Index: /issm/trunk-jpl/cron/configs/linux64_borstad_daily
===================================================================
--- /issm/trunk-jpl/cron/configs/linux64_borstad_daily	(revision 11667)
+++ /issm/trunk-jpl/cron/configs/linux64_borstad_daily	(revision 11667)
@@ -0,0 +1,100 @@
+#
+########### Configuration file for Mathieu Morlighem's nightly run on Linux ############
+
+#-------------------------------#
+# 1: ISSM general configuration #
+#-------------------------------#
+
+#ISSM main directory (full paths)
+ISSM_DIR="/u/astrid-r1b/cborstad/issmuci"
+ISSM_TIER="/u/astrid-r1b/cborstad/issmuci/trunk-jpl/cron/trunk-jpl"
+#ISSM_TIER="/u/astrid-r1b/seroussi/svn/issm/trunk/cron/issm2.2"
+
+#ISSM Architecture
+ISSM_ARCH="linux-gnu-amd64"
+
+#Machine configuration
+MACHINE="astrid"
+
+#COMPILATION CONFIGURATION FILE
+COMPILE_CONFIG_FILE="config-linux64-astrid.sh"
+
+#MATLAB path
+MATLAB_PATH="/usr/local/pkgs/matlab-7.6/"
+
+#----------------------#
+# 2: ISSM Installation #
+#----------------------#
+
+#ISSM_INSTALLATION can have 3 values:
+# - "checkout" the existing version of the code will be erased and
+#              the latest version will be checked out
+# - "update"   the directory won't be erased but ISSM will be updated
+#              ->skip to section 3
+# - "none"     leave ISSM as is in its directory
+#              ->skip to section 3
+ISSM_INSTALLATION="update"
+
+#SVN repository
+REPOSITORY="https://issm.ess.uci.edu/svn/issm/issm/trunk-jpl"
+#REPOSITORY="http://s383-rhat/issm/svn/issm/branches/issm2.2"
+
+#execution path used for parallel runs
+EXECUTION_PATH="/u/astrid-r1b/cborstad/ExecutionNightlyRun"
+
+#-----------------------------------#
+# 3: External packages installation #
+#-----------------------------------#
+
+#ISSM_EXTERNALPACKAGES can have 3 values:
+# - "install" install all external packages listed below
+# - "copy"    copy existing directories (EXTERNALPACKAGESDIR)
+# - "none"    leave external packages as is
+#             ->skip to section 4
+ISSM_EXTERNALPACKAGES="none"
+EXTERNALPACKAGESDIR="/u/astrid-r1b/cborstad/issmuci/trunk-jpl/externalpackages"
+
+#List of external pakages to be installed
+EXTERNALPACKAGES="autoconf automake matlab mpich2 petsc metis triangle dakota chaco"
+
+#Corresponding list of installation files to use
+EXTERNALPACKAGES_CONFIGS=" install.sh install.sh install.sh install-1.0.2-linux64.sh install-3.2-linux64.sh install-4.0-linux64.sh install-linux64.sh install-linux64-astrid.sh install.sh"
+
+#---------------------#
+# 4: ISSM Compilation #
+#---------------------#
+
+#ISSM_COMPILATION can have 2 values:
+# - "yes" compile ISSM
+# - "no"  do not compile ISSM
+ISSM_COMPILATION="yes"
+
+#----------------------#
+# 5: Mail notification #
+#----------------------#
+
+#Mail delivery. If SKIPMAIL="no", the html nightly run report will be
+#sent to the adresses present in $ISSM_TIER/cron/mailinglist.
+SKIPMAIL="no"
+
+#Sender email address
+EMAIL_ADRESS="cborstad@jpl.nasa.gov"
+
+#------------------------#
+# 6: Nightly run options #
+#------------------------#
+
+#number of cpus used in ISSM installation and compilation (one is usually
+#safer as some packages are very sensitive to parallel compilation)
+NUMCPUS_INSTALL=8
+
+#number of cpus used in the nightly runs.
