-################################################################################\r
-# THIS IS JABAWS EXECUTABLE CONFIGURATION FILE # \r
-################################################################################\r
+###########################################################################################\r
+# #\r
+# THIS IS JABAWS EXECUTABLE CONFIGURATION FILE #\r
+# #\r
+###########################################################################################\r
\r
-## Properties supported by all executables: \r
+### Properties supported by executables.\r
+### <execname> is one of the available applications: \r
+### [clustalw, mafft, muscle, propcons, tcoffee, iupred, jronn, globplot, disembl, aacon, jpred]\r
\r
-## Path to the native executable on windows, \r
-## the path must be either absolute, or relative to JABAWS web application \r
-# local.<execname>.bin.windows=binaries/windows/clustalw2.exe\r
+### Path to the native executable on Windows must be either absolute, \r
+### or relative to JABAWS web application\r
+# local.<execname>.bin.windows = binaries/windows/clustalw2.exe\r
\r
-## Path to the native executable not on windows (e.g. Linux, Mac)\r
-## the path must be either absolute, or relative to JABAWS web application\r
-# local.<execname>.bin=binaries/src/clustalw/src/clustalw2\r
+### Path to the native executable not on Windows (e.g. Linux, Mac)\r
+### must be either absolute, or relative to JABAWS web application\r
+# local.<execname>.bin = binaries/src/clustalw/src/clustalw2\r
\r
-## Path to the native executable on the cluster (must be accessible from all \r
-## cluster nodes which will run JABAWS jobs). The path must be absolute. \r
-# cluster.<execname>.bin=/homes/pvtroshin/workspace/jaba2/binaries/src/clustalw/src/clustalw2\r
+### Path to the native executable on the cluster (must be accessible from all \r
+### cluster nodes which will run JABAWS jobs). The path must be absolute. \r
+# cluster.<execname>.bin = /home/jabaws/binaries/src/clustalw/src/clustalw2\r
\r
-## At least one of the path to the native executable should be defined!\r
- \r
-## Application supported presets, absolute or relative to \r
-## the JABAWS web application path to the file. Optional.\r
-# <execname>.presets.file=conf/settings/ClustalPresets.xml\r
+### At least one of the path to the native executable should be defined.\r
+\r
+### If an application supports presets, the preset file can have either \r
+### absolute or relative to the JABAWS web application path to the file. \r
+### The file is optional.\r
+# <execname>.presets.file = conf/settings/ClustalPresets.xml\r
\r
-## Application supported parameters, absolute or relative to \r
-## the JABAWS web application path to the file. Optional. \r
-# <execname>.parameters.file=conf/settings/ClustalParameters.xml\r
+### If an application supports parameters, the parameter file can have either \r
+### absolute or relative to the JABAWS web application path to the file. \r
+### The file is optional.\r
+# <execname>.parameters.file = conf/settings/ClustalParameters.xml\r
\r
## Application limits, absolute or relative to \r
## the JABAWS web application path to the file. Optional.\r
## Please note that all the examples of this parameter below are correct for \r
## Sun Grid Engine or Open Grid Engine (untested) only! If you use a different \r
## batch manager you would need to specify different flags. \r
-# <execname>.cluster.settings=-l h_cpu=24:00:00 -l h_vmem=6000M -l ram=6000M\r
+# <execname>.cluster.settings = -l h_cpu=24:00:00 -l h_vmem=6000M -l ram=6000M\r
\r
## Environmental variables required by native executables. Optional. \r
## Format: VARIABLE_NAME1#VARIABLE_VALUE1;VARIABLE_NAME2#VARIABLE_VALUE2; \r
-#<execname>.bin.env=MAFFT_BINARIES#binaries/src/mafft/binaries;FASTA_4_MAFFT#binaries/src/fasta34/fasta34;\r
-\r
-# Where <execname> is one of [clustalw, mafft, muscle, propcons, tcoffee,\r
