[Bioperl-l] Error message.

[Brian Osborne]

Jian,

You could try:

my $in = Bio::AlignIO->new( -file => $ARGV[0], -format => 'clustalw' );

my $out = Bio::AlignIO->new( -fh => \*STDOUT, -format => 'clustalw' );

my $aln = $in->next_aln();

I know this is not an answer to your question...

Brian O.

-----Original Message-----
From: bioperl-l-bounces at portal.open-bio.org
[mailto:bioperl-l-bounces at portal.open-bio.org]On Behalf Of Sun, Jian
Sent: Wednesday, September 15, 2004 3:45 PM
To: Bioperl Mailing List
Cc: bioperl-l at portal.open-bio.org
Subject: [Bioperl-l] Error message.

Dear all:

  Could anybody tell me what's the problem of the below perl codes, why I
always get the Syntax Error message when I run the command:> perl -c
file.name?

**********************************************

..............

my $in = new Bio::AlignIO ( -file => $ARGV[0], -format => 'clustalw' );

my $out = newFh Bio::AlignIO ( -fh => \*STDOUT, -format => 'clustalw' );

my $aln = $in->next_aln();

***************************************************



________________________________

From: bioperl-l-bounces at portal.open-bio.org on behalf of Pankaj
Sent: Wed 9/15/2004 3:40 AM
To: bio_bulletin_board at bioinformatics.org
Cc: bioperl-l at portal.open-bio.org
Subject: [Bioperl-l] (no subject)



Hi all,
I have a pdb file of 2 superimposed structures. I want to know the
rmsd of a part of 1 structure to a part of the 2 structure. For this
rmsd calculation I dont want to disturb the superimposition. how do I
do that?
thanking all in advance
Pankaj Kamra
Research Scholar
_______________________________________________
Bioperl-l mailing list
Bioperl-l at portal.open-bio.org
http://portal.open-bio.org/mailman/listinfo/bioperl-l



_______________________________________________
Bioperl-l mailing list
Bioperl-l at portal.open-bio.org
http://portal.open-bio.org/mailman/listinfo/bioperl-l