+NUMCPUS_RUN=7
+
+#Nightly run options. The matlab routine nightlyrun.m will be called
+#as follows: nightlyrun($NROPTIONS). The options must be understandable
+#by Matlab and nightlyrun.m
+#ex: "'id',[101 102 103]"
+
+NROPTIONS=""
+
Index: /issm/trunk-jpl/cron/configs/linux64_borstad_nightly
===================================================================
--- /issm/trunk-jpl/cron/configs/linux64_borstad_nightly	(revision 11667)
+++ /issm/trunk-jpl/cron/configs/linux64_borstad_nightly	(revision 11667)
@@ -0,0 +1,100 @@
+#
+########### Configuration file for Mathieu Morlighem's nightly run on Linux ############
+
+#-------------------------------#
+# 1: ISSM general configuration #
+#-------------------------------#
+
+#ISSM main directory (full path)
+ISSM_DIR="/u/astrid-r1b/cborstad/issmuci"
+ISSM_TIER="/u/astrid-r1b/cborstad/issmuci/trunk-jpl/cron/trunk-jpl"
+#ISSM_TIER="/u/astrid-r1b/seroussi/svn/issm/trunk/cron/issm2.2"
+
+#ISSM Architecture
+ISSM_ARCH="linux-gnu-amd64"
+
+#Machine configuration
+MACHINE="astrid"
+
+#COMPILATION CONFIGURATION FILE
+COMPILE_CONFIG_FILE="config-linux64-astrid.sh"
+
+#MATLAB path
+MATLAB_PATH="/usr/local/pkgs/matlab-7.6/"
+
+#----------------------#
+# 2: ISSM Installation #
+#----------------------#
+
+#ISSM_INSTALLATION can have 3 values:
+# - "checkout" the existing version of the code will be erased and
+#              the latest version will be checked out
+# - "update"   the directory won't be erased but ISSM will be updated
+#              ->skip to section 3
+# - "none"     leave ISSM as is in its directory
+#              ->skip to section 3
+ISSM_INSTALLATION="checkout"
+
+#SVN repository
+REPOSITORY="https://issm.ess.uci.edu/svn/issm/issm/trunk-jpl"
+#REPOSITORY="http://s383-rhat/issm/svn/issm/branches/issm2.2"
+
+#execution path used for parallel runs
+EXECUTION_PATH="/u/astrid-r1b/cborstad/ExecutionNightlyRun"
+
+#-----------------------------------#
+# 3: External packages installation #
+#-----------------------------------#
+
+#ISSM_EXTERNALPACKAGES can have 3 values:
+# - "install" install all external packages listed below
+# - "copy"    copy existing directories (EXTERNALPACKAGESDIR)
+# - "none"    leave external packages as is
+#             ->skip to section 4
+ISSM_EXTERNALPACKAGES="install"
+EXTERNALPACKAGESDIR="/u/astrid-r1b/cborstad/issmuci/trunk-jpl/externalpackages"
+
+#List of external pakages to be installed
+EXTERNALPACKAGES="autoconf automake matlab mpich2 petsc metis triangle dakota chaco"
+
+#Corresponding list of installation files to use
+EXTERNALPACKAGES_CONFIGS=" install.sh install.sh install.sh install-1.0.2-linux64.sh install-3.2-linux64.sh install-4.0-linux64.sh install-linux64.sh install-linux64-astrid.sh install.sh"
+
+#---------------------#
+# 4: ISSM Compilation #
+#---------------------#
+
+#ISSM_COMPILATION can have 2 values:
+# - "yes" compile ISSM
+# - "no"  do not compile ISSM
+ISSM_COMPILATION="yes"
+
+#----------------------#
+# 5: Mail notification #
+#----------------------#
+
+#Mail delivery. If SKIPMAIL="no", the html nightly run report will be
+#sent to the adresses present in $ISSM_TIER/cron/mailinglist.
+SKIPMAIL="no"
+
+#Sender email address
+EMAIL_ADRESS="cborstad@jpl.nasa.gov"
+
+#------------------------#
+# 6: Nightly run options #
+#------------------------#
+
+#number of cpus used in ISSM installation and compilation (one is usually
+#safer as some packages are very sensitive to parallel compilation)
+NUMCPUS_INSTALL=1
+
+#number of cpus used in the nightly runs.
