Stata
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(Difference between revisions)
Line 126: | Line 126: | ||
. | . | ||
end of do-file | end of do-file | ||
+ | </pre> | ||
+ | |||
+ | ==stata-mp test== | ||
+ | cd /mnt/glusterfs/chekh/stata-mp-test | ||
+ | |||
+ | My test.do : | ||
+ | <pre> | ||
+ | clear | ||
+ | sysuse auto | ||
+ | describe | ||
</pre> | </pre> |
Revision as of 16:59, 4 September 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.
Job script:
#!/bin/bash source /mnt/glusterfs/software/free/modules/tcl/init/bash module load StataSE-12.1 stata -b do test
Full session:
[chekh@barley02.stanford.edu] /mnt/glusterfs/chekh [0] $ qsub -cwd -l mem_free=10M script2.submit Your job 167221 ("script2.submit") has been submitted [chekh@barley02.stanford.edu] /mnt/glusterfs/chekh [0] $ qstat job-ID prior name user state submit/start at queue slots ja-task-ID ----------------------------------------------------------------------------------------------------------------- 167221 0.00000 script2.su chekh qw 04/27/2012 15:21:30 1 ... ... [chekh@barley02.stanford.edu] /mnt/glusterfs/chekh [0] $ cat test.log ___ ____ ____ ____ ____ (R) /__ / ____/ / ____/ ___/ / /___/ / /___/ 12.1 Copyright 1985-2011 StataCorp LP Statistics/Data Analysis StataCorp 4905 Lakeway Drive College Station, Texas 77845 USA 800-STATA-PC http://www.stata.com 979-696-4600 stata@stata.com 979-696-4601 (fax) 23-user Stata network perpetual license: Serial number: 40120564988 Licensed to: Jane Tansuwan Stanford University Notes: 1. Command line editing disabled 2. Stata running in batch mode Note: Your site can add messages to the introduction by editing the file stata.msg in the directory where Stata is installed. . do test . clear . sysuse auto (1978 Automobile Data) . describe Contains data from /mnt/glusterfs/software/non-free/stata-se-12/ado/base/a/auto > .dta obs: 74 1978 Automobile Data vars: 12 13 Apr 2011 17:45 size: 3,182 (_dta has notes) ------------------------------------------------------------------------------- storage display value variable name type format label variable label ------------------------------------------------------------------------------- make str18 %-18s Make and Model price int %8.0gc Price mpg int %8.0g Mileage (mpg) rep78 int %8.0g Repair Record 1978 headroom float %6.1f Headroom (in.) trunk int %8.0g Trunk space (cu. ft.) weight int %8.0gc Weight (lbs.) length int %8.0g Length (in.) turn int %8.0g Turn Circle (ft.) displacement int %8.0g Displacement (cu. in.) gear_ratio float %6.2f Gear Ratio foreign byte %8.0g origin Car type ------------------------------------------------------------------------------- Sorted by: foreign . end of do-file
stata-mp test
cd /mnt/glusterfs/chekh/stata-mp-test
My test.do :
clear sysuse auto describe