[cig-commits] r20340 - in cs/batlab/trunk: citcom/scripts citcom/scripts/svn relax/scripts relax/scripts/hg specfem specfem/scripts specfem/scripts/svn

[alex at geodynamics.org]

Author: alex
Date: 2012-06-08 15:33:25 -0700 (Fri, 08 Jun 2012)
New Revision: 20340

Added:
   cs/batlab/trunk/specfem/scripts/svn/
   cs/batlab/trunk/specfem/scripts/svn/build.sh
   cs/batlab/trunk/specfem/scripts/svn/reference
   cs/batlab/trunk/specfem/scripts/svn/run
   cs/batlab/trunk/specfem/scripts/svn/simple-make.run-spec
   cs/batlab/trunk/specfem/scripts/svn/simple-make.scp
   cs/batlab/trunk/specfem/scripts/svn/svn-make.svn
Removed:
   cs/batlab/trunk/relax/scripts/svn/
   cs/batlab/trunk/specfem/specfem/
Modified:
   cs/batlab/trunk/citcom/scripts/README.txt
   cs/batlab/trunk/citcom/scripts/svn/simple-make.run-spec
   cs/batlab/trunk/relax/scripts/README
   cs/batlab/trunk/relax/scripts/hg/simple-make.run-spec
   cs/batlab/trunk/specfem/scripts/README.txt
Log:
specfem should now be finished, in addition to citcom and relax.
However, as of 6/8/12, we are still waiting on batlab to implement mpi on nodes other than ubuntu for specfem and citcom
Documentation in the scripts directory for each has been updated, no testing on gale is scheduled as of today

directories should be cleaned and organized



Modified: cs/batlab/trunk/citcom/scripts/README.txt
===================================================================
--- cs/batlab/trunk/citcom/scripts/README.txt	2012-06-08 22:17:52 UTC (rev 20339)
+++ cs/batlab/trunk/citcom/scripts/README.txt	2012-06-08 22:33:25 UTC (rev 20340)
@@ -1,9 +1,12 @@
-svn contains scripts for batlab testing using svn to get the source
+scripts/svn contains scripts for batlab testing using svn to get the source
 wget contains scripts for batlab testing using wget to get the source
 
-svn scripts are up-to date
+To run the tests, use the executable scripts/svn/run, which nmi_submits the run specifications on the batlab.
+svn scripts are up-to date and are running as cronjobs on the batlab.
 wget scripts may be copies of svn scripts, but haven't been updated as they are low priority and were used as preliminary tests
 
 svn script build.sh contains not only the instructions for installation and compilation, but tests with debugging markers, which show up in the batlab error messages.  If there is a problem, notification emails are sent out to emails listed in svn/simple-make.run-spec
 
+NOTE: citcom requires MPI which is not on the batlab as of 6/8/2012.  As of now we are simply building a common script, but expecting only to test on ubuntu 10.04.  We are beginning to build our own set of virtual machines on which to test, so that we can install things like MPI as needed.
+
 Currently, the scripts run once a day at midnight.  

Modified: cs/batlab/trunk/citcom/scripts/svn/simple-make.run-spec
===================================================================
--- cs/batlab/trunk/citcom/scripts/svn/simple-make.run-spec	2012-06-08 22:17:52 UTC (rev 20339)
+++ cs/batlab/trunk/citcom/scripts/svn/simple-make.run-spec	2012-06-08 22:33:25 UTC (rev 20340)
@@ -1,4 +1,4 @@
-project = cig
+project = cigCITCOM
 run_type = build
 inputs = simple-make.scp, svn-make.svn
 remote_task = build.sh

Modified: cs/batlab/trunk/relax/scripts/README
===================================================================
--- cs/batlab/trunk/relax/scripts/README	2012-06-08 22:17:52 UTC (rev 20339)
+++ cs/batlab/trunk/relax/scripts/README	2012-06-08 22:33:25 UTC (rev 20340)
@@ -1,3 +1,9 @@
 Relax uses mercurial (hg).
 
