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Revision 1.2 - (download) (as text) (annotate)
Tue Oct 10 18:37:14 2006 UTC (13 years, 5 months ago) by olson
Branch: MAIN
CVS Tags: mgrast_dev_08112011, rast_rel_2009_05_18, mgrast_dev_08022011, rast_rel_2014_0912, rast_rel_2008_06_18, myrast_rel40, rast_rel_2008_06_16, mgrast_dev_05262011, rast_rel_2008_12_18, mgrast_dev_04082011, rast_rel_2008_07_21, rast_rel_2010_0928, rast_2008_0924, mgrast_version_3_2, mgrast_dev_12152011, rast_rel_2008_04_23, mgrast_dev_06072011, rast_rel_2008_09_30, rast_rel_2009_0925, rast_rel_2010_0526, rast_rel_2014_0729, mgrast_dev_02212011, rast_rel_2010_1206, mgrast_release_3_0, mgrast_dev_03252011, rast_rel_2010_0118, mgrast_rel_2008_0924, mgrast_rel_2008_1110_v2, rast_rel_2009_02_05, rast_rel_2011_0119, mgrast_rel_2008_0625, mgrast_release_3_0_4, mgrast_release_3_0_2, mgrast_release_3_0_3, mgrast_release_3_0_1, mgrast_dev_03312011, mgrast_release_3_1_2, mgrast_release_3_1_1, mgrast_release_3_1_0, mgrast_dev_04132011, rast_rel_2008_10_09, mgrast_dev_04012011, rast_release_2008_09_29, mgrast_rel_2008_0806, mgrast_rel_2008_0923, mgrast_rel_2008_0919, rast_rel_2009_07_09, rast_rel_2010_0827, mgrast_rel_2008_1110, myrast_33, rast_rel_2011_0928, rast_rel_2008_09_29, mgrast_rel_2008_0917, rast_rel_2008_10_29, mgrast_dev_04052011, mgrast_dev_02222011, rast_rel_2009_03_26, mgrast_dev_10262011, rast_rel_2008_11_24, rast_rel_2008_08_07, HEAD
Changes since 1.1: +7 -4 lines
readonly fixes; seed-run-job update to run from input file

# The parallel task runner.
# This is invoked by SGE, with $SGE_TASK_ID set to the task that we are to
# execute.
# The seed_run_job script has set the SEED_TASK_DIR environment variable to 
# the directory where we'll find our task list, input files, etc.

use strict;
use Time::HiRes 'gettimeofday';

my $host = `hostname`;
chomp $host;

my $task = $ENV{SGE_TASK_ID};
my $task_dir = $ENV{SEED_TASK_DIR};
my $seed_root = $ENV{SEED_ROOT};

$task ne "" or die "$0: no SGE_TASK_ID specified\n";
$task_dir ne "" or die "$0: no SEED_TASK_DIR specified\n";

chdir($task_dir) or die "Cannot chdir $task_dir: $!\n";

print STDERR "Running task $task in $task_dir on $host\n";
open(T, "<task.list") or die "Cannot open task.list: $!\n";

my($script, $in, $out, $args);

while (<T>)
    my($id, @p) = split(/\t/);

    if ($id == $task)
	($script, $args, $in, $out) = @p;

if (!defined($script))
    die "Task $task not found in $task_dir/task.list\n";

# We have our params, fire it up.

my $start = gettimeofday;
print STDERR "START $start\n";

if ($script =~ /\.pl$/)
    $script = "perl $script";

my $prolog;

if ($seed_root ne "" and -d $seed_root)
    $prolog = ". $seed_root/config/fig-user-env.sh; ";

my $cmd = "$prolog $script $args < $in > $out";
print STDERR "$cmd\n";
my $rc = system($cmd);
my $stop = gettimeofday;
my $elap = $stop - $start;
if ($rc == 0)
    print STDERR "SUCCESS $stop $elap\n";
    print STDERR "FAILURE $stop $elap rc=$rc\n";

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