Index: trunk/ippScripts/scripts/phase3.pl
===================================================================
--- trunk/ippScripts/scripts/phase3.pl	(revision 10419)
+++ trunk/ippScripts/scripts/phase3.pl	(revision 10534)
@@ -98,5 +98,5 @@
 my $outputRoot = $exp_tag . '.p3'; # Root output name
 $outputRoot = File::Spec->catpath( $vol, $dir, $outputRoot );
-$outputRoot = $ipprc->convert_filename ($outputRoot);
+$outputRoot = $ipprc->convert_filename_absolute($outputRoot);
 my $list1Name = $outputRoot . '.b1.list'; # Name for the input file list for binning 1
 my $list2Name = $outputRoot . '.b2.list'; # Name for the input file list for binning 2
@@ -106,6 +106,6 @@
 open my $list2File, '>' . $list2Name;
 foreach my $file (@$files) {
-    print $list1File ($ipprc->convert_filename ($file->{b1_uri}) . "\n");
-    print $list2File ($ipprc->convert_filename ($file->{b2_uri}) . "\n");
+    print $list1File ($ipprc->convert_filename_absolute($file->{b1_uri}) . "\n");
+    print $list2File ($ipprc->convert_filename_absolute($file->{b2_uri}) . "\n");
     push @means, $file->{bg};
     push @stdevs, $file->{bg_stdev};
@@ -136,7 +136,7 @@
 
 # Add the result into the database
-$outputRoot = $ipprc->convert_filename ($outputRoot);
-$jpeg1  = $ipprc->convert_filename ($jpeg1);
-$jpeg2  = $ipprc->convert_filename ($jpeg2);
+$outputRoot = $ipprc->convert_filename_relative($outputRoot);
+$jpeg1  = $ipprc->convert_filename_relative($jpeg1);
+$jpeg2  = $ipprc->convert_filename_relative($jpeg2);
 unless ($no_update) {
     my $command = "$p3tool -addprocessedexp -exp_tag $exp_tag -uri UNKNOWN " .