Execution Chart

We display below the execution chart for this examination (boot time has been removed).

Trace from the execution

Waiting for the VM to be ready (probing ssh)
.........................
/home/mcc/execution
total 212K
-rw-r--r-- 1 mcc users 4.5K May 15 18:54 CTLCardinality.txt
-rw-r--r-- 1 mcc users 24K May 15 18:54 CTLCardinality.xml
-rw-r--r-- 1 mcc users 2.4K May 15 18:54 CTLFireability.txt
-rw-r--r-- 1 mcc users 17K May 15 18:54 CTLFireability.xml
-rw-r--r-- 1 mcc users 4.0K May 15 18:49 GenericPropertiesDefinition.xml
-rw-r--r-- 1 mcc users 6.0K May 15 18:49 GenericPropertiesVerdict.xml
-rw-r--r-- 1 mcc users 2.6K May 15 18:54 LTLCardinality.txt
-rw-r--r-- 1 mcc users 12K May 15 18:54 LTLCardinality.xml
-rw-r--r-- 1 mcc users 1.8K May 15 18:54 LTLFireability.txt
-rw-r--r-- 1 mcc users 7.7K May 15 18:54 LTLFireability.xml
-rw-r--r-- 1 mcc users 4.9K May 15 18:54 ReachabilityCardinality.txt
-rw-r--r-- 1 mcc users 24K May 15 18:54 ReachabilityCardinality.xml
-rw-r--r-- 1 mcc users 109 May 15 18:54 ReachabilityDeadlock.txt
-rw-r--r-- 1 mcc users 347 May 15 18:54 ReachabilityDeadlock.xml
-rw-r--r-- 1 mcc users 2.5K May 15 18:54 ReachabilityFireability.txt
-rw-r--r-- 1 mcc users 15K May 15 18:54 ReachabilityFireability.xml
-rw-r--r-- 1 mcc users 1.8K May 15 18:54 UpperBounds.txt
-rw-r--r-- 1 mcc users 3.8K May 15 18:54 UpperBounds.xml
-rw-r--r-- 1 mcc users 6 May 15 18:49 equiv_col
-rw-r--r-- 1 mcc users 3 May 15 18:49 instance
-rw-r--r-- 1 mcc users 6 May 15 18:49 iscolored
-rw-r--r-- 1 mcc users 33K May 15 18:49 model.pnml
=====================================================================
Generated by BenchKit 2-3637
Executing tool itstoolsl
Input is Angiogenesis-PT-10, examination is CTLFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 4
Run identifier is r021-qhx1-152646246200018
=====================================================================

--------------------
content from stdout:

=== Data for post analysis generated by BenchKit (invocation template)

The expected result is a vector of booleans
BOOL_VECTOR

here is the order used to build the result vector(from text file)
FORMULA_NAME Angiogenesis-PT-10-CTLFireability-00
FORMULA_NAME Angiogenesis-PT-10-CTLFireability-01
FORMULA_NAME Angiogenesis-PT-10-CTLFireability-02
FORMULA_NAME Angiogenesis-PT-10-CTLFireability-03
FORMULA_NAME Angiogenesis-PT-10-CTLFireability-04
FORMULA_NAME Angiogenesis-PT-10-CTLFireability-05
FORMULA_NAME Angiogenesis-PT-10-CTLFireability-06
FORMULA_NAME Angiogenesis-PT-10-CTLFireability-07
FORMULA_NAME Angiogenesis-PT-10-CTLFireability-08
FORMULA_NAME Angiogenesis-PT-10-CTLFireability-09
FORMULA_NAME Angiogenesis-PT-10-CTLFireability-10
FORMULA_NAME Angiogenesis-PT-10-CTLFireability-11
FORMULA_NAME Angiogenesis-PT-10-CTLFireability-12
FORMULA_NAME Angiogenesis-PT-10-CTLFireability-13
FORMULA_NAME Angiogenesis-PT-10-CTLFireability-14
FORMULA_NAME Angiogenesis-PT-10-CTLFireability-15

=== Now, execution of the tool begins

BK_START 1527200756800

Converted graph to binary with : CommandLine [args=[/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.louvain.binaries_1.0.0.201805241334/bin/convert-linux64, -i, /tmp/graph8768619428795130603.txt, -o, /tmp/graph8768619428795130603.bin, -w, /tmp/graph8768619428795130603.weights], workingDir=null]
Built communities with : CommandLine [args=[/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.louvain.binaries_1.0.0.201805241334/bin/louvain-linux64, /tmp/graph8768619428795130603.bin, -l, -1, -v, -w, /tmp/graph8768619428795130603.weights, -q, 0, -e, 0.001], workingDir=null]
Invoking ITS tools like this :CommandLine [args=[/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.201805241334/bin/its-ctl-linux64, --gc-threshold, 2000000, --quiet, -i, /home/mcc/execution/CTLFireability.pnml.gal, -t, CGAL, -ctl, /home/mcc/execution/CTLFireability.ctl], workingDir=/home/mcc/execution]

its-ctl command run as :

