os.popen and broken pipes

[Philipp Pagel]

Antoon Pardon <apardon at forel.vub.ac.be> wrote:
> On 2007-02-09, Philipp Pagel <pDOTpagel at gsf.de> wrote:
> > for filename in file_list:
> >     file = os.popen('uncompress -c '+filename, 'r')
> >     do_something(file)
> >     file.close()
> >
> > This works fine for some files but results in
> >
> > 'write error onstdout: Broken pipe'

> As far as I can tell, your do_something doesn't consume the entire file.
> So you close the file prematurly, which results in the uncompress/zcat
> program trying to write to a pipe that is closed on the otherside,
> giving you the above message.

You are right: some of the files do not fulfill certain
critereia causing so_somehting() to return before the entire file is
processed.

Thanks!

cu
	Philipp

-- 
Dr. Philipp Pagel                          Tel. +49-8161-71 2131
Dept. of Genome Oriented Bioinformatics    Fax. +49-8161-71 2186
Technical University of Munich
http://mips.gsf.de/staff/pagel