Index: sm/trunk-jpl/scripts/jenkins.sh
===================================================================
--- /issm/trunk-jpl/scripts/jenkins.sh	(revision 16605)
+++ 	(revision )
@@ -1,328 +1,0 @@
-#!/bin/bash
-#This bash script calls the nightlyrun.m matlab file to run our nightly test decks. 
-#It then processes the results and sends an email to the Ice developpers.
-
-#some functions
-function timer() #{{{
-{
-	if [[ $# -eq 0 ]]; then
-		echo $(date '+%s')
-	else
-		local  stime=$1
-		etime=$(date '+%s')
-
-		if [[ -z "$stime" ]]; then stime=$etime; fi
-
-		dt=$((etime - stime))
-		ds=$((dt % 60))
-		dm=$(((dt / 60) % 60))
-		dh=$((dt / 3600))
-		printf '%d:%02d:%02d' $dh $dm $ds
-	fi
-} #}}}
-function todaydate() #{{{
-{
-	suffix=`date | awk '{printf("%s-%s-%s  %s",$2,$3,$6,$4);}'`			 
-	echo $suffix;			 
-} #}}}
-function host_name() #{{{
-{
-	#return host name depending on the OS
-	if [ "$1" = "win7" ] 
-	then
-		HOST_NAME=`hostname | sed 's/-//g'`;
-	else
-		HOST_NAME=`hostname -s | sed 's/-//g'`;
-	fi
-	echo $HOST_NAME;
-} #}}}
-function pause() #{{{
-{
-pid=`ps aux -W | grep $1 | awk '{printf("%s\n",$1);}'`
-
-while [ -n "$pid" ]
-do
-	pid=`ps aux -W | grep $1 | awk '{printf("%s\n",$1);}'`
-done
-}
-#}}}
-
-#Get configuration
-#Source config file{{{
-if [ $# -ne 1 ];
-then
-	#no config file specified: exit
-	echo "no config file specified. Exiting..." >&2 # Error message to stderr.
-	exit 1
-fi
-if [ ! -f "$1" ]
-then
-	echo "File $1 not found!" >&2   # Error message to stderr.
-	exit 1
-fi 
-source $1;
-#}}}
-#Export ISSM_* variables{{{
-export ISSM_DIR
-export ISSM_ARCH
-#}}}
-#Initialize variables {{{
-TODAY=$(todaydate);
-HOST_NAME=$(host_name $OS);
-OS=$(uname -s)
-START_TIME=$(timer);
-ISSM_RELEASE=$(basename $(echo $REPOSITORY));
-USER=$(whoami);
-INIT_PATH=$(pwd);
-#}}}
-
-#Installation ISSM
-#create matlab's installation sript {{{
-cat << END > $ISSM_DIR/externalpackages/matlab/install.sh
-#!/bin/bash
-rm -rf install
-ln -s $MATLAB_PATH install
-END
-#}}}
-#install/copy/none external packages    (ISSM_EXTERNALPACKAGES){{{
-if [ "$ISSM_EXTERNALPACKAGES" == "install" ]
-then
-	
-	cd $ISSM_DIR/externalpackages
-
-	#number of packages: 
-	NUMPACKAGES=$(($(echo $EXTERNALPACKAGES | wc -w )/2))
-
-	for ((i=1;i<=$NUMPACKAGES;i++))
-	do
-		NUM1=$((2*$i-1))
-		NUM2=$((2*$i))
-		PACKAGENAME=$(echo $EXTERNALPACKAGES | cut -d " " -f $NUM1-$NUM1)
-		PACKAGEINST=$(echo $EXTERNALPACKAGES | cut -d " " -f $NUM2-$NUM2)
-
-		cd $PACKAGENAME
-		echo "======================================================";
-		echo "       Installing $PACKAGENAME                        ";
-		echo "======================================================";
-		./$PACKAGEINST |  tee compil.log
-		if [ $? -ne 0 ]; then
-			echo "======================================================";
-			echo "    ERROR: installation of $PACKAGENAME failed        ";
-			echo "======================================================";
-		fi
-		source $ISSM_DIR/etc/environment.sh
-		cd ..