/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.201805241334/bin/its-ctl-linux64 --gc-threshold 2000000 --quiet -i /home/mcc/execution/CTLFireability.pnml.gal -t CGAL -ctl /home/mcc/execution/CTLFireability.ctl
No direction supplied, using forward translation only.
Parsed 16 CTL formulae.
built 17 ordering constraints for composite.
built 15 ordering constraints for composite.
built 14 ordering constraints for composite.
built 20 ordering constraints for composite.
built 8 ordering constraints for composite.
built 24 ordering constraints for composite.
Model ,|S| ,Time ,Mem(kb) ,fin. SDD ,fin. DDD ,peak SDD ,peak DDD ,SDD Hom ,SDD cache peak ,DDD Hom ,DDD cachepeak ,SHom cache
reachable,8.22646e+11,704.404,2205296,15065,2367,2.07331e+06,59195,215,9.33325e+06,59,1.48258e+06,0


Converting to forward existential form...Done !
original formula: E((AX(((i0.u1.GP3>=1)&&(i3.u2.KdStar>=1))) + (((i3.u2.KdStarGStarP3>=1)&&(i3.u2.P3k>=1))||(!(i5.u11.PtP3P2>=1)))) U AX((((i0.u1.Gab1>=1)&&(i5.u10.Pip3>=1))&&((i3.u2.KdStarGStarP3>=1)&&(i1.u3.Pg>=1)))))
=> equivalent forward existential formula: [(FwdU(Init,(!(EX(!(((i0.u1.GP3>=1)&&(i3.u2.KdStar>=1))))) + (((i3.u2.KdStarGStarP3>=1)&&(i3.u2.P3k>=1))||(!(i5.u11.PtP3P2>=1))))) * !(EX(!((((i0.u1.Gab1>=1)&&(i5.u10.Pip3>=1))&&((i3.u2.KdStarGStarP3>=1)&&(i1.u3.Pg>=1)))))))] != FALSE
Reverse transition relation is NOT exact ! Due to transitions k55, i0.u4.k2, i3.u2.k7, i5.u11.k60, Intersection with reachable at each step enabled. (destroyed/reverse/intersect/total) :0/60/4/64

BK_TIME_CONFINEMENT_REACHED

--------------------
content from stderr:

+ export BINDIR=/home/mcc/BenchKit/
+ BINDIR=/home/mcc/BenchKit/
++ pwd
+ export MODEL=/home/mcc/execution
+ MODEL=/home/mcc/execution
+ /home/mcc/BenchKit//runeclipse.sh /home/mcc/execution CTLFireability -its -ltsminpath /home/mcc/BenchKit//lts_install_dir/ -louvain -smt
+ ulimit -s 65536
+ [[ -z '' ]]
+ export LTSMIN_MEM_SIZE=8589934592
+ LTSMIN_MEM_SIZE=8589934592
+ /home/mcc/BenchKit//itstools/its-tools -consoleLog -data /home/mcc/execution/workspace -pnfolder /home/mcc/execution -examination CTLFireability -z3path /home/mcc/BenchKit//z3/bin/z3 -yices2path /home/mcc/BenchKit//yices/bin/yices -its -ltsminpath /home/mcc/BenchKit//lts_install_dir/ -louvain -smt -vmargs -Dosgi.locking=none -Declipse.stateSaveDelayInterval=-1 -Dosgi.configuration.area=/tmp/.eclipse -Xss8m -Xms40m -Xmx8192m -Dfile.encoding=UTF-8 -Dosgi.requiredJavaVersion=1.6
May 24, 2018 10:26:12 PM fr.lip6.move.gal.application.Application start
INFO: Running its-tools with arguments : [-pnfolder, /home/mcc/execution, -examination, CTLFireability, -z3path, /home/mcc/BenchKit//z3/bin/z3, -yices2path, /home/mcc/BenchKit//yices/bin/yices, -its, -ltsminpath, /home/mcc/BenchKit//lts_install_dir/, -louvain, -smt]
May 24, 2018 10:26:12 PM fr.lip6.move.gal.application.MccTranslator transformPNML
INFO: Parsing pnml file : /home/mcc/execution/model.pnml
May 24, 2018 10:26:12 PM fr.lip6.move.gal.nupn.PTNetReader loadFromXML
INFO: Load time of PNML (sax parser for PT used): 64 ms
May 24, 2018 10:26:12 PM fr.lip6.move.gal.pnml.togal.PTGALTransformer handlePage
INFO: Transformed 39 places.
May 24, 2018 10:26:12 PM fr.lip6.move.gal.pnml.togal.PTGALTransformer handlePage
INFO: Transformed 64 transitions.
May 24, 2018 10:26:12 PM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/model.pnml.img.gal : 13 ms
May 24, 2018 10:26:12 PM fr.lip6.move.gal.application.MccTranslator applyOrder
INFO: Applying decomposition
May 24, 2018 10:26:12 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 62 ms
May 24, 2018 10:26:12 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 24 ms
Begin: Thu May 24 22:26:12 2018

