[Bioperl-l] could not load phrap error

[eicke felipe]

Hi,
  I removed the old version of bioperl and installed
bioperl 1.1.1, but there is an error as following:

Can't locate loadable object for module DB_File in
@INC (@INC contains:
/usr/local/lib/perl5/5.8.0/sun4-solaris
/usr/local/lib/perl5/5.8.0
/usr/local/lib/perl5/site_perl/5.8.0/sun4-solaris
/usr/local/lib/perl5/site_perl/5.8.0
/usr/local/lib/perl5/site_perl .) at
/usr/local/lib/perl5/site_perl/5.8.0/Bio/SeqFeature/Collection.pm
line 121
Compilation failed in require at
/usr/local/lib/perl5/site_perl/5.8.0/Bio/SeqFeature/Collection.pm
line 121.
BEGIN failed--compilation aborted at
/usr/local/lib/perl5/site_perl/5.8.0/Bio/SeqFeature/Collection.pm
line 121.
Compilation failed in require at
/usr/local/lib/perl5/site_perl/5.8.0/Bio/Assembly/Contig.pm
line 214.
BEGIN failed--compilation aborted at
/usr/local/lib/perl5/site_perl/5.8.0/Bio/Assembly/Contig.pm
line 214.
Compilation failed in require at
/usr/local/lib/perl5/site_perl/5.8.0/Bio/Assembly/IO/phrap.pm
line 148.
BEGIN failed--compilation aborted at
/usr/local/lib/perl5/site_perl/5.8.0/Bio/Assembly/IO/phrap.pm
line 148.

When I try to install the DB_File-1.806 occours:

#perl Makefile.PL
Parsing config.in...
Looks Good.
Note (probably harmless): No library found for -ldb
Writing Makefile for DB_File

# make
cp DB_File.pm blib/lib/DB_File.pm
AutoSplitting blib/lib/DB_File.pm
(blib/lib/auto/DB_File)
gcc -c  -I/usr/local/BerkeleyDB/include
-fno-strict-aliasing -D_LARGEFILE_SOURCE
-D_FILE_OFFSET_BITS=64 -O   -DVERSION=\"1.806\"
-DXS_VERSION=\"1.806\" -fPIC
"-I/usr/local/lib/perl5/5.8.0/sun4-solaris/CORE" 
-D_NOT_CORE  -DmDB_Prefix_t=size_t
-DmDB_Hash_t=u_int32_t  version.c
version.c:30:16: db.h: No such file or directory
make: *** [version.o] Error 1

Could somebody help me?
Thanks.
Eicke.











 --- Jason Stajich <jason@cgt.mc.duke.edu> escreveu: >
Bio::Assembly::IO was introduced post 1.0.2 if you
> try and mix versions it
> won't work.  This is because _load_module is a
> method introduced after
> 1.0.2 so in order to use Bio::Assembly::IO you
> should use bioperl 1.1.1
> developer release or the current CVS live version of
> the code.  If you
> have both on your system you will need to make sure
> your PERL5LIB or
> in-script INC variable has the more recent bioperl
> BEFORE
> the 1.0.2 version.
> 
> (Bio::Root::IO is the specific module which has
> extended its API to
> include the _load_module utillity which previous was
> a copy+paste
> function in all the XXIO factories)
> 
> 1.2 release is forthcoming (Dec 31) will of course
> superceede all of this
> and should cause none of these problems .
> 
> -jason
> 
> On Wed, 4 Dec 2002, [iso-8859-1] eicke felipe wrote:
> 
> > Hi Folks,
> >   I installed the bioperl-1.0.2 to compile some
> perl
> > codes but when I tried to compile the following
> error
> > appear:
> >
> > Bio::Assembly::IO: could not load phrap - for more
> > details on supported formats please see the
> > Assembly::IO docs
> > Exception Can't locate object method
> "_load_module"
> > via package "Bio::Assembly::IO" at
> >
>
/usr/local/lib/perl5/site_perl/5.8.0/Bio/Assembly/IO.pm
> > line 167.
> >
> > Could anybody help me?
> > Thanks, Eicke.
> >
> >
> >
>
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> >
> 
> --
> Jason Stajich
> Duke University
> jason at cgt.mc.duke.edu
> 
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