-# iupred, jronn, globplot, disembl, aacon]\r
-\r
-\r
-### Parameters specific to the JAVA Jar executables. ### \r
+# <execname>.bin.env = MAFFT_BINARIES#binaries/src/mafft/binaries;FASTA_4_MAFFT#binaries/src/fasta34/fasta34;\r
\r
## Parameter supported by the executable Jar files, such as jronn and aacon, \r
## point to the location of the jar file. Also, local.<execname>.bin, \r
## local.<execname>.bin.windows properties are optional for these, if not \r
## provided they will be replaced to the java executable path from JAVA_HOME \r
## environmental variable. \r
-#<execname>.jar.file=binaries/windows/jronn3.1.jar\r
-\r
- \r
-\r
-\r
-###### CLUSTAL CONFIGURATION ######\r
-local.clustalw.bin.windows=binaries/windows/clustalw2.exe\r
-local.clustalw.bin=binaries/src/clustalw/src/clustalw2\r
-#cluster.clustalw.bin=/homes/pvtroshin/workspace/jaba2/binaries/src/clustalw/src/clustalw2\r
-## This parameters specifies the directory where the matrices files are stored \r
-clustalw.-matrix.path=binaries/matrices\r
-clustalw.presets.file=conf/settings/ClustalPresets.xml\r
-clustalw.parameters.file=conf/settings/ClustalParameters.xml\r
-#clustalw.limits.file=conf/settings/ClustalLimits.xml\r
-#clustalw.cluster.settings=-l h_cpu=24:00:00 -l h_vmem=6000M -l ram=6000M\r
-\r
-\r
-###### CLUSTAL OMEGA CONFIGURATION ######\r
-local.clustalo.bin.windows=binaries/windows/clustalo/clustalo.exe\r
-local.clustalo.bin=binaries/src/clustalo/src/clustalo\r
-cluster.clustalo.bin=/homes/pvtroshin/workspace/jaba2/binaries/src/clustalo/src/clustalo\r
-## This parameters specifies the directory where the matrices files are stored \r
-#clustalo.presets.file=conf/settings/ClustaloPresets.xml\r
-clustalo.parameters.file=conf/settings/ClustaloParameters.xml\r
-clustalo.limits.file=conf/settings/ClustaloLimits.xml\r
-## ClustalO can be executed on multiple CPUs if run on the cluster. \r
-## This parameter specifies the number of CPUs to use\r
-clustalo.cluster.cpunum=4\r
-## This reserves a slot with CPUNUM on the cluster for the task\r
-clustalo.cluster.settings=-q 64bit-pri.q -pe smp 4 -l h_vmem=1700M -l ram=1700M -l h_cpu=24:00:00 \r
-\r
-\r
-###### MUSCLE CONFIGURATION ######\r
-local.muscle.bin.windows=binaries/windows/muscle.exe\r
-local.muscle.bin=binaries/src/muscle/muscle\r
-#cluster.muscle.bin=/homes/pvtroshin/workspace/jaba2/binaries/src/muscle/muscle\r
-## This parameters specifies the directory where the matrices files are stored\r
-muscle.-matrix.path=binaries/matrices\r
-muscle.presets.file=conf/settings/MusclePresets.xml\r
-muscle.parameters.file=conf/settings/MuscleParameters.xml\r
-#muscle.limits.file=conf/settings/MuscleLimits.xml\r
-#muscle.cluster.settings=-l h_cpu=24:00:00 -l h_vmem=6000M -l ram=6000M\r
-\r
-\r
-##### MAFFT CONFIGURATION ######\r
-local.mafft.bin=binaries/src/mafft/scripts/mafft\r
-#cluster.mafft.bin=/homes/pvtroshin/workspace/jaba2/binaries/src/mafft/scripts/mafft\r
+#<execname>.jar.file = binaries/windows/bj3.0.4p-jronn.jar\r
+\r
+\r
+\r
+\r
+###########################################################################################\r
+# CLUSTAL W CONFIGURATION #\r
+###########################################################################################\r
+local.clustalw.bin.windows = binaries/windows/clustalw2.exe\r
+local.clustalw.bin = binaries/src/clustalw/src/clustalw2\r
+#cluster.clustalw.bin =/home/jabaws/binaries/src/clustalw/src/clustalw2\r
+### This parameter specifies the directory where the matrices files are stored\r
+clustalw.-matrix.path = binaries/matrices\r
+clustalw.presets.file = conf/settings/ClustalPresets.xml\r
+clustalw.parameters.file = conf/settings/ClustalParameters.xml\r
+clustalw.limits.file = conf/settings/ClustalLimits.xml\r
+#clustalw.cluster.settings =-l h_cpu=24:00:00 -l ram=6000M\r
+\r
+\r
+###########################################################################################\r
