kizi

Here's an abbreviated example command line that sometimes gives me corrupt output:
#When it feels like corrupting stuff ->

> cat $MY_FILE | grep '^something'

something blah blah chr1 123456 1 0 0

#When it feels like doing it correctly

> cat $MY_FILE | grep '^something'

something blah blah chr1 123456 - 1 0 0

The commands are identical. (Yes, I've strcomp'd them.)
Notice the missing dash after the 123456
Not good.

This is especially troublesome considering grep is essential.

> uname -a

Linux my_server 3.8.0-25-generic #37-Ubuntu SMP Thu Jun 6 20:47:07 UTC 2013 x86_64 x86_64 x86_64 GNU/Linux

> grep --version

grep (GNU grep) 2.14
Copyright (C) 2012 Free Software Foundation, Inc.
License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html>.
This is free software: you are free to change and redistribute it.
There is NO WARRANTY, to the extent permitted by law.

Written by Mike Haertel and others, see <http://git.sv.gnu.org/cgit/grep.git/tree/AUTHORS>.