+NUMCPUS_RUN=7
+
+#Nightly run options. The matlab routine nightlyrun.m will be called
+#as follows: nightlyrun($NROPTIONS). The options must be understandable
+#by Matlab and nightlyrun.m
+#ex: "'id',[101 102 103]"
+
+NROPTIONS=""
+
Index: /issm/trunk-jpl/cron/configs/linux64_borstad_ucitrunk
===================================================================
--- /issm/trunk-jpl/cron/configs/linux64_borstad_ucitrunk	(revision 11667)
+++ /issm/trunk-jpl/cron/configs/linux64_borstad_ucitrunk	(revision 11667)
@@ -0,0 +1,99 @@
+#
+########### Configuration file for Mathieu Morlighem's nightly run on Linux ############
+
+#-------------------------------#
+# 1: ISSM general configuration #
+#-------------------------------#
+
+#ISSM main directory (full path)
+ISSM_DIR="/u/astrid-r1b/cborstad/issmuci"
+ISSM_TIER="/u/astrid-r1b/cborstad/issmuci/trunk-jpl/cron/trunk"
+#ISSM_TIER="/u/astrid-r1b/seroussi/svn/issm/trunk/cron/issm2.2"
+
+#ISSM Architecture
+ISSM_ARCH="linux-gnu-amd64"
+
+#Machine configuration
+MACHINE="astrid"
+
+#COMPILATION CONFIGURATION FILE
+COMPILE_CONFIG_FILE="config-linux64-astrid.sh"
+
+#MATLAB path
+MATLAB_PATH="/usr/local/pkgs/matlab-7.6/"
+
+#----------------------#
+# 2: ISSM Installation #
+#----------------------#
+
+#ISSM_INSTALLATION can have 3 values:
+# - "checkout" the existing version of the code will be erased and
+#              the latest version will be checked out
+# - "update"   the directory won't be erased but ISSM will be updated
+#              ->skip to section 3
+# - "none"     leave ISSM as is in its directory
+#              ->skip to section 3
+ISSM_INSTALLATION="checkout"
+
+#SVN repository
+REPOSITORY="https://issm.ess.uci.edu/svn/issm/issm/trunk"
+#REPOSITORY="http://s383-rhat/issm/svn/issm/branches/issm2.2"
+
+#execution path used for parallel runs
+EXECUTION_PATH="/u/astrid-r1b/cborstad/ExecutionNightlyRun"
+
+#-----------------------------------#
+# 3: External packages installation #
+#-----------------------------------#
+
+#ISSM_EXTERNALPACKAGES can have 3 values:
+# - "install" install all external packages listed below
+# - "copy"    copy existing directories (EXTERNALPACKAGESDIR)
+# - "none"    leave external packages as is
+#             ->skip to section 4
+ISSM_EXTERNALPACKAGES="install"
+EXTERNALPACKAGESDIR="/u/astrid-r1b/cborstad/issmuci/trunk-jpl/externalpackages"
+
+#List of external pakages to be installed
+EXTERNALPACKAGES="autoconf automake matlab mpich2 petsc metis triangle dakota chaco"
+
+#Corresponding list of installation files to use
+EXTERNALPACKAGES_CONFIGS=" install.sh install.sh install.sh install-1.0.2-linux64.sh install-3.2-linux64.sh install-4.0-linux64.sh install-linux64.sh install-linux64-astrid.sh install.sh"
+
+#---------------------#
+# 4: ISSM Compilation #
+#---------------------#
+
+#ISSM_COMPILATION can have 2 values:
+# - "yes" compile ISSM
+# - "no"  do not compile ISSM
+ISSM_COMPILATION="yes"
+
+#----------------------#
+# 5: Mail notification #
+#----------------------#
+
+#Mail delivery. If SKIPMAIL="no", the html nightly run report will be
+#sent to the adresses present in $ISSM_TIER/cron/mailinglist.
+SKIPMAIL="no"
+
+#Sender email address
+EMAIL_ADRESS="cborstad@jpl.nasa.gov"
+
+#------------------------#
+# 6: Nightly run options #
+#------------------------#
+
+#number of cpus used in ISSM installation and compilation (one is usually
+#safer as some packages are very sensitive to parallel compilation)
+NUMCPUS_INSTALL=1
+
+#number of cpus used in the nightly runs.
