Re: [GUSDEV] XML::Simple in BioperlFeatMapper.pm

[Ed R. <ero...@ug...>]

XML::Simple refers to the XML::Simple package available from
CPan.  It is not a BioPerl module.

-ed



---- Original message ----
>Date: Mon, 24 Oct 2005 16:40:47 -0400
>From: "Weichen Wu" <we...@se...>  
>Subject: [GUSDEV] XML::Simple in BioperlFeatMapper.pm  
>To: <gus...@li...>
>
>In program BioperlFeatMapper.pm, there is a line
>use XML::Simple;
> I think the Simple.pm is the one from Bioperl package. Since
in Bioperl, 
>the Simple.pm is under directory Bio/Location/ rather than
XML/, I made a 
>sub-directory XML in gus_home/lib/perl/ and copy the
Simple.pm to the XML 
>sub-directory. Is it right?
>That I ask this is because I have compilation error when run
Insert 
>SequenceFeatures.pm
>
>[wewu@noodle import_ipi_zebrafish]$ ga 
>GUS::Supported::Plugin::InsertSequenceFeatures --mapFile 
>genbank2gus.xml --inputFileOrDir embl.dat --fileFormat EMBL
--extDbName 
>embl --extDbRlsVer 2.2
>
>ERROR:
>Can't locate object method "new" via package "XML::Simple"
(perhaps you 
>forgot to load "XML::Simple"?) at 
>/home/wewu/work/6_gus/gus_home/lib/perl/GUS/Supported/BioperlFeatMapperSet.pm

>line 67.
>STACK TRACE:
> at 
>/home/wewu/work/6_gus/gus_home/lib/perl/GUS/Supported/BioperlFeatMapperSet.pm

>line 67
>       
GUS::Supported::BioperlFeatMapperSet::_parseMapFile('GUS::Supported::BioperlFeatMapperSet=HASH(0x1e08420)',

>'ipi2gus.xml',
>
>Thanks,
>Weichen
>
>
>
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-----------------
Ed Robinson
Center for Tropical and Emerging Global Diseases
University of Georgia, Athens, GA 30602
ero...@ug.../(706)542.1447/254.8883