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gutsche |
1.1 |
#!/usr/bin/env perl
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##H This drop box agent collects the output from CRAB tasks after the
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##H the task jobs have run to completion. Tasks with jobs in them
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##H should not be passed into this agent until all jobs have completed.
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##H
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##H Usage:
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##H TaskQuery
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##H -state DIRECTORY [-next NEXT] [-wait SECS]
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##H
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##H -state agent state directory, including inbox
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##H -next next agent to pass the drops to; can be given several times
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##H -wait time to wait in seconds between work scans
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gutsche |
1.2 |
##H -mode mode: EGEE or OSG, prevents kill of aborted jobs for EGEE
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gutsche |
1.1 |
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BEGIN {
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use strict; use warnings; $^W=1;
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our $me = $0; $me =~ s|.*/||;
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our $home = $0; $home =~ s|/[^/]+$||; $home ||= "."; $home .= "/../PHEDEX/Toolkit/Common";
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unshift(@INC, $home);
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}
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######################################################################
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use UtilsHelp;
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while (scalar @ARGV) {
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if ($ARGV[0] eq '-state' && scalar @ARGV > 1) {
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shift (@ARGV); $args{DROPDIR}= shift(@ARGV);
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} elsif ($ARGV[0] eq '-next' && scalar @ARGV > 1) {
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shift (@ARGV); push (@{$args{NEXTDIR}}, shift(@ARGV));
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} elsif ($ARGV[0] eq '-wait' && scalar @ARGV > 1) {
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shift (@ARGV); $args{WAITTIME} = shift(@ARGV);
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gutsche |
1.2 |
} elsif ($ARGV[0] eq '-mode' && scalar @ARGV > 1) {
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shift (@ARGV); $args{MODE} = shift(@ARGV);
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gutsche |
1.1 |
} elsif ($ARGV[0] eq '-h') {
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&usage();
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} else {
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last;
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}
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}
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if (@ARGV || !$args{DROPDIR}) {
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die "Insufficient parameters, use -h for help.\n";
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}
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(new TaskCollect (%args))->process();
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######################################################################
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# Routines specific to this agent.
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package TaskCollect; use strict; use warnings; use base 'UtilsAgent';
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use UtilsCommand;
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use UtilsLogging;
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use UtilsTiming;
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sub getTimeSinceStart
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{
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# extract time since start of project in hours
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my ($self, $taskdir) = @_;
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my $time=time();
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# read start time from file in taskdir
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open( FILE, "< $taskdir/TASK_INIT.txt" ) or die "Can't open $taskdir/TASK_INIT.txt : $!";
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my $starttime = 0.0;
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while ( <FILE> ) {
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chomp;
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$starttime = scalar ($_);
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}
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close FILE;
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my $diffsec = $time - $starttime;
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my $diffhours = $diffsec/3600.;
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return $diffhours;
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}
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asciaba |
1.7 |
sub getTimeSinceSubmit
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{
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# extract time since task submission in hours
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my ($self, $taskdir) = @_;
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my $time=time();
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my $diffhours = 0;
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# read start time from file in taskdir
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open( FILE, "< $taskdir/JOB_SUBMIT_LOG.txt" ) or return $diffhours;
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while ( <FILE> ) {
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chomp;
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if ( /^START.*==\s+(\d+)/ ) {
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my $subtime = $1;
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$diffhours = ($time - $subtime) / 3600.;
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last;
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}
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}
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close FILE;
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return $diffhours;
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}
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gutsche |
1.1 |
sub new
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{
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my $proto = shift;
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my $class = ref($proto) || $proto;
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my $self = $class->SUPER::new(@_);
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# OLI 060702
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# deactivate resubmission.
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gutsche |
1.2 |
my %params = (MODE => 'EGEE');
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gutsche |
1.1 |
my %args = (@_);
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map { $self->{$_} = $args{$_} || $params{$_} } keys %params;
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bless $self, $class;
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return $self;
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}
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# Actually process the drop.
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sub processDrop {
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my ($self, $drop) = @_;
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# cmd variable
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my $cmd = "";
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# Sanity checking
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return if (! $self->inspectDrop ($drop));
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# waiting time for too many status checks
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return if (($$self{NEXT_CHECK}{$drop} || 0) > time());
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$$self{NEXT_CHECK}{$drop} = time() + 0;
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delete $self->{BAD}{$drop};
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&timeStart($self->{STARTTIME});
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# Read CRAB confiugration
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my $taskdir = &input ("$self->{WORKDIR}/$drop/task");
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if (! $taskdir || ! -d $taskdir) {
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&alert ("missing task directory in $drop");
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$self->markBad ($drop);
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return;
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}
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# Time to check job status on the task again. Let CRAB do the hard
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# work, then check what it found.
