JWS-114 Commented out ‘cluster’ entries for consistency with other methods.

[jabaws.git] / conf / Executable.properties

diff --git a/conf/Executable.properties b/conf/Executable.properties
index a592c3a..2bdc9a2 100644 (file)
--- a/conf/Executable.properties
+++ b/conf/Executable.properties
@@ -215,16 +215,22 @@ aacon.limits.file        = conf/settings/AAConLimits.xml
 ###########################################################################################\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;UNIREFDB#binaries/src/jpred/unirefdb;\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
+#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
@@ -234,6 +240,22 @@ local.rnaalifold.bin         = binaries/src/ViennaRNA/Progs/RNAalifold
 #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
+#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