Changeset 103 for drbl-biocluster

Timestamp:

Sep 10, 2009, 9:06:57 PM (15 years ago)

Author:

jazz

Message:

• update download URLs.
• add init.d script of openPBS/Torque

File:

• drbl-biocluster/BioCluster_Setup.sh (modified) (6 diffs)

drbl-biocluster/BioCluster_Setup.sh

@@ -37 +37 @@
 ########
 sudo apt-get -f install libc6-dev g77 gfortran liblapack-dev
-if [ ! -e gee_4.13-13.tar.gz ]; then
-  wget http://cran.r-project.org/src/contrib/gee_4.13-13.tar.gz
-  sudo R CMD INSTALL gee_4.13-13.tar.gz
-fi
-if [ ! -e nlme_3.1-92.tar.gz ]; then
-  wget http://cran.r-project.org/src/contrib/nlme_3.1-92.tar.gz
-  sudo R CMD INSTALL nlme_3.1-92.tar.gz
+if [ ! -e gee_4.13-14.tar.gz ]; then
+  wget http://cran.r-project.org/src/contrib/gee_4.13-14.tar.gz
+  sudo R CMD INSTALL gee_4.13-14.tar.gz
+fi
+if [ ! -e nlme_3.1-94.tar.gz ]; then
+  wget http://cran.r-project.org/src/contrib/nlme_3.1-94.tar.gz
+  sudo R CMD INSTALL nlme_3.1-94.tar.gz
 fi
 if [ ! -e lattice_0.17-25.tar.gz ]; then
@@ -91 +91 @@
 set server resources_default.nodes = 1
 set server scheduling = True
+set server acl_host_enable = True
+set server acl_hosts = *
 EOF
   sudo /opt/torque/bin/qmgr < torque_conf
@@ -103 +105 @@
   sudo /opt/torque/sbin/pbs_mom
   sudo /opt/torque/bin/pbsnodes -a
+  sudo cp contrib/init.d/debian.pbs_mom /etc/init.d/pbs_mom
+  sudo cp contrib/init.d/debian.pbs_sched /etc/init.d/pbs_sched
+  sudo cp contrib/init.d/debian.pbs_server /etc/init.d/pbs_server
   cd ..
 fi
@@ -122 +127 @@
   echo "Installing Ganglia ...."
   sudo apt-get install gmetad ganglia-monitor
-  sudo apt-get install rrdtool librrds-perl librrd-dev apache2 libapache2-mod-php5 php5-gd apache2-mpm-prefork apache2-utils apache2.2-common libapr1 libaprutil1 libmysqlclient15off libpq5 mysql-common openssl-blacklist ssl-cert
+  sudo apt-get install rrdtool librrds-perl librrd2-dev apache2 libapache2-mod-php5 php5-gd apache2-mpm-prefork apache2-utils apache2.2-common libapr1 libaprutil1 libmysqlclient15off libpq5 mysql-common openssl-blacklist ssl-cert
   echo "deb http://free.nchc.org.tw/debian testing main" > testing.list
   sudo mv testing.list /etc/apt/sources.list.d/
@@ -174 +179 @@
 # 安裝 wwwBLAST
 ########
-if [ ! -e wwwblast-2.2.20-ia32-linux.tar.gz ]; then
-  wget ftp://ftp.ncbi.nlm.nih.gov/blast/executables/LATEST/wwwblast-2.2.20-ia32-linux.tar.gz
-  tar zxvf wwwblast-2.2.20-ia32-linux.tar.gz
+if [ ! -e wwwblast-2.2.21-ia32-linux.tar.gz ]; then
+  wget ftp://ftp.ncbi.nlm.nih.gov/blast/executables/LATEST/wwwblast-2.2.21-ia32-linux.tar.gz
+  tar zxvf wwwblast-2.2.21-ia32-linux.tar.gz
 fi
 #####################################################################
@@ -213 +218 @@
 case "$1" in
   clean)
-    sudo rm -rf add_path ape_2.3-1.tar.gz biocLite.R BioConductor.R blast gee_4.13-13.tar.gz GPG-KEY-DRBL lattice_0.17-25.tar.gz mito.nt.gz mpiblast-1.5.0-pio mpiBLAST-1.5.0-pio.tgz mpich2-1.0.8p1 mpich2-1.0.8p1.tar.gz nlme_3.1-92.tar.gz Rmpi_0.5-7.tar.gz torque-2.3.6 torque-2.3.6.tar.gz wwwblast-2.2.20-ia32-linux.tar.gz
+    sudo rm -rf add_path ape_2.3-2.tar.gz biocLite.R BioConductor.R blast gee_4.13-14.tar.gz GPG-KEY-DRBL lattice_0.17-25.tar.gz mito.nt.gz mpiblast-1.5.0-pio mpiBLAST-1.5.0-pio.tgz mpich2-1.0.8p1 mpich2-1.0.8p1.tar.gz nlme_3.1-94.tar.gz Rmpi_0.5-7.tar.gz torque-2.3.6 torque-2.3.6.tar.gz wwwblast-2.2.21-ia32-linux.tar.gz
     exit 0;
     ;;