SUSE Linux notes: Difference between revisions

From genomewiki
Jump to navigationJump to search
(environment variables added)
(sections created + links)
Line 1: Line 1:
= Prerequisites =
* sources to download
** [http://www.gnu.org/software/ncurses/ncurses.html ncurses]
* environment variables
* environment variables
  export KENTHOME=$HOME/kent
  export KENTHOME=$HOME/kent
Line 27: Line 31:
  export HGCGI=$CGI_BIN
  export HGCGI=$CGI_BIN


= see also =
* [Build Environment Variables]
* [http://www.opensuse.org/ openSUSE]
* [http://www.opensuse.org/ openSUSE]

Revision as of 19:38, 15 May 2012

Prerequisites

  • environment variables
export KENTHOME=$HOME/kent
export USE_BAM=0
export SAMDIR=/genome/src/samtools/samtools-0.1.18
export SAMINC=${SAMDIR}
export SAMLIB=${SAMDIR}/libbam.a
export USE_TABIX=1
export TABIXDIR=/genome/src/tabix/tabix-0.2.5
export TABIXINC=${TABIXDIR}
export TABIXLIB=${TABIXDIR}/libtabix.a
export KNsETFILE_HOOKS=1
export MACHTYPE=`uname -m`
export MYSQLINC=/usr/include/mysql
export MYSQLLIBS="-L/usr/lib64/mysql -lmysqlclient -lz -lcrypt -lnsl -lm -L/usr/lib -L/usr/lib64 -lssl -lcrypto"
export MYSQLDATA="/var/lib/mysql"
export DOCUMENTROOT=/var/www/html-$USER
export WEBROOT=$DOCUMENTROOT
export CGI_BIN=/var/www/cgi-bin
export KENTBIN="$KENTHOME/bin"
export BINDIR="${KENTBIN}/$MACHTYPE"
export SCRIPTS="${KENTBIN}/scripts"
export TRASHDIR="/var/www/trash"
export ENCODE_PIPELINE_BIN="${BINDIR}"
export AUTH_MACHINE="genome"
export AUTH_USER=$USER
export GLOBAL_CONFIG_FILE=${CGI_BIN}/hg.conf
export HGCGI=$CGI_BIN

see also