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$cmd = qq{
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cd $taskdir || exit \$?;
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TIMEFORMAT="Timing information in seconds: \%R real, \%U user, \%S system, \%P \%\%";
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(date -u +"START \%Y\%m\%dZ\%H\%M\%S == \%s"; set -x;
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asciaba |
1.5 |
time crab -continue -status; a=\$?; which UpdateOldCrabDb >/dev/null 2>&1 && UpdateOldCrabDb; exit \$a) >> JOB_STATUS_LOG.txt 2>&1};
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gutsche |
1.1 |
if (my $rc = system($cmd)) {
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&alert ("$drop $taskdir: failed to check job status: exit code @{[&runerror($rc)]}, move jobdb out of way");
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# move crab jobs db out of the way to have the jobs not be counted in statistics for project creation (TaskSource)
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$cmd = qq{
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cd $taskdir || exit \$?;
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TIMEFORMAT="Timing information in seconds: \%R real, \%U user, \%S system, \%P \%\%";
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(date -u +"START \%Y\%m\%dZ\%H\%M\%S == \%s"; set -x;
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mv -v crab_*/share/db/jobs crab.db.jobs.old) >> JOB_REMOVE_CRABDIR_FAILED_STATUS_CHECK_LOG.txt 2>&1};
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if (my $rc3 = system($cmd)) {
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&alert ("$drop $taskdir: failed to move crab jobs to crab.db.jobs.old");
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}
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# mark task as finished
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&logmsg("stats: $drop $taskdir @{[&formatElapsedTime($self->{STARTTIME})]} failed checking status");
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&output ("$taskdir/TASK_FINISHED.txt", &mytimeofday () . "\n");
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$self->markBad ($drop);
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return;
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}
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# parse jobdb
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my $f = (<$taskdir/crab_*/share/db/jobs>)[0];
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my @gridids = ();
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my @crabids = ();
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my @jobstat = ();
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foreach my $status (split(/\n/, &input($f) || '')) {
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my @statusarray = split('\|', $status);
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push(@crabids, $statusarray[4]);
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push(@gridids, $statusarray[3]);
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push(@jobstat, $statusarray[1]);
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}
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my $hold = 0;
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# check time between start of project and now
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my $lifetime = $self->getTimeSinceStart("$taskdir");
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asciaba |
1.7 |
# check time from job submission
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my $subtime = $self->getTimeSinceSubmit("$taskdir");
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belforte |
1.6 |
# set time after which all jobs are cleaned and task marked bad
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my $cleanuptime = 31.;
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gutsche |
1.1 |
# set time after which all jobs (running, pending and others) are killed
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belforte |
1.6 |
my $killtime = 30.;
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gutsche |
1.1 |
# set time after which pending and other jobs are killed, running jobs are left running
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my $stoptime = 24.;
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asciaba |
1.7 |
# set time from submission after which the task is cleared if there are still jobs in status Submitted
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my $stucktime = 8.;
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gutsche |
1.1 |
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for (my $i = 0; $i <= $#jobstat; ++$i) {
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# Compute CRAB index and nice label for this job
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my $crabi = $i+1;
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my $joblabel = $gridids[$i];
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$joblabel =~ s/([^-A-Za-z0-9_:.])/sprintf("%%%02x", ord($1))/ge;
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# Determine job status.
