[BangPypers] executing shell commands through python script

[Yoganand Anandaraju]

I use subprocess.call to execute shell commands. Take a look at this http://docs.python.org/library/subprocess.html 

----- Original Message -----
From: brijithp at gmail.com
Sent: 08/14/12 08:51 AM
To: Bangalore Python Users Group - India
Subject: Re: [BangPypers] executing shell commands through python script

 try this. http://docs.python.org/library/commands.html Regards, Brijith P On Tue, Aug 14, 2012 at 3:15 AM, Vikram K <kpguy1975 at gmail.com> wrote: > i am able to run the following command from the shell (i am working on Mac > Snow Leopard): > > cgatools evidence2sam --beta --evidence-dnbs > evidenceDnbs-chr11-GS000010026-ASM-T1.tsv.bz2 --reference build36.crr > --output CGI_10026_CLL046_chr11_NUMA1_N.sam --extract-genomic-region > chr11,71391559,71469221 --add-mate-sequence > > The command i give above executes perfectly and i get the desired results. > Problem is that i need to execute variations of this command around two > hundred times on the shell. Can i embed this command in a python script (i > think one of the functions in the os module might be able to do what i > want). Thanks. > _______________________________________________ > BangPypers mailing list > BangPypers at python.org > http://mail.python.org/mailman/listinfo/bangpypers _______________________________________________ BangPypers mailing list BangPypers at python.org http://mail.python.org/mailman/listinfo/bangpypers



Regards,
 Yoganand