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 >>> >>> >>> > > -------------- next part -------------- An HTML attachment was scrubbed... URL: http://bioinformatics.org/pipermail/biobrew-users/attachments/20060103/c8ab23db/attachment.html