Execution Chart

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

Trace from the execution

Formatting '/data/fkordon/mcc2020-input.r006-smll-158897515900364.qcow2', fmt=qcow2 size=4294967296 backing_file='/data/fkordon/mcc2020-input.qcow2' encryption=off cluster_size=65536 lazy_refcounts=off
Waiting for the VM to be ready (probing ssh)
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=====================================================================
Generated by BenchKit 2-4028
Executing tool itstools
Input is Angiogenesis-PT-50, examination is CTLFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 4
Run identifier is r006-smll-158897515900364
=====================================================================

--------------------
preparation of the directory to be used:
/home/mcc/execution
total 224K
-rw-r--r-- 1 mcc users 4.5K Apr 28 14:22 CTLCardinality.txt
-rw-r--r-- 1 mcc users 23K Apr 28 14:22 CTLCardinality.xml
-rw-r--r-- 1 mcc users 2.2K Apr 28 14:22 CTLFireability.txt
-rw-r--r-- 1 mcc users 14K Apr 28 14:22 CTLFireability.xml
-rw-r--r-- 1 mcc users 4.0K Apr 28 14:22 GenericPropertiesDefinition.xml
-rw-r--r-- 1 mcc users 6.0K Apr 28 14:22 GenericPropertiesVerdict.xml
-rw-r--r-- 1 mcc users 4.1K Apr 28 14:22 LTLCardinality.txt
-rw-r--r-- 1 mcc users 26K Apr 28 14:22 LTLCardinality.xml
-rw-r--r-- 1 mcc users 2.0K Apr 28 14:22 LTLFireability.txt
-rw-r--r-- 1 mcc users 19K Apr 28 14:22 LTLFireability.xml
-rw-r--r-- 1 mcc users 4.0K Apr 28 14:22 ReachabilityCardinality.txt
-rw-r--r-- 1 mcc users 19K Apr 28 14:22 ReachabilityCardinality.xml
-rw-r--r-- 1 mcc users 2.5K Apr 28 14:22 ReachabilityFireability.txt
-rw-r--r-- 1 mcc users 15K Apr 28 14:22 ReachabilityFireability.xml
-rw-r--r-- 1 mcc users 1.7K Apr 28 14:22 UpperBounds.txt
-rw-r--r-- 1 mcc users 3.7K Apr 28 14:22 UpperBounds.xml
-rw-r--r-- 1 mcc users 6 Apr 28 14:22 equiv_col
-rw-r--r-- 1 mcc users 3 Apr 28 14:22 instance
-rw-r--r-- 1 mcc users 6 Apr 28 14:22 iscolored
-rw-r--r-- 1 mcc users 33K Apr 28 14:22 model.pnml

--------------------
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-50-CTLFireability-00
FORMULA_NAME Angiogenesis-PT-50-CTLFireability-01
FORMULA_NAME Angiogenesis-PT-50-CTLFireability-02
FORMULA_NAME Angiogenesis-PT-50-CTLFireability-03
FORMULA_NAME Angiogenesis-PT-50-CTLFireability-04
FORMULA_NAME Angiogenesis-PT-50-CTLFireability-05
FORMULA_NAME Angiogenesis-PT-50-CTLFireability-06
FORMULA_NAME Angiogenesis-PT-50-CTLFireability-07
FORMULA_NAME Angiogenesis-PT-50-CTLFireability-08
FORMULA_NAME Angiogenesis-PT-50-CTLFireability-09
FORMULA_NAME Angiogenesis-PT-50-CTLFireability-10
FORMULA_NAME Angiogenesis-PT-50-CTLFireability-11
FORMULA_NAME Angiogenesis-PT-50-CTLFireability-12
FORMULA_NAME Angiogenesis-PT-50-CTLFireability-13
FORMULA_NAME Angiogenesis-PT-50-CTLFireability-14
FORMULA_NAME Angiogenesis-PT-50-CTLFireability-15