+# CLUSTAL OMEGA CONFIGURATION #\r
+###########################################################################################\r
+local.clustalo.bin.windows = binaries/windows/clustalo/clustalo.exe\r
+local.clustalo.bin = binaries/src/clustalo/src/clustalo\r
+#cluster.clustalo.bin = /home/jabaws/binaries/src/clustalo/src/clustalo\r
+### This parameter specifies the directory where the matrices files are stored\r
+#clustalo.presets.file = conf/settings/ClustaloPresets.xml\r
+clustalo.parameters.file = conf/settings/ClustaloParameters.xml\r
+clustalo.limits.file = conf/settings/ClustaloLimits.xml\r
+### ClustalO can be run on multiple CPUs on the cluster. This parameter specifies CPU #NN\r
+clustalo.cluster.cpunum = 4\r
+### This reserves a slot with CPUNUM on the cluster for the task\r
+#clustalo.cluster.settings = -q 64bit-pri.q -pe smp 4 -l ram=1700M -l h_cpu=24:00:00\r
+\r
+\r
+###########################################################################################\r
+# MUSCLE CONFIGURATION #\r
+###########################################################################################\r
+local.muscle.bin.windows = binaries/windows/muscle.exe\r
+local.muscle.bin = binaries/src/muscle/muscle\r
+#cluster.muscle.bin = /home/jabaws/binaries/src/muscle/muscle\r
+### This parameter specifies the directory where the matrices files are stored\r
+muscle.-matrix.path = binaries/matrices\r
+muscle.presets.file = conf/settings/MusclePresets.xml\r
+muscle.parameters.file = conf/settings/MuscleParameters.xml\r
+muscle.limits.file = conf/settings/MuscleLimits.xml\r
+#muscle.cluster.settings = -l h_cpu=24:00:00 -l ram=6000M\r
+\r
+\r
+###########################################################################################\r
+# MAFFT CONFIGURATION #\r
+###########################################################################################\r
+local.mafft.bin = binaries/src/mafft/scripts/mafft\r
+#cluster.mafft.bin = /home/jabaws/binaries/src/mafft/scripts/mafft\r
# These paths will be converted to absolute if relative.\r
-mafft.bin.env=MAFFT_BINARIES#binaries/src/mafft/binaries;FASTA_4_MAFFT#binaries/src/fasta34/fasta34;\r
-## This parameters specifies the directory where the matrices files are stored\r
-mafft.--aamatrix.path=binaries/matrices\r
-mafft.presets.file=conf/settings/MafftPresets.xml\r
-mafft.parameters.file=conf/settings/MafftParameters.xml\r
-#mafft.limits.file=conf/settings/MafftLimits.xml\r
-#mafft.cluster.settings=-l h_cpu=24:00:00 -l h_vmem=6000M -l ram=6000M\r
-\r
-\r
-##### TCOFFEE CONFIGURATION ######\r
-local.tcoffee.bin=binaries/src/tcoffee/t_coffee_source/t_coffee\r
-#cluster.tcoffee.bin=/homes/pvtroshin/workspace/jaba2/binaries/src/tcoffee/t_coffee_source/t_coffee\r
+mafft.bin.env = MAFFT_BINARIES#binaries/src/mafft/binaries;FASTA_4_MAFFT#binaries/src/fasta34/fasta34;\r
+### This parameters specifies the directory where the matrices files are stored\r
+mafft.--aamatrix.path = binaries/matrices\r
+mafft.presets.file = conf/settings/MafftPresets.xml\r
+mafft.parameters.file = conf/settings/MafftParameters.xml\r
+mafft.limits.file = conf/settings/MafftLimits.xml\r
+#mafft.cluster.settings = -l h_cpu=24:00:00 -l ram=6000M\r
+\r
+\r
+###########################################################################################\r
+# TCOFFEE CONFIGURATION #\r
+###########################################################################################\r
+local.tcoffee.bin = binaries/src/tcoffee/t_coffee_source/t_coffee\r
+#cluster.tcoffee.bin = /home/jabaws/binaries/src/tcoffee/t_coffee_source/t_coffee\r
# This variable is required by tcoffee\r
-tcoffee.bin.env=HOME_4_TCOFFEE#jobsout;\r
-tcoffee.presets.file=conf/settings/TcoffeePresets.xml\r
-tcoffee.parameters.file=conf/settings/TcoffeeParameters.xml\r
-#tcoffee.limits.file=conf/settings/TcoffeeLimits.xml\r
-## Tcoffee can be executed on multiple CPUs if run on the cluster. \r