-	done
-
-elif [ "$ISSM_EXTERNALPACKAGES" == "copy" ]
-then
-	cd $ISSM_DIR
-	rm -rf externalpackages
-	cp -Rf $EXTERNALPACKAGESDIR ./
-elif [ "$ISSM_EXTERNALPACKAGES" == "link" ]
-then
-	cd $ISSM_DIR
-	rm -rf externalpackages
-	ln -s  $EXTERNALPACKAGESDIR  .
-elif [ "$ISSM_EXTERNALPACKAGES" == "none" ]
-then
-	echo "Skipping external packages installation"
-else
-	echo "ISSM_EXTERNALPACKAGES supported values are: install, copy and none. Exiting..." >&2 # Error message to stderr.
-	exit 1
-fi
-source $ISSM_DIR/etc/environment.sh
-#}}}
-#ISSM compilation yes/no                (ISSM_COMPILATION) {{{
-if [ "$ISSM_COMPILATION" == "yes" ]
-then
-	cd $ISSM_DIR
-	make uninstall
-	make clean
-	make distclean
-	./scripts/automakererun.sh
-	cat > configure.sh << EOF
-./configure $ISSM_CONFIG
-EOF
-	chmod 700 configure.sh
-	./configure.sh
-
-	#4: compile and install ISSM
-	if [ $NUMCPUS_INSTALL -gt 1 ]
-	then
-		echo "Making with " $NUMCPUS_INSTALL " cpus"
-		make -j $NUMCPUS_INSTALL install
-	else
-		make install
-	fi
-elif [ "$ISSM_COMPILATION" == "no" ]
-then
-	echo "Skipping ISSM compilation"
-else
-	echo "ISSM_COMPILATION supported values are: yes and no. Exiting..." >&2 # Error message to stderr.
-	exit 1
-fi
-#}}}
-
-#Prepare info.log
-#{{{
-rm -rf $ISSM_DIR/nightlylog
-mkdir  $ISSM_DIR/nightlylog
-INSTALL_TIME=$(timer)
-ELAPSED=$(timer $START_TIME)
-VERSION=$(svnversion $ISSM_DIR)
-cat << END > $ISSM_DIR/nightlylog/info.log
-name:      $(echo $NAME)
-today:     $(echo $TODAY)
-user:      $(echo $USER)
-host:      $(echo $HOST_NAME)
-OS:        $(echo $OS)
-release:   $(echo $ISSM_RELEASE)
-init_path: $(echo $INIT_PATH)
-is_matlab: $(echo $MATLAB_TEST)
-is_python: $(echo $PYTHON_TEST)
-elapsed_install: $(echo $ELAPSED)
-version: $(echo $VERSION)
-END
-#}}}
-
-#matlab tests
-if [ $MATLAB_TEST -eq 1 ]; then
-#Launch all tests on different cpus {{{
-MATLAB_START_TIME=$(timer);
-for (( i=1;i<=$NUMCPUS_RUN;i++ ))
-do
-	#Launch matlab and the nightly run script
-	cat > $ISSM_DIR/nightlylog/matlab_run$i.m << EOF
-	warning off %necessary to avoid a info.log of several Go for parallel runs
-	try,
-	$(if [ "$MATLAB_NROPTIONS" = ""  ]
-	then
-		echo "runme('output','nightly','rank',$i,'numprocs',$NUMCPUS_RUN);"
-	else
-		echo "runme($MATLAB_NROPTIONS,'output','nightly','rank',$i,'numprocs',$NUMCPUS_RUN);"
-	fi
-	)
-	catch me,
-		%An error occured, get report and exit
-		message=getReport(me)
-		directory=strsplit(pwd,'/');
-		fid=fopen([issmdir '/nightlylog/matlaberror.log'], 'at');
-		fprintf(fid,'\nMatlab error occured in: %s\n\n',directory{end});
