| Subject: | Bio-SamTools run error |
| Date: | Wed, 12 Aug 2015 05:11:52 -0400 |
| To: | bug-Bio-SamTools [...] rt.cpan.org |
| From: | Pawel G <pgajer [...] gmail.com> |
Hi,
I have installed Bio-SamTools on my mac 10.10.4 using
cpan[1]> install LDS/Bio-SamTools-1.41.tar.gz
I had to point to bam.h and compiled libbam.a files
"Please enter the location of the bam.h and compiled libbam.a files:
/Users/pgajer/devel/packages/samtools-0.1.19"
When running a simple perl script that uses Bio::DB::Sam I am getting the
following error
Can't load
'/Library/Perl/5.18/darwin-thread-multi-2level/auto/Bio/DB/Sam/Sam.bundle'
for module Bio::DB::Sam:
dlopen(/Library/Perl/5.18/darwin-thread-multi-2level/auto/Bio/DB/Sam/Sam.bundle,
1): Symbol not found: _bam_nt16_rev_table
Referenced from:
/Library/Perl/5.18/darwin-thread-multi-2level/auto/Bio/DB/Sam/Sam.bundle
Expected in: flat namespace
in
/Library/Perl/5.18/darwin-thread-multi-2level/auto/Bio/DB/Sam/Sam.bundle at
/System/Library/Perl/5.18/darwin-thread-multi-2level/DynaLoader.pm line 194.
at /Users/pgajer/projects/16S_rRNA_pipeline/perl/read_mapper.pl line 47.
Line 47 of my script is
use Bio::DB::Sam;
I have also installed Bio-SamTools (version 1.41) from the source code, and
I am still getting exactly the same error.
I would very much appreciate your help with this issue
Best,
:)
pawel