-## This parameter specifies the number of CPUs to use\r
-#tcoffee.cluster.cpunum=4\r
-## This reserves a slot with CPUNUM on the cluster for the task\r
-#tcoffee.cluster.settings=-q 64bit-pri.q -pe smp 4 -l h_vmem=1700M -l ram=1700M -l h_cpu=24:00:00 \r
-\r
-\r
-##### PROBCONS CONFIGURATION ######\r
-local.probcons.bin=binaries/src/probcons/probcons\r
-#cluster.probcons.bin=/homes/pvtroshin/workspace/jaba2/binaries/src/probcons/probcons\r
-probcons.parameters.file=conf/settings/ProbconsParameters.xml\r
-#probcons.limits.file=conf/settings/ProbconsLimits.xml\r
-#probcons.cluster.settings=-l h_cpu=24:00:00 -l h_vmem=6000M -l ram=6000M\r
-\r
-\r
-##### JRONN CONFIGURATION ######\r
-## If no local path is specified, Java is loaded from JAVA_HOME environment \r
-## variable for local execution. However, cluster.jronn.bin must be specified for \r
-## running Jronn on the cluster. \r
-#local.jronn.bin.windows=D:\\Java\\jdk1.6.0_24\\bin\\java.exe \r
-#local.jronn.bin=/sw/java/latest/bin/java\r
-#cluster.jronn.bin=/sw/java/latest/bin/java\r
-jronn.jar.file=binaries/windows/jronn3.1.jar\r
-#jronn.limits.file=conf/settings/JronnLimits.xml\r
-## Jronn can use multiple CPUs\r
-## This parameter specifies the number of CPU to use\r
-#jronn.cluster.cpunum=4\r
-## This reserves a slot with CPUNUM on the cluster for the task\r
-#jronn.cluster.settings=-q 64bit-pri.q -pe smp 4 -l h_vmem=1700M -l ram=1700M -l h_cpu=24:00:00\r
-\r
-\r
-##### DISEMBL CONFIGURATION ###### \r
-local.disembl.bin=binaries/src/disembl/DisEMBL.py\r
-#cluster.disembl.bin=/homes/pvtroshin/workspace/jaba2/binaries/src/disembl/DisEMBL.py\r
-#disembl.limits.file=conf/settings/DisemblLimits.xml\r
-#disembl.cluster.settings=-l h_cpu=24:00:00 -l h_vmem=6000M -l ram=6000M\r
-\r
-\r
-##### GLOBPLOT CONFIGURATION ###### \r
-local.globplot.bin=binaries/src/globplot/GlobPlot.py\r
-#cluster.globplot.bin=/homes/pvtroshin/workspace/jaba2/binaries/src/globplot/GlobPlot.py\r
-#globplot.bin.env=PYTHONPATH#/homes/pvtroshin/workspace/jaba2/binaries/src/globplot/biopython-1.50 \r
-globplot.limits.file=conf/settings/GlobPlotLimits.xml\r
-#globplot.cluster.settings=-l h_cpu=24:00:00 -l h_vmem=6000M -l ram=6000M\r
-\r
-\r
-##### IUPRED CONFIGURATION ###### \r
-local.iupred.bin.windows=binaries/windows/iupred/iupred.exe \r
-local.iupred.bin=binaries/src/iupred/iupred\r
-## This must point to the directory where iupred binary is, with other files it \r
-## depends on. This path will be converted to absolute if relative at runtime. \r
-iupred.bin.env=IUPred_PATH#binaries/src/iupred\r
-#cluster.iupred.bin=/homes/pvtroshin/workspace/jaba2/binaries/src/iupred/iupred\r
-iupred.parameters.file=conf/settings/IUPredParameters.xml\r
-#iupred.limits.file=conf/settings/IUPredLimits.xml\r
-#iupred.cluster.settings=-l h_cpu=24:00:00 -l h_vmem=6000M -l ram=6000M\r
-\r
-\r
-##### AACON CONFIGURATION ######\r
-# This is just a path to the standard java executable \r
-#local.aacon.bin.windows=D:\\Java\\jdk1.6.0_24\\bin\\java.exe \r
-#local.aacon.bin=/sw/java/latest/bin/java\r
-#cluster.aacon.bin=/sw/java/latest/bin/java\r
-# Path to the AACon library\r
-aacon.jar.file=binaries/windows/aaconservation.jar\r
-aacon.parameters.file=conf/settings/AAConParameters.xml\r
-aacon.presets.file=conf/settings/AAConPresets.xml\r
-#aacon.limits.file=conf/settings/AAConLimits.xml\r
-## AACon can use multiple CPUs\r
-## This parameter specifies the number of CPUs to use\r
-#aacon.cluster.cpunum=4\r
-## This reserves a slot with CPUNUM on the cluster for the task\r
-#aacon.cluster.settings=-q 64bit-pri.q -pe smp 4 -l h_vmem=1700M -l ram=1700M -l h_cpu=24:00:00\r
+tcoffee.bin.env = HOME_4_TCOFFEE#jobsout;\r
+tcoffee.presets.file = conf/settings/TcoffeePresets.xml\r
+tcoffee.parameters.file = conf/settings/TcoffeeParameters.xml\r
+tcoffee.limits.file = conf/settings/TcoffeeLimits.xml\r
