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[jabaws.git] / conf / Executable.properties

diff --git a/conf/Executable.properties b/conf/Executable.properties
index a1107ca..5bd5b6e 100644 (file)
--- a/conf/Executable.properties
+++ b/conf/Executable.properties
@@ -20,7 +20,7 @@
 ### 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
+#cluster.clustalw.bin=/homes/pvtroshin/workspace/jaba2/binaries/src/clustalw/src/clustalw2\r
 # Parameters names which come from RunnerConfig -> Parameters.xml file ultimately are all lowercased in comparison!\r
 # see engine.client.Util.getExecProperty() method for details  \r
 # So they are case insensitive. \r
@@ -33,7 +33,7 @@ clustalw.parameters.file=conf/settings/ClustalParameters.xml
 ### 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
+#cluster.muscle.bin=/homes/pvtroshin/workspace/jaba2/binaries/src/muscle/muscle\r
 #The environment variable MUSCLE_MXPATH can be used to specify a path where the matrices are stored\r
 # e.g. MUSCLE_MXPATH#binaries/matrices - but need to privide absolute path!\r
 muscle.-matrix.path=binaries/matrices\r
@@ -44,7 +44,7 @@ muscle.parameters.file=conf/settings/MuscleParameters.xml
 \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
+#cluster.mafft.bin=/homes/pvtroshin/workspace/jaba2/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
 mafft.--aamatrix.path=binaries/matrices\r
@@ -56,7 +56,7 @@ mafft.parameters.file=conf/settings/MafftParameters.xml
 \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
+#cluster.tcoffee.bin=/homes/pvtroshin/workspace/jaba2/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
@@ -67,7 +67,7 @@ tcoffee.parameters.file=conf/settings/TcoffeeParameters.xml
 \r
 ### Probcons configuration ###\r
 local.probcons.bin=binaries/src/probcons/probcons\r
-cluster.probcons.bin=/homes/pvtroshin/workspace/jaba2/binaries/src/probcons/probcons\r
+#cluster.probcons.bin=/homes/pvtroshin/workspace/jaba2/binaries/src/probcons/probcons\r
 #Probcons does not support matrix loading - unrecognised option reported! \r
 probcons.parameters.file=conf/settings/ProbconsParameters.xml\r
 #probcons.limits.file=conf/settings/ProbconsLimits.xml\r
@@ -78,7 +78,7 @@ probcons.parameters.file=conf/settings/ProbconsParameters.xml
 # variable for local execution \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
+#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.cluster.cpunum=4\r
@@ -87,13 +87,13 @@ jronn.limits.file=conf/settings/JronnLimits.xml
 \r
 ### Disembl configuration Tisean - Disembl dependancy ### \r
 local.disembl.bin=binaries/src/disembl/DisEMBL.py\r
-cluster.disembl.bin=/homes/pvtroshin/workspace/jaba2/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
 ### GlobPlot configuration Tisean - GlobPlot and Disembl dependancy ### \r
 local.globplot.bin=binaries/src/globplot/GlobPlot.py\r
-cluster.globplot.bin=/homes/pvtroshin/workspace/jaba2/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
@@ -105,7 +105,7 @@ local.iupred.bin=binaries/src/iupred/iupred
 #iupred.bin.env=IUPred_PATH#/homes/pvtroshin/workspace/jaba2/binaries/src/iupred\r
 # This path will be converted to absolute if relative. \r
 iupred.bin.env=IUPred_PATH#binaries/src/iupred\r
-cluster.iupred.bin=/homes/pvtroshin/workspace/jaba2/binaries/src/iupred/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
@@ -114,7 +114,7 @@ iupred.parameters.file=conf/settings/IUPredParameters.xml
 # 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
+#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