<HTML><BODY style="word-wrap: break-word; -khtml-nbsp-mode: space; -khtml-line-break: after-white-space; ">Luke-<DIV><BR class="khtml-block-placeholder"></DIV><DIV>Was gridengine actually installed or were you using PBS?</DIV><DIV><BR class="khtml-block-placeholder"></DIV><DIV>Glen<BR><DIV><BR><DIV>Begin forwarded message:</DIV><BR class="Apple-interchange-newline"><BLOCKQUOTE type="cite"><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><FONT face="Helvetica" size="3" color="#000000" style="font: 12.0px Helvetica; color: #000000"><B>From: </B></FONT><FONT face="Helvetica" size="3" style="font: 12.0px Helvetica">Jingyuan Luke <<A href="mailto:jyluke@mimos.my">jyluke@mimos.my</A>></FONT></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><FONT face="Helvetica" size="3" color="#000000" style="font: 12.0px Helvetica; color: #000000"><B>Date: </B></FONT><FONT face="Helvetica" size="3" style="font: 12.0px Helvetica">January 3, 2006 4:25:36 PM PST</FONT></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><FONT face="Helvetica" size="3" color="#000000" style="font: 12.0px Helvetica; color: #000000"><B>To: </B></FONT><FONT face="Helvetica" size="3" style="font: 12.0px Helvetica">Glen Otero <<A href="mailto:glen@callident.com">glen@callident.com</A>></FONT></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><FONT face="Helvetica" size="3" color="#000000" style="font: 12.0px Helvetica; color: #000000"><B>Subject: </B></FONT><FONT face="Helvetica" size="3" style="font: 12.0px Helvetica"><B>Re: [Rocks-Discuss]biobrew roll</B></FONT></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV> <BR class="Apple-interchange-newline"><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Hi,</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">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.</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Luke</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Glen Otero wrote:</DIV> <BR><BLOCKQUOTE type="cite"><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Very weird. No one else has reported this. What is listed under /opt/ BioBrew?</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">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</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Glen</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">On Jan 3, 2006, at 1:21 PM, Chuming Chen wrote:</DIV> <BR><BLOCKQUOTE type="cite"><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Hi,</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">I installed biobrew roll when I installed my frontend node. But I<SPAN class="Apple-converted-space"> </SPAN>couldn't find any package of biobrew get installed (i.e. blast).</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "># ls /export/home/install/ftp.rocksclusters.org/pub/rocks/rocks-4.1/ rocks-dist/rolls/biobrew/4.1/i386/RedHat/RPMS</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">biopython-1.40b-1.i386.rpm <SPAN class="Apple-converted-space"> </SPAN>mpiblast-1.4.0-1.i386.rpm</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">byacc-1.9-29.i386.rpm<SPAN class="Apple-converted-space"> </SPAN>mrbayes-3.1-1.i386.rpm</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">clustalw-1.8.3-1.i386.rpm<SPAN class="Apple-converted-space"> </SPAN>NCBI-2.2.12-1static.i386.rpm</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">clustalw-mpi-0.13-1.i386.rpm <SPAN class="Apple-converted-space"> </SPAN>Numeric-24.0b2-1.i386.rpm</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">EMBOSS-3.0.0-1.i386.rpm<SPAN class="Apple-converted-space"> </SPAN>phylip-3.65-1.i386.rpm</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">EMBOSS-devel-3.0.0-1.i386.rpm<SPAN class="Apple-converted-space"> </SPAN>primer3-1.0.0-1.i386.rpm</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">EMBOSS-libs-3.0.0-1.i386.rpm <SPAN class="Apple-converted-space"> </SPAN>probcons-1.10-1.i386.rpm</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Fasta-3.4-1.i386.rpm <SPAN class="Apple-converted-space"> </SPAN>pvm-3.4.4-21.i386.rpm</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">fftw-2.1.5-1.i386.rpm<SPAN class="Apple-converted-space"> </SPAN>pvm-gui-3.4.4-21.i386.rpm</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">flex-2.5.4a-34.i386.rpm<SPAN class="Apple-converted-space"> </SPAN>reportlab-1.20-1.i386.rpm</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">gromacs-3.2.1-1.i386.rpm <SPAN class="Apple-converted-space"> </SPAN>sgeblast-0.2-1.i386.rpm</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">hmmer-2.3.2-4.i386.rpm <SPAN class="Apple-converted-space"> </SPAN>t-coffee-2.66-1.i386.rpm</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">modeltest-3.7-1.i386.rpm <SPAN class="Apple-converted-space"> </SPAN>wise-2.2.0-1.i386.rpm</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">modulefiles-1.0-3.i386.rpm <SPAN class="Apple-converted-space"> </SPAN>wwwblast-2.2-12.i386.rpm</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">modulesenv-3.1.6-2.i386.rpm</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "># rpm -qa | grep mpiblast</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">#</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Am I missing anything?</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Thanks a lot.</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Chuming Chen</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV> <BR></BLOCKQUOTE></BLOCKQUOTE><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; min-height: 14px; "><BR></DIV> <BR class="Apple-interchange-newline"></BLOCKQUOTE></DIV><BR></DIV></BODY></HTML>