-The build.sh script has the test in it as well, it runs relax, finds the power in the 009 iteration and tests that agains the reference value 7.72E-01.  If there is a problem, it sends an email.
\ No newline at end of file
+Working model scripts are in the scripts/hg/* directory.
+To run the tests, use the executable scripts/hg/run, which nmi_submits the run specifications on the batlab.
+The hg scripts are currently up to date and are running as cronjobs on batlab
+
+The build.sh script has the build, run and test in it.  It runs relax, finds the power in the 009 iteration and tests that agains the reference value 7.72E-01.  If there is a problem, it sends an email.
+
+currently scripts are run once a day at 1am.
\ No newline at end of file

Modified: cs/batlab/trunk/relax/scripts/hg/simple-make.run-spec
===================================================================
--- cs/batlab/trunk/relax/scripts/hg/simple-make.run-spec	2012-06-08 22:17:52 UTC (rev 20339)
+++ cs/batlab/trunk/relax/scripts/hg/simple-make.run-spec	2012-06-08 22:33:25 UTC (rev 20340)
@@ -1,8 +1,8 @@
 run_type = build
 inputs = simple-make.scp, hg-make.hg
 remote_task = build.sh
-project = cig
-platforms = x86_64_ubuntu_10.04.4, x86_64_sol_5.11, x86_64_rhap_6.2, x86_64_sl_6.2, x86_64_deb_6.0, x86_64_macos_10.7, x86_freebsd_7.4, x86_64_fedora_16, x86_64_fedora_15
+project = cigRELAX
+platforms = x86_64_ubuntu_10.04.4, x86_64_sol_5.11, x86_64_rhap_6.2, x86_64_sl_6.2, x86_64_deb_6.0, x86_64_fedora_16, x86_64_fedora_15
 
 cron_hour = 1
 cron_minute = 0

Modified: cs/batlab/trunk/specfem/scripts/README.txt
===================================================================
--- cs/batlab/trunk/specfem/scripts/README.txt	2012-06-08 22:17:52 UTC (rev 20339)
+++ cs/batlab/trunk/specfem/scripts/README.txt	2012-06-08 22:33:25 UTC (rev 20340)
@@ -1,9 +1,10 @@
 svn contains scripts for batlab testing using svn to get the source
-wget contains scripts for batlab testing using wget to get the source
 
-svn scripts are up-to date
-wget scripts may be copies of svn scripts, but haven't been updated as they are low priority and were used as preliminary tests
+To run the tests, use the executable scripts/svn/run, which nmi_submits the run specifications on the batlab.
+svn scripts are up-to date and are running as cronjobs on the batlab.
 
 svn script build.sh contains not only the instructions for installation and compilation, but tests with debugging markers, which show up in the batlab error messages.  If there is a problem, notification emails are sent out to emails listed in svn/simple-make.run-spec
 
+NOTE: specfem_Globe3D requires MPI which is not on the batlab as of 6/8/2012.  As of now we are simply building a common script, but expecting only to test on ubuntu 10.04.  We are beginning to build our own set of virtual machines on which to test, so that we can install things like MPI as needed.
+
 Currently, the scripts run once a day at midnight.  

Added: cs/batlab/trunk/specfem/scripts/svn/build.sh
===================================================================
--- cs/batlab/trunk/specfem/scripts/svn/build.sh	                        (rev 0)
+++ cs/batlab/trunk/specfem/scripts/svn/build.sh	2012-06-08 22:33:25 UTC (rev 20340)
@@ -0,0 +1,59 @@
+#!/bin/bash
+#
+# We don't proceed unless the preceding step succeeded, and we return the success or failure of the sequence.
+# specfem requires that an mpd daemon be running (assume that it is already)
+
+# installs and runs citcom, stores results of flux in flux.txt
+# download the source of only the necessary folders
+cd specfem
+svn upgrade			# for opensol5.11, which uses svn 1.7 (the repository is svn 1.6, and it causes some problems)
+svn update --set-depth infinity setup src DATA
+# download just the regional greece example
+cd EXAMPLES
+svn update --set-depth immediates
+svn update --set-depth infinity regional_Greece*
+cd ..
+# configure, make and test
+./configure \
+    && make all \
+    && cd EXAMPLES/regional_Greece_small/ \
+    && ./process.sh
+
+if [ $? != 0 ]			
+then
+    echo "problem building and testing"
+    exit 1
+fi
+
+# run a script to parse the file input and to determine whether an email needs to be sent
+results="OUTPUT_FILES/BEKI.YL.MXE.sem.ascii"
+awk '{print (/^\// ? $1 : $2) }' $results > temp
+length=`cat temp | wc -l`
+email=0				# default to not send email
+
+# create a file of the absolute value of the percentage differences, multiplied by 100000
+paste temp ../../../reference | awk '{diff=($1-$2)/$2*100000; if(diff<0) diff=-diff; printf "%1.0f\n", diff}' > test 
+
+for ((c=1; c<=$length; c++))
+do
+    val=`head -n $c test | tail -n 1`
+    echo "this is diff: $val"	# debugging
+    if [ $val -gt 1 ] 
+    then
+	email=$c;	# we need to send an email
+	echo "problem at line $c of results" >> errors 
+    fi
+done
+
+# append the hostname to the resutls file, append the errors, and append the date and time of the run.
+hostname >> $results \
+&& cat errors >> $results \
+    && date >> $results
+
+# send an email if it needs to be sent with the resulting data, platform/date, and lines containing errors
+if [ $email != 0 ]
+then
+    cat $results | mailx -s ErrorOverBound alex at geodynamics.org, emheien at geodynamics.org    # send email containing flux.txt
+fi
+
+exit $?
\ No newline at end of file