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my $status = $jobstat[$i];
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asciaba |
1.7 |
if ($status !~ /^[YHSBCARDKZ]$/) {
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gutsche |
1.1 |
&alert ("$drop $taskdir: unexpected job status `$status' for `$crabi'");
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# kill job
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$cmd = qq{
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cd $taskdir || exit \$?;
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TIMEFORMAT="Timing information in seconds: \%R real, \%U user, \%S system, \%P \%\%";
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(date -u +"START \%Y\%m\%dZ\%H\%M\%S == \%s"; set -x;
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belforte |
1.4 |
time crab -continue -kill '$crabids[$i]'; which CrabStatusAndUpdateOldCrabDb >/dev/null 2>&1 && CrabStatusAndUpdateOldCrabDb) >> JOB_KILL_LOG.txt 2>&1};
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gutsche |
1.1 |
system($cmd);
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next;
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}
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# if job is created but not submitted, submit again, check afterwards, otherwise kill and continue
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if ($status eq 'C') {
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&alert ("$drop $taskdir: job $crabids[$i] not submitted yet, submit now ");
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$cmd = qq{
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cd $taskdir || exit \$?;
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TIMEFORMAT="Timing information in seconds: \%R real, \%U user, \%S system, \%P \%\%";
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(date -u +"START \%Y\%m\%dZ\%H\%M\%S == \%s"; set -x;
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asciaba |
1.5 |
time crab -continue -submit '$crabids[$i]'; a=\$?; which CrabStatusAndUpdateOldCrabDb >/dev/null 2>&1 && CrabStatusAndUpdateOldCrabDb; exit \$a) >> JOB_SUBMIT_LOG.txt 2>&1};
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gutsche |
1.1 |
if (my $rc = system($cmd)) {
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&alert ("$drop $taskdir: failed to submit job $crabids[$i] with exit code @{[&runerror($rc)]}, kill job");
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# kill job
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$cmd = qq{
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cd $taskdir || exit \$?;
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TIMEFORMAT="Timing information in seconds: \%R real, \%U user, \%S system, \%P \%\%";
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| 219 |
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(date -u +"START \%Y\%m\%dZ\%H\%M\%S == \%s"; set -x;
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| 220 |
belforte |
1.4 |
time crab -continue -kill '$crabids[$i]'; which CrabStatusAndUpdateOldCrabDb >/dev/null 2>&1 && CrabStatusAndUpdateOldCrabDb) >> JOB_KILL_LOG.txt 2>&1};
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gutsche |
1.1 |
system($cmd);
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}
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next;
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}
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belforte |
1.6 |
if ( $lifetime >= $cleanuptime ) {
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&alert ("$drop $taskdir: task kill did not work in time");
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| 228 |
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# move crab jobs db out of the way to have the jobs not be counted in statistics for project creation (TaskSource)
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$cmd = qq{
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| 230 |
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cd $taskdir || exit \$?;
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TIMEFORMAT="Timing information in seconds: \%R real, \%U user, \%S system, \%P \%\%";
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| 232 |
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(date -u +"START \%Y\%m\%dZ\%H\%M\%S == \%s"; set -x;
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| 233 |
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mv -v crab_*/share/db/jobs crab.db.jobs.old) >> JOB_REMOVE_CRABDIR_KILL_FAILED.txt 2>&1};
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if (my $rc = system($cmd)) {
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| 235 |
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&alert ("$drop $taskdir: failed to move crab jobs to crab.db.jobs.old");
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| 236 |
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}
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| 237 |
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# mark task as finished
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| 238 |
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&output ("$taskdir/TASK_FINISHED.txt", &mytimeofday () . "\n");
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| 239 |
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$self->markBad ($drop);
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| 240 |
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return;
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| 241 |
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}
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| 242 |
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| 243 |
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elsif ( $lifetime >= $killtime ) {
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| 244 |
gutsche |
1.1 |
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| 245 |
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# That's all for cleared jobs.
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| 246 |
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next if ($status eq 'Y');
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| 247 |
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| 248 |
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# That's all for killed jobs.
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| 249 |
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next if ($status eq 'K');
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| 250 |
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| 251 |
belforte |
1.3 |
# Retrieve job logging information if abort
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| 252 |
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if ($status eq 'A') {
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| 253 |
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my $outfile = "JOB_HISTORY.$crabi.$status.$joblabel.txt";
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| 254 |
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if (! -f "$taskdir/$outfile") {
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| 255 |
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$cmd = qq{
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| 256 |
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cd $taskdir || exit \$?;
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| 257 |
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TIMEFORMAT="Timing information in seconds: \%R real, \%U user, \%S system, \%P \%\%";
|
| 258 |
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(date -u +"START \%Y\%m\%dZ\%H\%M\%S == \%s"; set -x;
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| 259 |
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time crab -continue -postMortem '$crabids[$i]') > $outfile 2>&1};
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| 260 |
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system($cmd);
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| 261 |
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}
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| 262 |
asciaba |
1.7 |
next;
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| 263 |
gutsche |
1.1 |
}
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| 264 |
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| 265 |
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# get output for job if done
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| 266 |
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if ($status eq 'D') {
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| 267 |
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next;
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| 268 |
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}
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| 269 |
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| 270 |
asciaba |
1.7 |
# Useless to try to kill Submitted jobs
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| 271 |
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next if ($status eq 'B');
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| 272 |
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| 273 |
gutsche |
1.1 |
# kill the rest
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| 274 |
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$cmd = qq{
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| 275 |
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cd $taskdir || exit \$?;
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| 276 |
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TIMEFORMAT="Timing information in seconds: \%R real, \%U user, \%S system, \%P \%\%";
|
| 277 |
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(date -u +"START \%Y\%m\%dZ\%H\%M\%S == \%s"; set -x;
|
| 278 |
belforte |
1.4 |
time crab -continue -kill '$crabids[$i]'; which CrabStatusAndUpdateOldCrabDb >/dev/null 2>&1 && CrabStatusAndUpdateOldCrabDb) >> JOB_KILL_LOG.txt 2>&1};
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| 279 |
gutsche |
1.1 |
system($cmd);
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| 280 |
belforte |
1.6 |
# come back to verify it was killed
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| 281 |
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$hold = 1;
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| 282 |
gutsche |
1.1 |
next;
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| 283 |
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| 284 |
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} elsif ( $lifetime >= $stoptime ) {
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| 285 |
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| 286 |
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# keep the running
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| 287 |
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if ($status =~ /^[R]$/) {
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| 288 |
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$hold = 1;
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| 289 |
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next;
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| 290 |
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}
|
| 291 |
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| 292 |
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# That's all for cleared jobs.
