[Bioperl-l] bp_seqfeature_load.pl fails on Mac os. Please help.

[Minh Bui]

How can I know where DBD:mysql PATH on my MAC? I am very new to MAC sorry.

I just check and mysql.pm is in
/Library/Perl/5.8.6/Bio/DB/SeqFeature/Store/DBI/mysql.pm



On 8/21/10, Adam Witney <awitney at sgul.ac.uk> wrote:
>
>  On 20 Aug 2010, at 22:29, Minh Bui wrote:
>
>  > Hi,,
>  > I am trying to load my GFF file to mysql database but I got this error
>  > when I ran the bp_seqfeature_load.pl ( bioperl 1.6.1 on  MAC)
>  >
>  > [BioComplexity-5:/usr/local/bin] minh% perl bp_seqfeature_load.pl
>  > install_driver(mysql) failed: Can't locate DBD/mysql.pm in @INC (@INC
>  > contains: /sw/lib/perl5 /sw/lib/perl5/darwin
>  > /System/Library/Perl/5.8.6/darwin-thread-multi-2level
>  > /System/Library/Perl/5.8.6
>  > /Library/Perl/5.8.6/darwin-thread-multi-2level /Library/Perl/5.8.6
>  > /Library/Perl /Network/Library/Perl/5.8.6/darwin-thread-multi-2level
>  > /Network/Library/Perl/5.8.6 /Network/Library/Perl
>  > /System/Library/Perl/Extras/5.8.6/darwin-thread-multi-2level
>  > /System/Library/Perl/Extras/5.8.6 /Library/Perl/5.8.1 .) at (eval 44)
>  > line 3.
>  > Perhaps the DBD::mysql perl module hasn't been fully installed,
>  > or perhaps the capitalisation of 'mysql' isn't right.
>  > Available drivers: DBM, ExampleP, File, Gofer, Proxy, Sponge.
>  > at /Library/Perl/5.8.6/Bio/DB/SeqFeature/Store/DBI/mysql.pm line 212
>  >
>  > I am using MAC OSX version 10.4.10 and MAMP? Isnt it the
>  > "/Library/Perl/5.8.6" already in @INC? What am I missing?
>  > I have been googling this error for a few hours. I also install
>  > Bioperl and reinstall DBD::mysql using CPAN. It still doesnt work..
>  >
>  > Here is my $PERL5LIB:  /sw/lib/perl5:/sw/lib/perl5/darwin/
>
>
>
> Where did DBD:mysql get installed? can you verify that DBD/mysql.pm is actually in one of those directories listed above?
>
>