Property changes on: cs/batlab/trunk/specfem/scripts/svn/build.sh
___________________________________________________________________
Name: svn:executable
   + *

Added: cs/batlab/trunk/specfem/scripts/svn/reference
===================================================================
--- cs/batlab/trunk/specfem/scripts/svn/reference	                        (rev 0)
+++ cs/batlab/trunk/specfem/scripts/svn/reference	2012-06-08 22:33:25 UTC (rev 20340)
@@ -0,0 +1,1200 @@
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Added: cs/batlab/trunk/specfem/scripts/svn/run
===================================================================
--- cs/batlab/trunk/specfem/scripts/svn/run	                        (rev 0)
+++ cs/batlab/trunk/specfem/scripts/svn/run	2012-06-08 22:33:25 UTC (rev 20340)
@@ -0,0 +1,2 @@
+#!/bin/sh
+nmi_submit ~/scripts/simple-make.run-spec
\ No newline at end of file


Property changes on: cs/batlab/trunk/specfem/scripts/svn/run
___________________________________________________________________
Name: svn:executable
   + *

Added: cs/batlab/trunk/specfem/scripts/svn/simple-make.run-spec
===================================================================
--- cs/batlab/trunk/specfem/scripts/svn/simple-make.run-spec	                        (rev 0)
+++ cs/batlab/trunk/specfem/scripts/svn/simple-make.run-spec	2012-06-08 22:33:25 UTC (rev 20340)
@@ -0,0 +1,10 @@
+project = cigSPECFEM
+run_type = build
+inputs = simple-make.scp, svn-make.svn
+remote_task = build.sh
+platforms = x86_64_ubuntu_10.04.4, x86_64_sol_5.11, x86_64_rhap_6.2, x86_64_sl_6.2, x86_64_deb_6.0, x86_64_macos_10.7, x86_freebsd_7.4, x86_64_fedora_16, x86_64_fedora_15, x86_64_deb_5.0, x86_64_macos_10.7, x86_64_opensuse_11.4, x86_64_rhap_5.7, x86_sl_5.8
+
+cron_hour = 0
+cron_minute = 0
+
+notify = alex at geodynamics.org, emheien at geodynamics.org
\ No newline at end of file

Added: cs/batlab/trunk/specfem/scripts/svn/simple-make.scp
===================================================================
--- cs/batlab/trunk/specfem/scripts/svn/simple-make.scp	                        (rev 0)
+++ cs/batlab/trunk/specfem/scripts/svn/simple-make.scp	2012-06-08 22:33:25 UTC (rev 20340)
@@ -0,0 +1,2 @@
+method = scp
+scp_file = ~/scripts/*
\ No newline at end of file

Added: cs/batlab/trunk/specfem/scripts/svn/svn-make.svn
===================================================================
--- cs/batlab/trunk/specfem/scripts/svn/svn-make.svn	                        (rev 0)
+++ cs/batlab/trunk/specfem/scripts/svn/svn-make.svn	2012-06-08 22:33:25 UTC (rev 20340)
@@ -0,0 +1,8 @@
+method = svn
+url = http://geodynamics.org/svn/cig/seismo/3D/SPECFEM3D_GLOBE/trunk specfem --depth immediates
+
+#--depth immediates saves a large amount of download time for downloading the source.  In build.sh, we will download only the source files that are necessary for compilation and running our specified runs
+
+# method = url
+# url = www.geodynamics.org/cig/software/citcoms/CitcomS-3.2.0.tar.gz
+# untar = true
\ No newline at end of file