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| 293 |
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next if ($status eq 'Y');
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| 294 |
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| 295 |
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# That's all for killed jobs.
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| 296 |
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next if ($status eq 'K');
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| 297 |
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| 298 |
belforte |
1.3 |
# Retrieve job logging information if abort
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| 299 |
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if ($status eq 'A') {
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| 300 |
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my $outfile = "JOB_HISTORY.$crabi.$status.$joblabel.txt";
|
| 301 |
|
|
if (! -f "$taskdir/$outfile") {
|
| 302 |
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|
$cmd = qq{
|
| 303 |
|
|
cd $taskdir || exit \$?;
|
| 304 |
|
|
TIMEFORMAT="Timing information in seconds: \%R real, \%U user, \%S system, \%P \%\%";
|
| 305 |
|
|
(date -u +"START \%Y\%m\%dZ\%H\%M\%S == \%s"; set -x;
|
| 306 |
|
|
time crab -continue -postMortem '$crabids[$i]') > $outfile 2>&1};
|
| 307 |
|
|
system($cmd);
|
| 308 |
|
|
}
|
| 309 |
asciaba |
1.7 |
next;
|
| 310 |
gutsche |
1.1 |
}
|
| 311 |
|
|
# get output for job if done
|
| 312 |
|
|
if ($status eq 'D') {
|
| 313 |
|
|
next;
|
| 314 |
|
|
}
|
| 315 |
|
|
|
| 316 |
asciaba |
1.7 |
# Useless to try to kill Submitted jobs
|
| 317 |
|
|
next if ($status eq 'B');
|
| 318 |
|
|
|
| 319 |
gutsche |
1.1 |
# kill the rest
|
| 320 |
|
|
$cmd = qq{
|
| 321 |
|
|
cd $taskdir || exit \$?;
|
| 322 |
|
|
TIMEFORMAT="Timing information in seconds: \%R real, \%U user, \%S system, \%P \%\%";
|
| 323 |
|
|
(date -u +"START \%Y\%m\%dZ\%H\%M\%S == \%s"; set -x;
|
| 324 |
belforte |
1.4 |
time crab -continue -kill '$crabids[$i]'; which CrabStatusAndUpdateOldCrabDb >/dev/null 2>&1 && CrabStatusAndUpdateOldCrabDb) >> JOB_KILL_LOG.txt 2>&1};
|
| 325 |
gutsche |
1.1 |
system($cmd);
|
| 326 |
|
|
next;
|
| 327 |
|
|
|
| 328 |
|
|
} else {
|
| 329 |
|
|
|
| 330 |
asciaba |
1.7 |
# Invalidate the task if after some time there are still jobs in status Submitted
|
| 331 |
|
|
if ($subtime >= $stucktime && $status eq 'B') {
|
| 332 |
|
|
&alert ("$drop $taskdir: jobs stuck in Submitted status");
|
| 333 |
|
|
# move crab jobs db out of the way to have the jobs not be counted in statistics for project creation (TaskSource)
|
| 334 |
|
|
$cmd = qq{
|
| 335 |
|
|
cd $taskdir || exit \$?;
|
| 336 |
|
|
TIMEFORMAT="Timing information in seconds: \%R real, \%U user, \%S system, \%P \%\%";
|
| 337 |
|
|
(date -u +"START \%Y\%m\%dZ\%H\%M\%S == \%s"; set -x;
|
| 338 |
|
|
mv -v crab_*/share/db/jobs crab.db.jobs.old) >> JOB_REMOVE_JOB_STATUS_STUCK.txt 2>&1};
|
| 339 |
|
|
if (my $rc = system($cmd)) {
|
| 340 |
|
|
&alert ("$drop $taskdir: failed to move crab jobs to crab.db.jobs.old");
|
| 341 |
|
|
}
|
| 342 |
|
|
# mark task as finished
|
| 343 |
|
|
&output ("$taskdir/TASK_FINISHED.txt", &mytimeofday () . "\n");
|
| 344 |
|
|
$self->markBad($drop);
|
| 345 |
|
|
return;