-		fprintf(fid,'%s',message);
-		fclose(fid);
-	end
-	disp('MATLABEXITEDCORRECTLY');
-	exit
-EOF
-	cd $ISSM_DIR/test/NightlyRun
-	matlab -nojvm -nosplash -r "addpath $ISSM_DIR/src/m/dev; devpath; addpath $ISSM_DIR/nightlylog/; matlab_run$i" -logfile $ISSM_DIR/nightlylog/matlab_log$i.log &
-done
-
-#wait until matlab closes
-if [ "$OS" = "win7" ]; then
-	pause MATLAB
-else
-	wait
-fi
-
-#concatenate reports
-cd $ISSM_DIR/nightlylog/
-rm matlab_log.log
-for (( i=1;i<=$NUMCPUS_RUN;i++ ))
-do
-	cat matlab_log$i.log >> matlab_log.log
-done
-#}}}
-#Complete info.log {{{
-if [ $(cat matlab_log.log | grep "MATLABEXITEDCORRECTLY" | wc -l) -eq $NUMCPUS_RUN ]
-then
-	MATLABCRASH=0
-else
-	MATLABCRASH=1
-fi
-ELAPSED=$(timer $MATLAB_START_TIME)
-cat << END >>  $ISSM_DIR/nightlylog/info.log
-elapsed_matlab: $(echo $ELAPSED)
-matlab_crash:   $(echo $MATLABCRASH)
-END
-#}}}
-fi
-
-#python tests
-if [ $PYTHON_TEST -eq 1 ]; then
-#Launch all tests on different cpus {{{
-PYTHON_START_TIME=$(timer);
-export PYTHONSTARTUP=$ISSM_DIR/src/m/dev/devpath.py
-for (( i=1;i<=$NUMCPUS_RUN;i++ ))
-do
-	cd $ISSM_DIR/test/NightlyRun
-	./runme.py --output=nightly --rank=$i --numprocs=$NUMCPUS_RUN $PYTHON_NROPTIONS 2>&1 > $ISSM_DIR/nightlylog/python_log$i.log &
-done
-
-#wait until python closes
-if [ "$OS" = "win7" ]; then
-	pause MATLAB
-else
-	wait
-fi
-
-#concatenate reports
-cd $ISSM_DIR/nightlylog/
-rm python_log.log
-for (( i=1;i<=$NUMCPUS_RUN;i++ ))
-do
-	cat python_log$i.log >> python_log.log
-done
-#}}}
-#Complete info.log {{{
-if [ $(cat python_log.log | grep "PYTHONEXITEDCORRECTLY" | wc -l) -eq $NUMCPUS_RUN ]
-then
-	PYTHONCRASH=0
-else
-	PYTHONCRASH=1
-fi
-ELAPSED=$(timer $PYTHON_START_TIME)
-cat << END >>  $ISSM_DIR/nightlylog/info.log
-elapsed_python: $(echo $ELAPSED)
-python_crash:   $(echo $PYTHONCRASH)
-END
-#}}}
-fi
-
-#complete info.log
-#{{{
-ELAPSED=$(timer $START_TIME)
-cat << END >>  $ISSM_DIR/nightlylog/info.log
-elapsed_total:  $(echo $ELAPSED)
-END
-#}}}
-
-#Send Report
-#Build html report {{{
-cd $ISSM_DIR/nightlylog/
-sh ../scripts/report.sh
-echo "html report located in $ISSM_DIR/nightlylog/report.html"
-#}}}
-#send mail if requested                  (SKIPMAIL) {{{
-if [ "$SKIPMAIL" != "yes" ]
-then
-	echo "sending report..."
-	for i in `echo $MAILINGLIST`; do
-
-cat - $ISSM_DIR/nightlylog/report.html <<HERE | /usr/lib/sendmail  -oi -t
-From: "ISSM Nightly run" <$EMAIL_ADRESS>
-To: $i
-Subject: ISSM nightly runs report: $NAME
-Mime-Version: 1.0
-Content-Type: text/html
-HERE
-	done
-fi
-#}}}
-
-#remove lock file
-#{{{
-cd $ISSM_DIR/../
-rm NIGHTLYLOCK
-#}}}