[Bioperl-l] Re: clustalw.pm
nick holton
nickholton@hotmail.com
Tue, 24 Jul 2001 11:20:06 +1200
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i have attached the updated clustalw.pm (Clustalw.zip). seems to work fine
for me, ie it runs the test script without spitting an error. I defined
CLUSTALDIR in the module like this:
if ($^O=~ /mswin/i){
$ENV{CLUSTALDIR} = 'c:/clustalw';
}
I don't think there is a way to set this on mswin? so you are probably going
to have to change that line (378) to your clustalw dir (or move the clustalw
directory to there).
The rest of the changes are just differences between windows and unix
clustalw. Line commands for windows need '/' ('-' for unix) and I had to
change the length of the temp file name to 8 chars (just a windows weirdism,
this could be a similar problem with other dependencies, but I haven't
looked at them). I tried to make the changes so they would run on both
windows and unix but i haven't tested it on unix.
Let me know if it works ok, or if it doesn't.
have fun
nick holton
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