01-30-2008
File names based off of wildcards
Hello all-
First post, so just to forewarn you: I know enough about Perl and the Terminal to get myself into trouble, not quite enough to always get out.
I'd like to know if it is possible to, from the command prompt, use a wild-card to declare the names of files for input and then use the value of the wild card in the same line to declare the name for the output. I'm using the BLAST package to search through genes, so what I'd like to have is:
% blastall -p blastn -i *.dna -o (some-variable).output
The -p calls the blastn part of the package, the -i declares the input to be all the genes in the directory and the -o declares the output. I'd like it if a geneA.dna file, for instance, produced an output file called geneA.output.
It strikes me as one of those glaringly obvious things I've overlooked at some point, but I have no idea what could be put in the (some-variable) portion of the command. Gory details: using the public BLAST package (so I can't edit anything within there easily to... at all), executing on a Mac OS X Terminal session. If you need any other details, please let me know.
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LEARN ABOUT DEBIAN
file::spec::functions
File::Spec::Functions(3pm) User Contributed Perl Documentation File::Spec::Functions(3pm)
NAME
File::Spec::Functions - portably perform operations on file names
SYNOPSIS
use File::Spec::Functions;
$x = catfile('a','b');
DESCRIPTION
This module exports convenience functions for all of the class methods provided by File::Spec.
For a reference of available functions, please consult File::Spec::Unix, which contains the entire set, and which is inherited by the
modules for other platforms. For further information, please see File::Spec::Mac, File::Spec::OS2, File::Spec::Win32, or File::Spec::VMS.
Exports
The following functions are exported by default.
canonpath
catdir
catfile
curdir
rootdir
updir
no_upwards
file_name_is_absolute
path
The following functions are exported only by request.
devnull
tmpdir
splitpath
splitdir
catpath
abs2rel
rel2abs
case_tolerant
All the functions may be imported using the ":ALL" tag.
COPYRIGHT
Copyright (c) 2004 by the Perl 5 Porters. All rights reserved.
This program is free software; you can redistribute it and/or modify it under the same terms as Perl itself.
SEE ALSO
File::Spec, File::Spec::Unix, File::Spec::Mac, File::Spec::OS2, File::Spec::Win32, File::Spec::VMS, ExtUtils::MakeMaker
perl v5.14.2 2010-09-20 File::Spec::Functions(3pm)