+NUMCPUS_RUN=7
+
+#Nightly run options. The matlab routine nightlyrun.m will be called
+#as follows: nightlyrun($NROPTIONS). The options must be understandable
+#by Matlab and nightlyrun.m
+#ex: "'id',[101 102 103]"
+
+NROPTIONS=""
Index: /issm/trunk-jpl/cron/configs/linux64_borstad_validation
===================================================================
--- /issm/trunk-jpl/cron/configs/linux64_borstad_validation	(revision 11667)
+++ /issm/trunk-jpl/cron/configs/linux64_borstad_validation	(revision 11667)
@@ -0,0 +1,99 @@
+########### Configuration file for Mathieu Morlighem's nightly run on Linux ############
+
+#-------------------------------#
+# 1: ISSM general configuration #
+#-------------------------------#
+
+#ISSM main directory (full path)
+ISSM_DIR="/u/astrid-r1b/cborstad/issmuci"
+ISSM_TIER="/u/astrid-r1b/cborstad/issmuci/trunk-jpl/cron/trunk-jpl"
+#ISSM_TIER="/u/astrid-r1b/seroussi/svn/issm/trunk/cron/issm2.2"
+
+#ISSM Architecture
+ISSM_ARCH="linux-gnu-amd64"
+
+#Machine configuration
+MACHINE="astrid"
+
+#COMPILATION CONFIGURATION FILE
+COMPILE_CONFIG_FILE="config-linux64-astrid.sh"
+
+#MATLAB path
+MATLAB_PATH="/usr/local/pkgs/matlab-7.6/"
+
+#----------------------#
+# 2: ISSM Installation #
+#----------------------#
+
+#ISSM_INSTALLATION can have 3 values:
+# - "checkout" the existing version of the code will be erased and
+#              the latest version will be checked out
+# - "update"   the directory won't be erased but ISSM will be updated
+#              ->skip to section 3
+# - "none"     leave ISSM as is in its directory
+#              ->skip to section 3
+ISSM_INSTALLATION="checkout"
+
+#SVN repository
+REPOSITORY="https://issm.ess.uci.edu/svn/issm/issm/trunk-jpl"
+#REPOSITORY="http://s383-rhat/issm/svn/issm/branches/issm2.2"
+
+#execution path used for parallel runs
+EXECUTION_PATH="/u/astrid-r1b/cborstad/ExecutionNightlyRun"
+
+#-----------------------------------#
+# 3: External packages installation #
+#-----------------------------------#
+
+#ISSM_EXTERNALPACKAGES can have 3 values:
+# - "install" install all external packages listed below
+# - "copy"    copy existing directories (EXTERNALPACKAGESDIR)
+# - "none"    leave external packages as is
+#             ->skip to section 4
+ISSM_EXTERNALPACKAGES="install"
+EXTERNALPACKAGESDIR="/u/astrid-r1b/cborstad/issmuci/trunk-jpl/externalpackages"
+
+#List of external pakages to be installed
+EXTERNALPACKAGES="autoconf automake matlab mpich2 petsc metis triangle dakota chaco yams"
+
+#Corresponding list of installation files to use
+EXTERNALPACKAGES_CONFIGS=" install.sh install.sh install.sh install-1.0.2-linux64.sh install-3.2-linux64.sh install-4.0-linux64.sh install-linux64.sh install-linux64-astrid.sh install.sh install.sh"
+
+#---------------------#
+# 4: ISSM Compilation #
+#---------------------#
+
+#ISSM_COMPILATION can have 2 values:
+# - "yes" compile ISSM
+# - "no"  do not compile ISSM
+ISSM_COMPILATION="yes"
+
+#----------------------#
+# 5: Mail notification #
+#----------------------#
+
+#Mail delivery. If SKIPMAIL="no", the html nightly run report will be
+#sent to the adresses present in $ISSM_TIER/cron/mailinglist.
+SKIPMAIL="no"
+
+#Sender email address
+EMAIL_ADRESS="cborstad@jpl.nasa.gov"
+
+#------------------------#
+# 6: Nightly run options #
+#------------------------#
+
+#number of cpus used in ISSM installation and compilation (one is usually
+#safer as some packages are very sensitive to parallel compilation)
+NUMCPUS_INSTALL=1
+
+#number of cpus used in the nightly runs.