Computation of communities with the Newman-Girvan Modularity quality function

level 0:
start computation: Thu May 24 22:26:12 2018
network size: 39 nodes, 138 links, 128 weight
quality increased from -0.0310669 to 0.427765
end computation: Thu May 24 22:26:12 2018
level 1:
start computation: Thu May 24 22:26:12 2018
network size: 13 nodes, 69 links, 128 weight
quality increased from 0.427765 to 0.482574
end computation: Thu May 24 22:26:12 2018
level 2:
start computation: Thu May 24 22:26:12 2018
network size: 6 nodes, 32 links, 128 weight
quality increased from 0.482574 to 0.482574
end computation: Thu May 24 22:26:12 2018
End: Thu May 24 22:26:12 2018
Total duration: 0 sec
0.482574
May 24, 2018 10:26:12 PM fr.lip6.move.gal.instantiate.CompositeBuilder decomposeWithOrder
INFO: Decomposing Gal with order
May 24, 2018 10:26:12 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 20 ms
May 24, 2018 10:26:12 PM fr.lip6.move.gal.instantiate.CompositeBuilder rewriteArraysToAllowPartition
INFO: Rewriting arrays to variables to allow decomposition.
May 24, 2018 10:26:12 PM fr.lip6.move.gal.instantiate.Instantiator fuseIsomorphicEffects
INFO: Removed a total of 33 redundant transitions.
May 24, 2018 10:26:12 PM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/CTLFireability.pnml.gal : 5 ms
May 24, 2018 10:26:12 PM fr.lip6.move.serialization.SerializationUtil serializePropertiesForITSCTLTools
INFO: Time to serialize properties into /home/mcc/execution/CTLFireability.ctl : 3 ms

Sequence of Actions to be Executed by the VM

This is useful if one wants to reexecute the tool in the VM from the submitted image disk.

set -x
# this is for BenchKit: configuration of major elements for the test
export BK_INPUT="Angiogenesis-PT-10"
export BK_EXAMINATION="CTLFireability"
export BK_TOOL="itstoolsl"
export BK_RESULT_DIR="/tmp/BK_RESULTS/OUTPUTS"
export BK_TIME_CONFINEMENT="3600"
export BK_MEMORY_CONFINEMENT="16384"

# this is specific to your benchmark or test

export BIN_DIR="$HOME/BenchKit/bin"

# remove the execution directoty if it exists (to avoid increse of .vmdk images)
if [ -d execution ] ; then
rm -rf execution
fi

tar xzf /home/mcc/BenchKit/INPUTS/Angiogenesis-PT-10.tgz
mv Angiogenesis-PT-10 execution
cd execution
pwd
ls -lh

# this is for BenchKit: explicit launching of the test
echo "====================================================================="
echo " Generated by BenchKit 2-3637"
echo " Executing tool itstoolsl"
echo " Input is Angiogenesis-PT-10, examination is CTLFireability"
echo " Time confinement is $BK_TIME_CONFINEMENT seconds"
echo " Memory confinement is 16384 MBytes"
echo " Number of cores is 4"
echo " Run identifier is r021-qhx1-152646246200018"
echo "====================================================================="
echo
echo "--------------------"
echo "content from stdout:"
echo
echo "=== Data for post analysis generated by BenchKit (invocation template)"
echo
if [ "CTLFireability" = "UpperBounds" ] ; then
echo "The expected result is a vector of positive values"
echo NUM_VECTOR
elif [ "CTLFireability" != "StateSpace" ] ; then
echo "The expected result is a vector of booleans"
echo BOOL_VECTOR
else
echo "no data necessary for post analysis"
fi
echo
if [ -f "CTLFireability.txt" ] ; then
echo "here is the order used to build the result vector(from text file)"
for x in $(grep Property CTLFireability.txt | cut -d ' ' -f 2 | sort -u) ; do
echo "FORMULA_NAME $x"
done
elif [ -f "CTLFireability.xml" ] ; then # for cunf (txt files deleted;-)
echo echo "here is the order used to build the result vector(from xml file)"
for x in $(grep '' CTLFireability.xml | cut -d '>' -f 2 | cut -d '<' -f 1 | sort -u) ; do
echo "FORMULA_NAME $x"
done
fi
echo
echo "=== Now, execution of the tool begins"
echo
echo -n "BK_START "
date -u +%s%3N
echo
timeout -s 9 $BK_TIME_CONFINEMENT bash -c "/home/mcc/BenchKit/BenchKit_head.sh 2> STDERR ; echo ; echo -n \"BK_STOP \" ; date -u +%s%3N"
if [ $? -eq 137 ] ; then
echo
echo "BK_TIME_CONFINEMENT_REACHED"
fi
echo
echo "--------------------"
echo "content from stderr:"
echo
cat STDERR ;