=== Now, execution of the tool begins

BK_START 1589522480543

[2020-05-15 06:01:23] [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/, -greatspnpath, /home/mcc/BenchKit//greatspn/, -order, META, -manyOrder, -smt, -timeout, 3600]
[2020-05-15 06:01:23] [INFO ] Parsing pnml file : /home/mcc/execution/model.pnml
[2020-05-15 06:01:23] [INFO ] Load time of PNML (sax parser for PT used): 78 ms
[2020-05-15 06:01:23] [INFO ] Transformed 39 places.
[2020-05-15 06:01:23] [INFO ] Transformed 64 transitions.
[2020-05-15 06:01:23] [INFO ] Parsed PT model containing 39 places and 64 transitions in 156 ms.
Parsed 16 properties from file /home/mcc/execution/CTLFireability.xml in 29 ms.
Incomplete random walk after 100013 steps, including 3 resets, run finished after 127 ms. (steps per millisecond=787 ) properties seen :[1, 1, 1, 0, 1, 1, 1, 1, 1, 1, 0, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 0, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1]
// Phase 1: matrix 64 rows 39 cols
[2020-05-15 06:01:23] [INFO ] Computed 8 place invariants in 8 ms
[2020-05-15 06:01:23] [INFO ] [Real]Absence check using 8 positive place invariants in 22 ms returned sat
[2020-05-15 06:01:23] [INFO ] [Real]Adding state equation constraints to refine reachable states.
[2020-05-15 06:01:23] [INFO ] [Real]Absence check using state equation in 70 ms returned sat
[2020-05-15 06:01:24] [INFO ] Computed and/alt/rep : 61/165/61 causal constraints in 19 ms.
[2020-05-15 06:01:24] [INFO ] Solution in real domain found non-integer solution.
[2020-05-15 06:01:24] [INFO ] [Nat]Absence check using 8 positive place invariants in 12 ms returned sat
[2020-05-15 06:01:24] [INFO ] [Nat]Adding state equation constraints to refine reachable states.
[2020-05-15 06:01:24] [INFO ] [Nat]Absence check using state equation in 66 ms returned sat
[2020-05-15 06:01:24] [INFO ] Computed and/alt/rep : 61/165/61 causal constraints in 27 ms.
[2020-05-15 06:01:24] [INFO ] Added : 58 causal constraints over 12 iterations in 232 ms. Result :sat
[2020-05-15 06:01:24] [INFO ] [Real]Absence check using 8 positive place invariants in 5 ms returned sat
[2020-05-15 06:01:24] [INFO ] [Real]Adding state equation constraints to refine reachable states.
[2020-05-15 06:01:24] [INFO ] [Real]Absence check using state equation in 40 ms returned sat
[2020-05-15 06:01:24] [INFO ] Solution in real domain found non-integer solution.
[2020-05-15 06:01:24] [INFO ] [Nat]Absence check using 8 positive place invariants in 7 ms returned sat
[2020-05-15 06:01:24] [INFO ] [Nat]Adding state equation constraints to refine reachable states.
[2020-05-15 06:01:24] [INFO ] [Nat]Absence check using state equation in 46 ms returned sat
[2020-05-15 06:01:24] [INFO ] Computed and/alt/rep : 61/165/61 causal constraints in 15 ms.
[2020-05-15 06:01:24] [INFO ] Added : 54 causal constraints over 11 iterations in 152 ms. Result :sat
[2020-05-15 06:01:24] [INFO ] [Real]Absence check using 8 positive place invariants in 5 ms returned sat
[2020-05-15 06:01:24] [INFO ] [Real]Adding state equation constraints to refine reachable states.
[2020-05-15 06:01:24] [INFO ] [Real]Absence check using state equation in 29 ms returned sat
