Directory '/afs/ir/users/c/h/chekh/.modules' not found | ||
| + | [chekh@barley02.stanford.edu] /mnt/glusterfs [0] | ||
| + | $ module avail | ||
| + | --------------------- /mnt/glusterfs/software/free/modules/tcl/modulefiles --------------------- | ||
| + | MATLAB-R2009b MATLAB-R2011b R-2.15.0 StatTransfer-11.2 StataSE-12.1 | ||
| + | MATLAB-R2010b MATLAB-R2012a StatTransfer-10.1 StataMP-12.1 | ||
| + | ------------------------------------------- Aliases -------------------------------------------- | ||
| + | ------------------------------------------- Versions ------------------------------------------- | ||
| + | [chekh@barley02.stanford.edu] /mnt/glusterfs [0] | ||
| + | $ module load StataSE-12.1 | ||
| + | [chekh@barley02.stanford.edu] /mnt/glusterfs [0] | ||
| + | $ stata | ||
| + | ... | ||
| + | </pre> | ||
| + | |||
| + | But that also means you need to modify your job script to point to the right MATLAB. So you'll want to add that "module load" command to that job script. | ||
Revision as of 15:15, 27 April 2012
Running stata in batch mode on the barleys:
[chekh@corn-image-new.stanford.edu] /mnt/glusterfs/chekh [0]
$ cat test.do
clear
sysuse auto
describe
[chekh@corn-image-new.stanford.edu] /mnt/glusterfs/chekh [0]
$ echo "/usr/sweet/bin/stata -b do test2.do" | qsub -cwd -l hostname=barley05
Your job 5725 ("STDIN") has been submitted
[chekh@corn-image-new.stanford.edu] /mnt/glusterfs/chekh [0]
$ ls -ltr |tail -n 4
-rw-r--r-- 1 chekh root 27 Nov 7 17:27 test2.do
-rw-r--r-- 1 chekh root 0 Nov 7 17:28 STDIN.o5725
-rw-r--r-- 1 chekh root 0 Nov 7 17:28 STDIN.e5725
-rw-r--r-- 1 chekh root 2400 Nov 7 17:28 test2.log
Looks like stata doesn't print anything to stdin or stderr, but does create a .log file with the same name as your .do file.
using module
We're trying to move away from /usr/sweet/bin, using modules instead. So your stata session looks more like:
[chekh@barley02.stanford.edu] /mnt/glusterfs [130] $ source /mnt/glusterfs/software/free/modules/tcl/init/bash +(0):WARN:0: Directory '/afs/ir/users/c/h/chekh/.modules' not found [chekh@barley02.stanford.edu] /mnt/glusterfs [0] $ module avail --------------------- /mnt/glusterfs/software/free/modules/tcl/modulefiles --------------------- MATLAB-R2009b MATLAB-R2011b R-2.15.0 StatTransfer-11.2 StataSE-12.1 MATLAB-R2010b MATLAB-R2012a StatTransfer-10.1 StataMP-12.1 ------------------------------------------- Aliases -------------------------------------------- ------------------------------------------- Versions ------------------------------------------- [chekh@barley02.stanford.edu] /mnt/glusterfs [0] $ module load StataSE-12.1 [chekh@barley02.stanford.edu] /mnt/glusterfs [0] $ stata ...
But that also means you need to modify your job script to point to the right MATLAB. So you'll want to add that "module load" command to that job script.