|
| 346 |
|
|
}
|
| 347 |
|
|
|
| 348 |
|
|
|
| 349 |
gutsche |
1.1 |
# Process the easy cases.
|
| 350 |
asciaba |
1.7 |
if ($status =~ /^[BSR]$/) {
|
| 351 |
gutsche |
1.1 |
$hold = 1;
|
| 352 |
|
|
next;
|
| 353 |
|
|
}
|
| 354 |
|
|
|
| 355 |
|
|
# That's all for cleared jobs.
|
| 356 |
|
|
next if ($status eq 'Y');
|
| 357 |
|
|
|
| 358 |
|
|
# That's all for killed jobs.
|
| 359 |
|
|
next if ($status eq 'K');
|
| 360 |
|
|
|
| 361 |
belforte |
1.3 |
# Retrieve job logging information if abort
|
| 362 |
|
|
if ($status eq 'A') {
|
| 363 |
|
|
my $outfile = "JOB_HISTORY.$crabi.$status.$joblabel.txt";
|
| 364 |
|
|
if (! -f "$taskdir/$outfile") {
|
| 365 |
|
|
$cmd = qq{
|
| 366 |
|
|
cd $taskdir || exit \$?;
|
| 367 |
|
|
TIMEFORMAT="Timing information in seconds: \%R real, \%U user, \%S system, \%P \%\%";
|
| 368 |
|
|
(date -u +"START \%Y\%m\%dZ\%H\%M\%S == \%s"; set -x;
|
| 369 |
|
|
time crab -continue -postMortem '$crabids[$i]') > $outfile 2>&1};
|
| 370 |
|
|
system($cmd);
|
| 371 |
|
|
}
|
| 372 |
gutsche |
1.1 |
}
|
| 373 |
|
|
|
| 374 |
|
|
# get output for job if done
|
| 375 |
|
|
if ($status eq 'D') {
|
| 376 |
|
|
next;
|
| 377 |
|
|
}
|
| 378 |
|
|
|
| 379 |
gutsche |
1.2 |
# kill the rest if mode OSG
|
| 380 |
|
|
if ( $self->{MODE} eq "OSG" ) {
|
| 381 |
|
|
$cmd = qq{
|
| 382 |
gutsche |
1.1 |
cd $taskdir || exit \$?;
|
| 383 |
|
|
TIMEFORMAT="Timing information in seconds: \%R real, \%U user, \%S system, \%P \%\%";
|
| 384 |
|
|
(date -u +"START \%Y\%m\%dZ\%H\%M\%S == \%s"; set -x;
|
| 385 |
belforte |
1.4 |
time crab -continue -kill '$crabids[$i]'; which CrabStatusAndUpdateOldCrabDb >/dev/null 2>&1 && CrabStatusAndUpdateOldCrabDb) >> JOB_KILL_LOG.txt 2>&1};
|
| 386 |
gutsche |
1.2 |
system($cmd);
|
| 387 |
|
|
next;
|
| 388 |
|
|
}
|
| 389 |
gutsche |
1.1 |
|
| 390 |
|
|
}
|
| 391 |
|
|
}
|
| 392 |
|
|
|
| 393 |
|
|
# Check if we are supposed to hold this task.
|
| 394 |
|
|
return if $hold;
|
| 395 |
|
|
|
| 396 |
|
|
&touch ("$self->{WORKDIR}/$drop/done");
|
| 397 |
|
|
delete $$self{NEXT_CHECK}{$drop};
|
| 398 |
|
|
$self->relayDrop ($drop);
|
| 399 |
|
|
&logmsg("stats: $drop $taskdir @{[&formatElapsedTime($self->{STARTTIME})]} success");
|
| 400 |
|
|
}
|