[2020-05-15 06:01:24] [INFO ] Computed and/alt/rep : 61/165/61 causal constraints in 10 ms.
[2020-05-15 06:01:24] [INFO ] Solution in real domain found non-integer solution.
[2020-05-15 06:01:24] [INFO ] [Nat]Absence check using 8 positive place invariants in 7 ms returned sat
[2020-05-15 06:01:24] [INFO ] [Nat]Adding state equation constraints to refine reachable states.
[2020-05-15 06:01:24] [INFO ] [Nat]Absence check using state equation in 31 ms returned sat
[2020-05-15 06:01:24] [INFO ] Computed and/alt/rep : 61/165/61 causal constraints in 12 ms.
[2020-05-15 06:01:25] [INFO ] Added : 59 causal constraints over 12 iterations in 160 ms. Result :sat
[2020-05-15 06:01:25] [INFO ] Flatten gal took : 67 ms
[2020-05-15 06:01:25] [INFO ] Flatten gal took : 22 ms
[2020-05-15 06:01:25] [INFO ] Applying decomposition
[2020-05-15 06:01:25] [INFO ] Flatten gal took : 16 ms
Converted graph to binary with : CommandLine [args=[/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.louvain.binaries_1.0.0.202005100927/bin/convert-linux64, -i, /tmp/graph8912633654236139622.txt, -o, /tmp/graph8912633654236139622.bin, -w, /tmp/graph8912633654236139622.weights], workingDir=null]
Built communities with : CommandLine [args=[/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.louvain.binaries_1.0.0.202005100927/bin/louvain-linux64, /tmp/graph8912633654236139622.bin, -l, -1, -v, -w, /tmp/graph8912633654236139622.weights, -q, 0, -e, 0.001], workingDir=null]
[2020-05-15 06:01:25] [INFO ] Decomposing Gal with order
[2020-05-15 06:01:25] [INFO ] Rewriting arrays to variables to allow decomposition.
[2020-05-15 06:01:25] [INFO ] Removed a total of 39 redundant transitions.
[2020-05-15 06:01:25] [INFO ] Flatten gal took : 74 ms
[2020-05-15 06:01:25] [INFO ] Fuse similar labels procedure discarded/fused a total of 2 labels/synchronizations in 7 ms.
[2020-05-15 06:01:25] [INFO ] Time to serialize gal into /home/mcc/execution/CTLFireability.pnml.gal : 7 ms
[2020-05-15 06:01:25] [INFO ] Time to serialize properties into /home/mcc/execution/CTLFireability.ctl : 2 ms
Invoking ITS tools like this :CommandLine [args=[/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.202005100927/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_1.0.0.202005100927/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 14 ordering constraints for composite.
built 13 ordering constraints for composite.
built 12 ordering constraints for composite.
built 13 ordering constraints for composite.
built 7 ordering constraints for composite.
built 7 ordering constraints for composite.
Detected timeout of ITS tools.
[2020-05-15 06:21:25] [INFO ] Flatten gal took : 9 ms
[2020-05-15 06:21:25] [INFO ] Time to serialize gal into /home/mcc/execution/CTLFireability.pnml.gal : 2 ms
[2020-05-15 06:21:25] [INFO ] Time to serialize properties into /home/mcc/execution/CTLFireability.ctl : 1 ms
Invoking ITS tools like this :CommandLine [args=[/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.202005100927/bin/its-ctl-linux64, --gc-threshold, 2000000, --quiet, -i, /home/mcc/execution/CTLFireability.pnml.gal, -t, CGAL, -ctl, /home/mcc/execution/CTLFireability.ctl, --gen-order, FOLLOW], workingDir=/home/mcc/execution]

