[Bioperl-l] bioperl is not playing nice with DProf on aix

[Mike Cariaso]

Many thanks for the quick reply. You were only
slightly beaten by someone's 'Out of office' nice.



> cat f2.pl
use Bio::SeqIO;
print "hello world\n";

> /usr/local/bin/perl -d:DProf f2.pl
Illegal instruction (core dumped)

> gdb /usr/local/bin/perl core
GNU gdb 5.0-aix51-020209
Copyright 2000 Free Software Foundation, Inc.
GDB is free software, covered by the GNU General
Public License, and you are
welcome to change it and/or distribute copies of it
under certain conditions.
Type "show copying" to see the conditions.
There is absolutely no warranty for GDB.  Type "show
warranty" for details.
This GDB was configured as
"powerpc-ibm-aix5.1.0.0"...(no debugging symbols
found)...

warning: core file may not match specified executable
file.
Program terminated with signal 4, Illegal instruction.
(no debugging symbols found)...(no debugging symbols
found)...(no debugging symbols found)...(no debugging
symbols found)...
(no debugging symbols found)...#0  0x110220a30 in ??
() from (unknown load module)
(gdb) 



--- "Aaron J. Mackey" <amackey at pcbi.upenn.edu> wrote:

> 
> If you fire up gdb like so:
> 
> % gdb /usr/local/bin/perl core
> % bt
> 
> What do you get?
> 
> -Aaron
> 
> On Aug 3, 2004, at 5:24 PM, Mike Cariaso wrote:
> 
> > Don't you hate it when someone asks a question and
> > then includes pages of code? What you really need
> is a
> > small, tight example which can easily reproduce
> the
> > problem. Ok, I've trimmed this down as much as I
> > could.
> >
> > Here is the problem:
> >
> >> cat f2.pl
> > use Bio::SeqIO;
> > print "hello world\n";
> >
> >> /usr/local/bin/perl -d:DProf f2.pl
> > Illegal instruction (core dumped)
> >
> >
> >
> > To put that in some context...
> >
> >
> >> cat f1.pl
> > print "hello world\n";
> >
> >> /usr/local/bin/perl -d:DProf f1.pl
> > hello world
> >
> >> cat f2.pl
> > use Bio::SeqIO;
> > print "hello world\n";
> >
> >> /usr/local/bin/perl -d:DProf f2.pl
> > Illegal instruction (core dumped)
> >
> >> cat f3.pl
> > use Data::Dumper;
> > use POSIX;
> > print "hello world\n";
> >
> >> /usr/local/bin/perl -d:DProf f3.pl
> > hello world
> >
> >> /usr/local/bin/perl f2.pl
> > hello world
> >
> > This is perl, v5.6.1 built for aix-64all
> >
> > So...
> >  DProf alone works.
> >  DProf + 'use' works.
> >  bioperl alone works.
> > But...
> >  DProf + bioperl doesn't work
> >
> > The error may be with DProf. But I don't think
> there
> > is much of a DProf community to speak of.
> >
> > Can anyone else replicate, this?
> > Or better yet shed light on a solution?
> >
> >
> >
> >
> >
> >
> > =====
> > Mike Cariaso
> > _______________________________________________
> > Bioperl-l mailing list
> > Bioperl-l at portal.open-bio.org
> >
>
http://portal.open-bio.org/mailman/listinfo/bioperl-l
> >
> >
> --
> Aaron J. Mackey, Ph.D.
> Dept. of Biology, Goddard 212
> University of Pennsylvania       email: 
> amackey at pcbi.upenn.edu
> 415 S. University Avenue         office:
> 215-898-1205
> Philadelphia, PA  19104-6017     fax:   
> 215-746-6697
> 
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l at portal.open-bio.org
>
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> 


=====
Mike Cariaso