[BioBrew Users] Fwd: [Rocks-Discuss]biobrew roll

[Glen Otero]

Luke-

Was gridengine actually installed or were you using PBS?

Glen

Begin forwarded message:

> From: Jingyuan Luke <jyluke at mimos.my>
> Date: January 3, 2006 4:25:36 PM PST
> To: Glen Otero <glen at callident.com>
> Subject: Re: [Rocks-Discuss]biobrew roll
>
>
> Hi,
>
> I actually had the same issue as well (maybe I should reported this  
> earlier). Manual installation complaint about not seeing gridengine  
> therefore I was forced to use "rpm -ivh --nodeps" to install the rpms.
>
> Luke
>
> Glen Otero wrote:
>
>> Very weird. No one else has reported this. What is listed under / 
>> opt/ BioBrew?
>> Worse case scenario, you can install the rpms you like from / 
>> export/ home/install/ftp.rocksclusters.org/pub/rocks/rocks-4.1/ 
>> rocks-dist/ rolls/biobrew/4.1/i386/RedHat/RPMS
>> Glen
>> On Jan 3, 2006, at 1:21 PM, Chuming Chen wrote:
>>
>>> Hi,
>>>
>>> I installed biobrew roll when I installed my frontend node. But  
>>> I  couldn't find any package of biobrew get installed (i.e. blast).
>>>
>>> # ls /export/home/install/ftp.rocksclusters.org/pub/rocks/ 
>>> rocks-4.1/ rocks-dist/rolls/biobrew/4.1/i386/RedHat/RPMS
>>> biopython-1.40b-1.i386.rpm     mpiblast-1.4.0-1.i386.rpm
>>> byacc-1.9-29.i386.rpm          mrbayes-3.1-1.i386.rpm
>>> clustalw-1.8.3-1.i386.rpm      NCBI-2.2.12-1static.i386.rpm
>>> clustalw-mpi-0.13-1.i386.rpm   Numeric-24.0b2-1.i386.rpm
>>> EMBOSS-3.0.0-1.i386.rpm        phylip-3.65-1.i386.rpm
>>> EMBOSS-devel-3.0.0-1.i386.rpm  primer3-1.0.0-1.i386.rpm
>>> EMBOSS-libs-3.0.0-1.i386.rpm   probcons-1.10-1.i386.rpm
>>> Fasta-3.4-1.i386.rpm           pvm-3.4.4-21.i386.rpm
>>> fftw-2.1.5-1.i386.rpm          pvm-gui-3.4.4-21.i386.rpm
>>> flex-2.5.4a-34.i386.rpm        reportlab-1.20-1.i386.rpm
>>> gromacs-3.2.1-1.i386.rpm       sgeblast-0.2-1.i386.rpm
>>> hmmer-2.3.2-4.i386.rpm         t-coffee-2.66-1.i386.rpm
>>> modeltest-3.7-1.i386.rpm       wise-2.2.0-1.i386.rpm
>>> modulefiles-1.0-3.i386.rpm     wwwblast-2.2-12.i386.rpm
>>> modulesenv-3.1.6-2.i386.rpm
>>>
>>> # rpm -qa | grep mpiblast
>>> #
>>>
>>> Am I missing anything?
>>>
>>> Thanks a lot.
>>>
>>> Chuming Chen
>>>
>>>
>>>
>
>

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