[Bioperl-l] Bioperl help

[Scott Markel]

Please keep replies on the list.

You get no warning or error messages?  Just an empty output file?

I downloaded the scripts, used your input file contents, and got
the following result.

59 > perl fastaConcat.pl seq1.txt seq2.txt
>seq1
AAAAAATT
>seq2
TTTGG
>seq3
GGGGCC

Scott

From: Assiatu Barrie [mailto:assiatu.barrie at gmail.com]
Sent: Thursday, 14 May 2009 2:40 PM
To: Scott Markel
Subject: Re: [Bioperl-l] Bioperl help

This is the same script, it is the only I could find,  and seq 1 and two are the same on the website

seq1file
>seq1
AAAAAA
>seq2
TTT
>seq3
GGGG


seq2file contains
>seq1
TT
>seq2
GG
>seq3
CC

On Thu, May 14, 2009 at 4:26 PM, Scott Markel <SMarkel at accelrys.com<mailto:SMarkel at accelrys.com>> wrote:
Is the Perl script the same as the one found at
http://www.faculty.uaf.edu/ffnt/teaching/programming/perl-scripts/fastaConcat.pl?
That's the only one Google finds.

What do seq1.txt and seq2.txt contain?

Scott

Scott Markel, Ph.D.
Principal Bioinformatics Architect  email:  smarkel at accelrys.com<mailto:smarkel at accelrys.com>
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> -----Original Message-----
> From: bioperl-l-bounces at lists.open-bio.org<mailto:bioperl-l-bounces at lists.open-bio.org> [mailto:bioperl-l-<mailto:bioperl-l->
> bounces at lists.open-bio.org<mailto:bounces at lists.open-bio.org>] On Behalf Of Assiatu Barrie
> Sent: Thursday, 14 May 2009 2:10 PM
> To: bioperl-l at bioperl.org<mailto:bioperl-l at bioperl.org>
> Subject: [Bioperl-l] Bioperl help
>
> Hello again,
>
> So I think I installed bioperl successfully, but when I try running a test
> script i get a blank output file
>
> so i tried running a script called fastaConcat.pl on 2 fasta seq files but
> the output file was blank
>
> "perl fastaConcat.pl seq1.txt seq2.txt > out.txt"
>
> would appreciate the help
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