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 30M
-rw-r--r-- 1 mcc users 5.1K 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 4.0K May 15 18:54 CTLFireability.txt
-rw-r--r-- 1 mcc users 18K May 15 18:54 CTLFireability.xml
-rw-r--r-- 1 mcc users 4.0K May 15 18:50 GenericPropertiesDefinition.xml
-rw-r--r-- 1 mcc users 5.6K May 15 18:50 GenericPropertiesVerdict.xml
-rw-r--r-- 1 mcc users 3.1K May 15 18:54 LTLCardinality.txt
-rw-r--r-- 1 mcc users 13K May 15 18:54 LTLCardinality.xml
-rw-r--r-- 1 mcc users 2.4K May 15 18:54 LTLFireability.txt
-rw-r--r-- 1 mcc users 7.6K May 15 18:54 LTLFireability.xml
-rw-r--r-- 1 mcc users 4.2K May 15 18:54 ReachabilityCardinality.txt
-rw-r--r-- 1 mcc users 18K May 15 18:54 ReachabilityCardinality.xml
-rw-r--r-- 1 mcc users 117 May 15 18:54 ReachabilityDeadlock.txt
-rw-r--r-- 1 mcc users 355 May 15 18:54 ReachabilityDeadlock.xml
-rw-r--r-- 1 mcc users 4.9K May 15 18:54 ReachabilityFireability.txt
-rw-r--r-- 1 mcc users 20K May 15 18:54 ReachabilityFireability.xml
-rw-r--r-- 1 mcc users 1.9K May 15 18:54 UpperBounds.txt
-rw-r--r-- 1 mcc users 4.0K May 15 18:54 UpperBounds.xml
-rw-r--r-- 1 mcc users 6 May 15 18:50 equiv_col
-rw-r--r-- 1 mcc users 9 May 15 18:50 instance
-rw-r--r-- 1 mcc users 6 May 15 18:50 iscolored
-rw-r--r-- 1 mcc users 30M May 15 18:50 model.pnml
=====================================================================
Generated by BenchKit 2-3637
Executing tool itstoolsl
Input is PhaseVariation-PT-D30CS100, examination is ReachabilityDeadlock
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 4
Run identifier is r117-csrt-152666477300664
=====================================================================

--------------------
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 PhaseVariation-PT-D30CS100-ReachabilityDeadlock-0

=== Now, execution of the tool begins

BK_START 1527270278377

Flatten gal took : 5150 ms
Constant places removed 1 places and 36 transitions.
Iterating post reduction 0 with 1 rules applied. Total rules applied 1 place count 2701 transition count 30941
Constant places removed 2 places and 16 transitions.
Iterating post reduction 1 with 2 rules applied. Total rules applied 3 place count 2699 transition count 30925
Applied a total of 3 rules in 1544 ms. Remains 2699 /2702 variables (removed 3) and now considering 30925/30977 (removed 52) transitions.
Normalized transition count is 1799
// Phase 1: matrix 1799 rows 2699 cols
Using solver Z3 to compute partial order matrices.
Built C files in :
/home/mcc/execution
Running compilation step : CommandLine [args=[gcc, -c, -I/home/mcc/BenchKit//lts_install_dir//include, -I., -std=c99, -fPIC, -O3, model.c], workingDir=/home/mcc/execution]
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/graph6387187105127465167.txt, -o, /tmp/graph6387187105127465167.bin, -w, /tmp/graph6387187105127465167.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/graph6387187105127465167.bin, -l, -1, -v, -w, /tmp/graph6387187105127465167.weights, -q, 0, -e, 0.001], workingDir=null]
WARNING : LTS min runner thread failed on error :java.lang.RuntimeException: Compilation or link of executable timed out.java.util.concurrent.TimeoutException: Subprocess running CommandLine [args=[gcc, -c, -I/home/mcc/BenchKit//lts_install_dir//include, -I., -std=c99, -fPIC, -O3, model.c], workingDir=/home/mcc/execution] killed by timeout after 400 SECONDS
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/ReachabilityDeadlock.pnml.gal, -t, CGAL, -ctl, DEADLOCK], 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/ReachabilityDeadlock.pnml.gal -t CGAL -ctl DEADLOCK
No direction supplied, using forward translation only.
built 70 ordering constraints for composite.
built 1880 ordering constraints for composite.
built 768 ordering constraints for composite.
built 1170 ordering constraints for composite.
built 1800 ordering constraints for composite.
built 1566 ordering constraints for composite.
built 2268 ordering constraints for composite.
built 1642 ordering constraints for composite.
built 1532 ordering constraints for composite.
built 1520 ordering constraints for composite.
built 1692 ordering constraints for composite.
built 29386 ordering constraints for composite.
built 1576 ordering constraints for composite.
built 1508 ordering constraints for composite.
built 2484 ordering constraints for composite.
built 1140 ordering constraints for composite.
built 760 ordering constraints for composite.
built 976 ordering constraints for composite.
built 1784 ordering constraints for composite.
built 944 ordering constraints for composite.
built 1376 ordering constraints for composite.
built 1256 ordering constraints for composite.
built 1308 ordering constraints for composite.
built 508 ordering constraints for composite.
sparsehash FATAL ERROR: failed to allocate 39 groups