+### Tcoffee can be executed on multiple CPUs if run on the cluster. This parameter defines CPUs #N\r
+#tcoffee.cluster.cpunum = 4\r
+### This paramer defines queue setting with CPUNUM on the cluster\r
+#tcoffee.cluster.settings = -q 64bit-pri.q -pe smp 4 -l ram=1700M -l h_cpu=24:00:00\r
+\r
+\r
+###########################################################################################\r
+# PROBCONS CONFIGURATION #\r
+###########################################################################################\r
+local.probcons.bin = binaries/src/probcons/probcons\r
+#cluster.probcons.bin = /home/jabaws/binaries/src/probcons/probcons\r
+probcons.parameters.file = conf/settings/ProbconsParameters.xml\r
+probcons.limits.file = conf/settings/ProbconsLimits.xml\r
+### This parameter defines queue settings for PROBCON on the cluster\r
+#probcons.cluster.settings = -l h_cpu=24:00:00 -l ram=6000M\r
+\r
+\r
+###########################################################################################\r
+# JRONN CONFIGURATION #\r
+###########################################################################################\r
+### If no local path is specified, Java is loaded from JAVA_HOME variable for local \r
+### execution. However, cluster.jronn.bin MUST be specified for running Jronn on the cluster.\r
+#local.jronn.bin.windows = D:\\Java\\jdk1.6.0_24\\bin\\java.exe \r
+#local.jronn.bin = /sw/java/latest/bin/java\r
+#cluster.jronn.bin = /sw/java/latest/bin/java\r
+jronn.jar.file = binaries/windows/bj3.0.4p-jronn.jar\r
+jronn.limits.file = conf/settings/JronnLimits.xml\r
+## Jronn can use multiple CPUs. This parameter specifies the number of CPUs\r
+#jronn.cluster.cpunum = 4\r
+### This reserves a slot with CPUNUM on the cluster for the task\r
+#jronn.cluster.settings = -q 64bit-pri.q -pe smp 4 -l h_cpu=24:00:00\r
+\r
+\r
+###########################################################################################\r
+# DISEMBL CONFIGURATION #\r
+###########################################################################################\r
+local.disembl.bin = binaries/src/disembl/DisEMBL.py\r
+#cluster.disembl.bin = /home/jabaws/binaries/src/disembl/DisEMBL.py\r
+disembl.limits.file = conf/settings/DisemblLimits.xml\r
+#disembl.cluster.settings = -l h_cpu=24:00:00 -l ram=6000M\r
+\r
+\r
+###########################################################################################\r
+# GLOBPLOT CONFIGURATION #\r
+###########################################################################################\r
+local.globplot.bin = binaries/src/globplot/GlobPlot.py\r
+#cluster.globplot.bin = /home/jabaws/binaries/src/globplot/GlobPlot.py\r
+#globplot.bin.env = PYTHONPATH#/home/jabaws/binaries/src/globplot/biopython-1.50\r
+globplot.limits.file = conf/settings/GlobPlotLimits.xml\r
+#globplot.cluster.settings = -l h_cpu=24:00:00 -l ram=6000M\r
+\r
+\r
+###########################################################################################\r
+# IUPRED CONFIGURATION #\r
+###########################################################################################\r
+local.iupred.bin.windows = binaries/windows/iupred/iupred.exe \r
+local.iupred.bin = binaries/src/iupred/iupred\r
+### This must point to the directory where iupred binary is, with other files it \r
+### depends on. This path will be converted to absolute if relative at runtime. \r
+iupred.bin.env = IUPred_PATH#binaries/src/iupred\r
+#cluster.iupred.bin = /home/jabaws/binaries/src/iupred/iupred\r
+iupred.parameters.file = conf/settings/IUPredParameters.xml\r
+iupred.limits.file = conf/settings/IUPredLimits.xml\r
+#iupred.cluster.settings = -l h_cpu=24:00:00 -l ram=6000M\r
+\r
+\r
+###########################################################################################\r
+# AACON CONFIGURATION #\r
+###########################################################################################\r
