[BioBrew Users] Biobrew modules.

[Glen Otero]

Humberto-

I'll work on this ASAP. I should have this fixed by the end of the week.

Glen

On Mar 1, 2005, at 8:49 AM, Humberto Ortiz Zuazaga wrote:

> There's something still broken with modules on the BioBrew 3.3 roll.
>
> $ module avail
>
> --------------------------- /opt/BioBrew/modulefiles
> ---------------------------
> ClustalW/1.8.3-1 HMMER/2.3.2-pvm  gromacs/3.2.1-1
> Fasta/3.4-1      NCBI/6.1.0-2     wise/2.2.0-1
>
> $ module add NCBI/6.1.0-2
>
> $ module list
> Currently Loaded Modulefiles:
>   1) NCBI/6.1.0-2
>
> $ blast
> -bash: blast: command not found
>
> $ echo $PATH
> /opt/BioBrew/NCBI/6.1.0-2/bin:/opt/gridengine/bin/glinux:/opt/BioBrew/ 
> mrbayes/3
> .0/bin:/usr/kerberos/bin:/opt/FarmTools/fbsng/bin:/usr/local/bin:/bin: 
> /usr/bin:
> /usr/X11R6/bin:/opt/ganglia/bin:/usr/java/j2sdk1.4.2_04/bin:/opt/ 
> rocks/bin:/opt
> /rocks/sbin:/home/humberto/bin
>
> But the actual location of blast is
>
> /opt/BioBrew/NCBI/6.1.0/bin/blast
>
> So the module is incorrectly adding the rpm version number into the  
> path.
>
>
> _______________________________________________
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> BioBrew-Users at bioinformatics.org
> https://bioinformatics.org/mailman/listinfo/BioBrew-Users
>
>
Glen Otero Ph.D.
Linux Prophet

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