+NUMCPUS_RUN=7
+
+#Nightly run options. The matlab routine nightlyrun.m will be called
+#as follows: nightlyrun($NROPTIONS). The options must be understandable
+#by Matlab and nightlyrun.m
+#ex: "'id',[101 102 103]"
+
+NROPTIONS="'benchmark','all'"
+
Index: /issm/trunk-jpl/cron/configs/macosx64_borstad
===================================================================
--- /issm/trunk-jpl/cron/configs/macosx64_borstad	(revision 11667)
+++ /issm/trunk-jpl/cron/configs/macosx64_borstad	(revision 11667)
@@ -0,0 +1,98 @@
+#
+########### Configuration file for Mathieu Morlighem's nightly run on Linux ############
+
+#-------------------------------#
+# 1: ISSM general configuration #
+#-------------------------------#
+
+#ISSM main directory (full path)
+ISSM_DIR="/Users/cborstad/issmuci"
+ISSM_TIER="/Users/cborstad/issmuci/trunk-jpl/cron/trunk-jpl"
+
+#ISSM Architecture
+ISSM_ARCH="macosx-gnu"
+
+#Machine configuration
+MACHINE="macosx-gil"
+
+#COMPILATION CONFIGURATION FILE
+COMPILE_CONFIG_FILE="config-macosx64-chris.sh"
+
+#MATLAB path
+MATLAB_PATH="/Applications/MATLAB_R2011b.app/"
+
+#----------------------#
+# 2: ISSM Installation #
+#----------------------#
+
+#ISSM_INSTALLATION can have 3 values:
+# - "checkout" the existing version of the code will be erased and
+#              the latest version will be checked out
+# - "update"   the directory won't be erased but ISSM will be updated
+#              ->skip to section 3
+# - "none"     leave ISSM as is in its directory
+#              ->skip to section 3
+ISSM_INSTALLATION="checkout"
+
+#SVN repository
+REPOSITORY="https://issm.ess.uci.edu/svn/issm/issm/trunk-jpl"
+
+#execution path used for parallel runs
+EXECUTION_PATH="/Users/cborstad/ExecutionNightlyRun"
+
+#-----------------------------------#
+# 3: External packages installation #
+#-----------------------------------#
+
+#ISSM_EXTERNALPACKAGES can have 3 values:
+# - "install" install all external packages listed below
+# - "copy"    copy existing directories (EXTERNALPACKAGESDIR)
+# - "none"    leave external packages as is
+#             ->skip to section 4
+ISSM_EXTERNALPACKAGES="install"
+EXTERNALPACKAGESDIR="/Users/cborstad/issmuci/trunk-jpl/externalpackages"
+
+#List of external pakages to be installed
+EXTERNALPACKAGES="autoconf automake matlab mpich2 petsc metis triangle dakota chaco"
+
+#Corresponding list of installation files to use
+EXTERNALPACKAGES_CONFIGS=" install.sh install.sh install.sh install-1.4-macosx64.sh install-3.2-macosx64.sh install-4.0-macosx64.sh install-macosx64.sh install-macosx64.sh install.sh"
+
+#---------------------#
+# 4: ISSM Compilation #
+#---------------------#
+
+#ISSM_COMPILATION can have 2 values:
+# - "yes" compile ISSM
+# - "no"  do not compile ISSM
+ISSM_COMPILATION="yes"
+
+#----------------------#
+# 5: Mail notification #
+#----------------------#
+
+#Mail delivery. If SKIPMAIL="no", the html nightly run report will be
+#sent to the adresses present in $ISSM_TIER/cron/mailinglist.
+SKIPMAIL="no"
+
+#Sender email address
+EMAIL_ADRESS="cborstad@jpl.nasa.gov"
+
+#------------------------#
+# 6: Nightly run options #
+#------------------------#
+
+#number of cpus used in ISSM installation and compilation (one is usually
+#safer as some packages are very sensitive to parallel compilation)
+NUMCPUS_INSTALL=1
+
+#number of cpus used in the nightly runs.