+### This is just a path to the standard java executable \r
+#local.aacon.bin.windows = D:\\Java\\jdk1.6.0_24\\bin\\java.exe \r
+#local.aacon.bin = /sw/java/latest/bin/java\r
+#cluster.aacon.bin = /sw/java/latest/bin/java\r
+### Path to the AACon library\r
+aacon.jar.file = binaries/windows/aaconservation.jar\r
+aacon.parameters.file = conf/settings/AAConParameters.xml\r
+aacon.presets.file = conf/settings/AAConPresets.xml\r
+aacon.limits.file = conf/settings/AAConLimits.xml\r
+### AACon can use multiple CPUs. This parameter defines the number of CPUs:\r
+#aacon.cluster.cpunum = 4\r
+### This parameter defines queue settings for AACON on the cluster\r
+#aacon.cluster.settings = -q 64bit-pri.q -pe smp 4 -l ram=1700M -l h_cpu=24:00:00\r
+\r
+###########################################################################################\r
+# JPRED CONFIGURATION #\r
+###########################################################################################\r
+#local.jpred.bin = binaries/src/jpred/jpred.pl\r
+##cluster.jpred.bin = /home/jabaws/binaries/src/jpred/jpred.pl\r
+## These paths will be converted to absolute if relative.\r
+#jpred.bin.env = BLASTMAT#binaries/src/jpred/data/blast\r
+## The varible jpred.data.uniref.path define a path to Uniref90 files used by Jpred. If\r
+## you install the database to a different path chenge the variable here\r
+#jpred.data.uniref.path = /data/UNIREFdb\r
+## WARNING!!!\r
+## Redefine jpred.data.uniref.name if you do undestand what the variable means\r
+#jpred.data.uniref.name = cluster\r
+#### This parameters specifies the directory where the matrices files are stored\r
+#jpred.presets.file = conf/settings/JpredPresets.xml\r
+#jpred.parameters.file = conf/settings/JpredParameters.xml\r
+#jpred.limits.file = conf/settings/JpredLimits.xml\r
+#jpred.cluster.cpunum = 4\r
+##jpred.cluster.settings = -l h_cpu=24:00:00 -l ram=6000M\r
+\r
+###########################################################################################\r
+# RNAALIFOLD CONFIGURATION #\r
+###########################################################################################\r
+local.rnaalifold.bin.windows = binaries/windows/ViennaRNA/RNAalifold.exe\r
+local.rnaalifold.bin = binaries/src/ViennaRNA/Progs/RNAalifold\r
+#cluster.rnaalifold.bin = /homes/www-jws2/test-servers/tomcat7-jaba3/webapps/jabawsRNA/binaries/src/ViennaRNA/Progs/RNAalifold\r
+rnaalifold.parameters.file = conf/settings/RNAalifoldParameters.xml\r
+rnaalifold.limits.file = conf/settings/RNAalifoldLimits.xml\r
+#rnaalifold.cluster.settings = -P webservices -R y -l h_cpu=24:00:00 -l ram=6000M\r
+\r
+###########################################################################################\r
+# MSAProbs CONFIGURATION #\r
+###########################################################################################\r
+local.msaprobs.bin = binaries/src/MSAProbs-0.9.7/MSAProbs/msaprobs\r
+#cluster.msaprobs.bin = /homes/www-jws2/test-servers/tomcat7-jaba3/webapps/jabawsRNA/binaries/src/MSAProbs-0.9.7/MSAProbs/msaprobs\r
+msaprobs.parameters.file = conf/settings/MSAprobsParameters.xml\r
+msaprobs.limits.file = conf/settings/MSAprobsLimits.xml\r
+#msaprobs.cluster.settings = -P webservices -R y -l h_cpu=24:00:00 -l ram=6000M\r
+\r
+###########################################################################################\r
+# GLprobs CONFIGURATION #\r
+###########################################################################################\r
+local.glprobs.bin = binaries/src/GLProbs-1.0/glprobs\r
+#cluster.glprobs.bin = /homes/www-jws2/test-servers/tomcat7-jaba3/webapps/jabawsRNA/binaries/src/GLProbs-1.0/glprobs\r
+glprobs.parameters.file = conf/settings/GLprobsParameters.xml\r
+glprobs.limits.file = conf/settings/GLprobsLimits.xml\r
+#glprobs.cluster.settings = -P webservices -R y -l h_cpu=24:00:00 -l ram=6000M\r
git://source.jalview.org / jabaws.git / blobdiff