its-ctl command run as :

/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.202005100927/bin/its-ctl-linux64 --gc-threshold 2000000 --quiet -i /home/mcc/execution/CTLFireability.pnml.gal -t CGAL -ctl /home/mcc/execution/CTLFireability.ctl --gen-order FOLLOW
No direction supplied, using forward translation only.
Parsed 16 CTL formulae.
Detected timeout of ITS tools.
[2020-05-15 06:41:26] [INFO ] Flatten gal took : 11 ms
[2020-05-15 06:41:26] [INFO ] Input system was already deterministic with 64 transitions.
[2020-05-15 06:41:26] [INFO ] Transformed 39 places.
[2020-05-15 06:41:26] [INFO ] Transformed 64 transitions.
Running greatSPN : CommandLine [args=[/home/mcc/BenchKit//greatspn//bin/pinvar, /home/mcc/execution/gspn], workingDir=/home/mcc/execution]
Run of greatSPN captured in /home/mcc/execution/outPut.txt
Running greatSPN : CommandLine [args=[/home/mcc/BenchKit//greatspn//bin/RGMEDD2, /home/mcc/execution/gspn, -META, -varord-only], workingDir=/home/mcc/execution]
Run of greatSPN captured in /home/mcc/execution/outPut.txt
Using order generated by GreatSPN with heuristic : META
[2020-05-15 06:41:26] [INFO ] Time to serialize gal into /home/mcc/execution/CTLFireability.pnml.gal : 5 ms
[2020-05-15 06:41:26] [INFO ] Time to serialize properties into /home/mcc/execution/CTLFireability.ctl : 3 ms
Invoking ITS tools like this :CommandLine [args=[/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.202005100927/bin/its-ctl-linux64, --gc-threshold, 2000000, --quiet, -i, /home/mcc/execution/CTLFireability.pnml.gal, -t, CGAL, -ctl, /home/mcc/execution/CTLFireability.ctl, --load-order, /home/mcc/execution/model.ord, --gen-order, FOLLOW], workingDir=/home/mcc/execution]

its-ctl command run as :

/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.202005100927/bin/its-ctl-linux64 --gc-threshold 2000000 --quiet -i /home/mcc/execution/CTLFireability.pnml.gal -t CGAL -ctl /home/mcc/execution/CTLFireability.ctl --load-order /home/mcc/execution/model.ord --gen-order FOLLOW
Successfully loaded order from file /home/mcc/execution/model.ord
No direction supplied, using forward translation only.
Parsed 16 CTL formulae.

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
+ [[ CTLFireability = StateSpace ]]
+ /home/mcc/BenchKit//runeclipse.sh /home/mcc/execution CTLFireability -its -ltsminpath /home/mcc/BenchKit//lts_install_dir/ -greatspnpath /home/mcc/BenchKit//greatspn/ -order META -manyOrder -smt -timeout 3600
+ ulimit -s 65536
+ [[ -z '' ]]
+ export LTSMIN_MEM_SIZE=8589934592
+ LTSMIN_MEM_SIZE=8589934592
+ /home/mcc/BenchKit//itstools/its-tools -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/ -greatspnpath /home/mcc/BenchKit//greatspn/ -order META -manyOrder -smt -timeout 3600 -vmargs -Dosgi.locking=none -Declipse.stateSaveDelayInterval=-1 -Dosgi.configuration.area=/tmp/.eclipse -Xss128m -Xms40m -Xmx16000m -Dfile.encoding=UTF-8 -Dosgi.requiredJavaVersion=1.6

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-50"
export BK_EXAMINATION="CTLFireability"
export BK_TOOL="itstools"
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

# this is for BenchKit: explicit launching of the test
echo "====================================================================="
echo " Generated by BenchKit 2-4028"
echo " Executing tool itstools"
echo " Input is Angiogenesis-PT-50, 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 r006-smll-158897515900364"
echo "====================================================================="
echo
echo "--------------------"
echo "preparation of the directory to be used:"

tar xzf /home/mcc/BenchKit/INPUTS/Angiogenesis-PT-50.tgz
mv Angiogenesis-PT-50 execution
cd execution
if [ "CTLFireability" = "ReachabilityDeadlock" ] || [ "CTLFireability" = "UpperBounds" ] || [ "CTLFireability" = "QuasiLiveness" ] || [ "CTLFireability" = "StableMarking" ] || [ "CTLFireability" = "Liveness" ] || [ "CTLFireability" = "OneSafe" ] || [ "CTLFireability" = "StateSpace" ]; then
rm -f GenericPropertiesVerdict.xml
fi
pwd
ls -lh

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
elif [ "CTLFireability" = "ReachabilityDeadlock" ] || [ "CTLFireability" = "QuasiLiveness" ] || [ "CTLFireability" = "StableMarking" ] || [ "CTLFireability" = "Liveness" ] || [ "CTLFireability" = "OneSafe" ] ; then
echo "FORMULA_NAME CTLFireability"
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 ;