BK_STOP 1527271899172

--------------------
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 ReachabilityDeadlock -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 ReachabilityDeadlock -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 25, 2018 5:44:40 PM fr.lip6.move.gal.application.Application start
INFO: Running its-tools with arguments : [-pnfolder, /home/mcc/execution, -examination, ReachabilityDeadlock, -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 25, 2018 5:44:40 PM fr.lip6.move.gal.application.MccTranslator transformPNML
INFO: Parsing pnml file : /home/mcc/execution/model.pnml
May 25, 2018 5:44:42 PM fr.lip6.move.gal.nupn.PTNetReader loadFromXML
INFO: Load time of PNML (sax parser for PT used): 1437 ms
May 25, 2018 5:44:42 PM fr.lip6.move.gal.pnml.togal.PTGALTransformer handlePage
INFO: Transformed 2702 places.
May 25, 2018 5:44:44 PM fr.lip6.move.gal.pnml.togal.PTGALTransformer handlePage
INFO: Transformed 30977 transitions.
May 25, 2018 5:44:49 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 5126 ms
May 25, 2018 5:44:50 PM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/model.pnml.simple.gal : 343 ms
May 25, 2018 5:44:54 PM fr.lip6.move.gal.semantics.DeterministicNextBuilder getDeterministicNext
INFO: Input system was already deterministic with 30977 transitions.
May 25, 2018 5:45:02 PM fr.lip6.move.gal.application.MccTranslator applyOrder
INFO: Applying decomposition
May 25, 2018 5:45:07 PM fr.lip6.move.gal.semantics.DeterministicNextBuilder getDeterministicNext
INFO: Input system was already deterministic with 30925 transitions.
May 25, 2018 5:45:07 PM fr.lip6.move.gal.gal2pins.Gal2PinsTransformerNext transform
INFO: Too many transitions (30925) to apply POR reductions. Disabling POR matrices.
May 25, 2018 5:45:09 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 7088 ms
May 25, 2018 5:45:10 PM fr.lip6.move.gal.gal2pins.Gal2PinsTransformerNext transform
INFO: Built C files in 7939ms conformant to PINS in folder :/home/mcc/execution
May 25, 2018 5:45:12 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 3216 ms
Begin: Fri May 25 17:45:15 2018

Computation of communities with the Newman-Girvan Modularity quality function

level 0:
start computation: Fri May 25 17:45:15 2018
network size: 2699 nodes, 41698 links, 61848 weight
quality increased from -0.0978939 to 0.155788
end computation: Fri May 25 17:45:15 2018
level 1:
start computation: Fri May 25 17:45:15 2018
network size: 738 nodes, 6960 links, 61848 weight
quality increased from 0.155788 to 0.21673
end computation: Fri May 25 17:45:15 2018
level 2:
start computation: Fri May 25 17:45:15 2018
network size: 107 nodes, 821 links, 61848 weight
quality increased from 0.21673 to 0.232178
end computation: Fri May 25 17:45:15 2018
level 3:
start computation: Fri May 25 17:45:15 2018
network size: 30 nodes, 214 links, 61848 weight
quality increased from 0.232178 to 0.232952
end computation: Fri May 25 17:45:15 2018
level 4:
start computation: Fri May 25 17:45:15 2018
network size: 23 nodes, 161 links, 61848 weight
quality increased from 0.232952 to 0.232952
end computation: Fri May 25 17:45:15 2018
End: Fri May 25 17:45:15 2018
Total duration: 0 sec
0.232952
May 25, 2018 5:45:15 PM fr.lip6.move.gal.instantiate.CompositeBuilder decomposeWithOrder
INFO: Decomposing Gal with order
May 25, 2018 5:45:19 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 3288 ms
May 25, 2018 5:45:19 PM fr.lip6.move.gal.instantiate.CompositeBuilder rewriteArraysToAllowPartition
INFO: Rewriting arrays to variables to allow decomposition.
java.lang.RuntimeException: Compilation or link of executable timed out.java.util.concurrent.TimeoutException: Subprocess running CommandLine [args=[gcc, -c, -I/home/mcc/BenchKit//lts_install_dir//include, -I., -std=c99, -fPIC, -O3, model.c], workingDir=/home/mcc/execution] killed by timeout after 400 SECONDS
at fr.lip6.move.gal.application.LTSminRunner$1.run(LTSminRunner.java:78)
at java.lang.Thread.run(Thread.java:748)
May 25, 2018 5:53:03 PM fr.lip6.move.gal.instantiate.Instantiator fuseIsomorphicEffects
INFO: Removed a total of 71219 redundant transitions.
May 25, 2018 5:53:04 PM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/ReachabilityDeadlock.pnml.gal : 374 ms
ITS-tools command line returned an error code 1

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="PhaseVariation-PT-D30CS100"
export BK_EXAMINATION="ReachabilityDeadlock"
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/PhaseVariation-PT-D30CS100.tgz
mv PhaseVariation-PT-D30CS100 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 PhaseVariation-PT-D30CS100, examination is ReachabilityDeadlock"
echo " Time confinement is $BK_TIME_CONFINEMENT seconds"
echo " Memory confinement is 16384 MBytes"
echo " Number of cores is 4"
echo " Run identifier is r117-csrt-152666477300664"
echo "====================================================================="
echo
echo "--------------------"
echo "content from stdout:"
echo
echo "=== Data for post analysis generated by BenchKit (invocation template)"
echo
if [ "ReachabilityDeadlock" = "UpperBounds" ] ; then
echo "The expected result is a vector of positive values"
echo NUM_VECTOR
elif [ "ReachabilityDeadlock" != "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 "ReachabilityDeadlock.txt" ] ; then
echo "here is the order used to build the result vector(from text file)"
for x in $(grep Property ReachabilityDeadlock.txt | cut -d ' ' -f 2 | sort -u) ; do
echo "FORMULA_NAME $x"
done
elif [ -f "ReachabilityDeadlock.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 '' ReachabilityDeadlock.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 ;