+NUMCPUS_RUN=4
+
+#Nightly run options. The matlab routine nightlyrun.m will be called
+#as follows: nightlyrun($NROPTIONS). The options must be understandable
+#by Matlab and nightlyrun.m
+#ex: "'id',[101 102 103]"
+
+NROPTIONS="'exclude',[137 425:434 527]"
+
Index: /issm/trunk-jpl/cron/configs/macosx64_borstad_daily
===================================================================
--- /issm/trunk-jpl/cron/configs/macosx64_borstad_daily	(revision 11667)
+++ /issm/trunk-jpl/cron/configs/macosx64_borstad_daily	(revision 11667)
@@ -0,0 +1,98 @@
+#
+########### Configuration file for Mathieu Morlighem's nightly run on Linux ############
+
+#-------------------------------#
+# 1: ISSM general configuration #
+#-------------------------------#
+
+#ISSM main directory (full path)
+ISSM_DIR="/Users/cborstad/issmuci"
+ISSM_TIER="/Users/cborstad/issmuci/trunk-jpl/cron/trunk-jpl"
+
+#ISSM Architecture
+ISSM_ARCH="macosx-gnu"
+
+#Machine configuration
+MACHINE="macosx-gil"
+
+#COMPILATION CONFIGURATION FILE
+COMPILE_CONFIG_FILE="config-macosx64-nicole.sh"
+
+#MATLAB path
+MATLAB_PATH="/Applications/MATLAB_R2011b.app/"
+
+#----------------------#
+# 2: ISSM Installation #
+#----------------------#
+
+#ISSM_INSTALLATION can have 3 values:
+# - "checkout" the existing version of the code will be erased and
+#              the latest version will be checked out
+# - "update"   the directory won't be erased but ISSM will be updated
+#              ->skip to section 3
+# - "none"     leave ISSM as is in its directory
+#              ->skip to section 3
+ISSM_INSTALLATION="update"
+
+#SVN repository
+REPOSITORY="https://issm.ess.uci.edu/svn/issm/issm/trunk-jpl"
+
+#execution path used for parallel runs
+EXECUTION_PATH="/Users/cborstad/ExecutionNightlyRun"
+
+#-----------------------------------#
+# 3: External packages installation #
+#-----------------------------------#
+
+#ISSM_EXTERNALPACKAGES can have 3 values:
+# - "install" install all external packages listed below
+# - "copy"    copy existing directories (EXTERNALPACKAGESDIR)
+# - "none"    leave external packages as is
+#             ->skip to section 4
+ISSM_EXTERNALPACKAGES="none"
+EXTERNALPACKAGESDIR="/Users/cborstad/issmuci/trunk-jpl/externalpackages"
+
+#List of external pakages to be installed
+EXTERNALPACKAGES="autoconf automake matlab mpich2 petsc metis triangle dakota chaco"
+
+#Corresponding list of installation files to use
+EXTERNALPACKAGES_CONFIGS=" install.sh install.sh install.sh install-1.4-macosx64.sh install-3.2-macosx64.sh install-4.0-macosx64.sh install-macosx64.sh install-macosx64.sh install.sh"
+
+#---------------------#
+# 4: ISSM Compilation #
+#---------------------#
+
+#ISSM_COMPILATION can have 2 values:
+# - "yes" compile ISSM
+# - "no"  do not compile ISSM
+ISSM_COMPILATION="yes"
+
+#----------------------#
+# 5: Mail notification #
+#----------------------#
+
+#Mail delivery. If SKIPMAIL="no", the html nightly run report will be
+#sent to the adresses present in $ISSM_TIER/cron/mailinglist.
+SKIPMAIL="no"
+
+#Sender email address
+EMAIL_ADRESS="cborstad@jpl.nasa.gov"
+
+#------------------------#
+# 6: Nightly run options #
+#------------------------#
+
+#number of cpus used in ISSM installation and compilation (one is usually
+#safer as some packages are very sensitive to parallel compilation)
+NUMCPUS_INSTALL=4
+
+#number of cpus used in the nightly runs.
+NUMCPUS_RUN=4
+
+#Nightly run options. The matlab routine nightlyrun.m will be called
+#as follows: nightlyrun($NROPTIONS). The options must be understandable
+#by Matlab and nightlyrun.m
+#ex: "'id',[101 102 103]"
+
+NROPTIONS="'exclude',[137 425:434 527]"
+