Index: trunk/ippScripts/scripts/magic_cleanup.pl
===================================================================
--- trunk/ippScripts/scripts/magic_cleanup.pl	(revision 30347)
+++ trunk/ippScripts/scripts/magic_cleanup.pl	(revision 30347)
@@ -0,0 +1,159 @@
+#!/usr/bin/env perl
+
+use Carp;
+use warnings;
+use strict;
+
+## report the program and machine
+use Sys::Hostname;
+my $host = hostname();
+my $date = `date`;
+print "\n\n";
+print "Starting script $0 on $host at $date\n\n";
+
+use vars qw( $VERSION );
+$VERSION = '0.01';
+
+use IPC::Cmd 0.36 qw( can_run run );
+use File::Temp qw( tempfile );
+use File::Basename qw( basename dirname );
+use PS::IPP::Metadata::Config;
+use PS::IPP::Metadata::List qw( parse_md_list );
+
+use PS::IPP::Config 1.01 qw( :standard );
+use Nebulous::Client;
+use DBI;
+
+use Getopt::Long qw( GetOptions :config auto_help auto_version gnu_getopt );
+use Pod::Usage qw( pod2usage );
+
+# Look for programs we need
+my $missing_tools;
+my $magictool   = can_run('magictool') or (warn "Can't find magictool" and $missing_tools = 1);
+if ($missing_tools) {
+    warn("Can't find required tools.");
+    exit($PS_EXIT_CONFIG_ERROR);
+}
+
+# Parse the command-line arguments
+my ($magic_id, $exp_id, $workdir, $camera);
+my ($dbname, $verbose, $no_update, $no_op, $logfile);
+
+GetOptions(
+           'magic_id=s'     => \$magic_id,   # Magic run identifier
+           'workdir=s'      => \$workdir,    # directory to clean up
+           'camera=s'       => \$camera,    # directory to clean up
+           'logfile=s'      => \$logfile,
+
+           'exp_id=s'       => \$exp_id,     # exposure id # XXX: do we need this?
+           'dbname=s'       => \$dbname,     # Database name
+           'verbose'        => \$verbose,    # Print stuff?
+           'no-update'      => \$no_update,  # Don't update the database?
+           'no-op'          => \$no_op,      # Don't do any operations?
+           ) or pod2usage( 2 );
+
+pod2usage( -msg => "Unknown option: @ARGV", -exitval => 2 ) if @ARGV;
+pod2usage( -msg => "Required options: --magic_id --workdir --camera",
+           -exitval => 3) unless
+    defined $magic_id and
+    defined $workdir and 
+    defined $camera;
+
+my $ipprc = PS::IPP::Config->new( $camera ) or my_die( "Unable to set up", $magic_id, $PS_EXIT_CONFIG_ERROR ); # IPP configuration
+$ipprc->redirect_output($logfile) or my_die( "Unable to redirect output", $magic_id, $PS_EXIT_SYS_ERROR ) if $logfile;
+
+if (-e $workdir) {
+    my @extensions = ('.list', '.streakMap', '.streaks', '.clusters', '_hough.fits');
+    foreach my $ext (@extensions) {
+        my $n = 0;
+        my $path = $workdir . '/*' . $ext;
+        my @files = glob($path);
+        foreach my $file (@files) {
+            if (-e $file) {
+                $n++;
+                unless ($no_op) {
+                    # remove this print
+                    print "unlinking $file\n";
+                    unlink $file or my_die ("unable to delete $file", $magic_id, $PS_EXIT_SYS_ERROR);
+                } else {
+                    print "Skipping unlink $file\n";
+                }
+            }
+        }
+        print "Deleted $n $ext files\n" unless $no_op;
+    }
+    # remove the verify directory
+    my $verify_dir = $workdir . "/$exp_id.mgc.$magic_id.verify";
+    if (-e $verify_dir ) {
+        my $rc = system "rm -r $verify_dir";
+        my_die("failed to rm $verify_dir",  $magic_id, $rc >> 8) if $rc;
+        print "deleted $verify_dir\n";
+    }
+} else {
+    # workdir doesn't exist.
+    # If it's parent directory does exist, then assume workdir is gone so it is "cleaned'
+    my $parentdir = dirname($workdir);
+    if (! -e $parentdir ) {
+        # parent directory doesn't exist either, check that mountpoint exists
+        # we expect at least /data/volume
+        my @dirs = split "/", $parentdir;
+        # so the following should be true
+        # $dirs[0] eq ""
+        # $dirs[1] eq 'data'
+        # $dirs[2] eq the volume: for example ipp053.0
+        if ((scalar(@dirs) < 3) or ($dirs[0] ne "") or ($dirs[1] ne 'data')) {
+            my_die("unexpected parent of workdir found: '$parentdir'", $magic_id, $PS_EXIT_UNKNOWN_ERROR);
+        } else { 
+            # re-form mountpoint
+            my $mountpoint = "/$dirs[1]/$dirs[2]";
+            # check if it is readable
+            if (! -e $mountpoint or ! -r $mountpoint ) {
+                my_die("mount point for workdir not found or not readable: '$mountpoint'", $magic_id, $PS_EXIT_SYS_ERROR);
+            }
+        }
+        print "Workdir $workdir not found. Setting magicRun.workdir_state to cleaned.\n";
+        # fall through to update workdir_state
+    }
+}
+            
+my $command = "$magictool -updaterun -magic_id $magic_id -set_workdir_state cleaned";
+$command   .= " -dbname $dbname" if defined $dbname;
+unless ($no_update) {
+    my ( $success, $error_code, $full_buf, $stdout_buf, $stderr_buf ) =
+        run(command => $command, verbose => $verbose);
+    unless ($success) {
+        carp("failed to update database for $magic_id");
+    }
+} else {
+    print "Skipping command: $command\n";
+}
+exit 0;
+    
+sub my_die
+{
+    my $msg = shift;            # Warning message on die
+    my $magic_id = shift;    # Magic DS identifier
+    my $exit_code = shift;      # Exit code to add
+
+    $exit_code = $PS_EXIT_PROG_ERROR unless $exit_code;
+
+    my $command = "$magictool -updaterun -set_workdir_state error_cleaned";
+    $command   .= " -magic_id $magic_id";
+    $command   .= " -dbname $dbname" if defined $dbname;
+
+    # Add the processed file to the database
+    unless ($no_update) {
+        my ( $success, $error_code, $full_buf, $stdout_buf, $stderr_buf ) =
+            run(command => $command, verbose => $verbose);
+        unless ($success) {
+            carp("failed to update database for $magic_id");
+        }
+    } else {
+        print "Skipping command: $command\n";
+    }
+
+    carp($msg);
+    exit $exit_code;
+}
+
+__END__