Index: trunk/ippScripts/scripts/staticsky.pl
===================================================================
--- trunk/ippScripts/scripts/staticsky.pl	(revision 27964)
+++ trunk/ippScripts/scripts/staticsky.pl	(revision 27964)
@@ -0,0 +1,324 @@
+#!/usr/bin/env perl
+
+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 DateTime;
+my $mjd_start = DateTime->now->mjd;   # MJD of starting script
+
+use vars qw( $VERSION );
+$VERSION = '0.01';
+
+use IPC::Cmd 0.36 qw( can_run run );
+use PS::IPP::Metadata::Config;
+use PS::IPP::Metadata::List qw( parse_md_list );
+use Data::Dumper;
+use PS::IPP::Config 1.01 qw( :standard );
+
+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 $staticskytool = can_run('staticskytool') or (warn "Can't find staticskytool" and $missing_tools = 1);
+my $ppSub = can_run('ppSub') or (warn "Can't find ppSub" and $missing_tools = 1);
+my $ppStatsFromMetadata = can_run('ppStatsFromMetadata') or (warn "Can't find ppStatsFromMetadata" and $missing_tools = 1);
+if ($missing_tools) {
+    warn("Can't find required tools.");
+    exit($PS_EXIT_CONFIG_ERROR);
+}
+
+my ($sky_id, $dbname, $threads, $outroot, $reduction, $inverse, $run_state, $verbose, $no_update, $no_op, $redirect, $save_temps);
+GetOptions(
+    'sky_id=s'          => \$sky_id, # Diff identifier
+    'dbname|d=s'        => \$dbname, # Database name
+    'threads=s'         => \$threads,   # Number of threads to use
+    'run-state=s'       => \$run_state,   # state for run: 'new' or 'update'
+    'outroot=s'         => \$outroot, # Output root name
+    'reduction=s'       => \$reduction, # Reduction class
+    'verbose'           => \$verbose,   # Print to stdout
+    'no-update'         => \$no_update, # Don't update the database?
+    'no-op'             => \$no_op, # Don't do any operations?
+    'redirect-output'   => \$redirect,
+    'save-temps'        => \$save_temps, # Save temporary files?
+) or pod2usage( 2 );
+
+pod2usage( -msg => "Unknown option: @ARGV", -exitval => 2 ) if @ARGV;
+pod2usage(
+    -msg => "Required options: --sky_id --outroot",
+    -exitval => 3,
+          ) unless 
+    defined $sky_id and
+    defined $outroot;
+
+my $ipprc = PS::IPP::Config->new() or my_die( "Unable to set up", $sky_id, $PS_EXIT_CONFIG_ERROR ); # IPP configuration
+
+# XXX camera is not known here; cannot use filerules...
+# my $logDest = $ipprc->filename("LOG.EXP", $outroot);
+my $logDest = "$outroot.log";
+$logDest .= ".update" if $run_state eq "update";
+$ipprc->redirect_output($logDest) or my_die( "Unable to redirect output", $sky_id, $PS_EXIT_SYS_ERROR ) if $redirect;
+
+my $source_id = $ipprc->source_id($dbname, $PS_TABLE_ID_DIFF);
+
+my $outbase = basename($outroot);
+my ($listFile, $listName) = tempfile("/tmp/$outbase.list.XXXX", UNLINK => !$save_temps );
+
+# Get list of input images to stack photometry
+my $mdcParser = PS::IPP::Metadata::Config->new; # Parser for metadata config files
+my $files;
+{
+    my $command = "$staticskytool -inputs -sky_id $sky_id";
+    $command .= " -dbname $dbname" if defined $dbname;
+    my ( $success, $error_code, $full_buf, $stdout_buf, $stderr_buf ) =
+        run(command => $command, verbose => $verbose);
+    unless ($success) {
+        $error_code = (($error_code >> 8) or $PS_EXIT_PROG_ERROR);
+        &my_die("Unable to perform difftool -inputskyfile: $error_code", $sky_id, $error_code);
+    }
+
+    my $metadata = $mdcParser->parse(join "", @$stdout_buf) or
+        &my_die("Unable to parse metadata config doc", $sky_id, $PS_EXIT_PROG_ERROR);
+    $files = parse_md_list($metadata) or
+        &my_die("Unable to parse metadata list", $sky_id, $PS_EXIT_PROG_ERROR);
+}
+
+# XXX do we NEED to define the camera?
+# &my_die("Unable to identify camera", $sky_id, $skycell_id, $PS_EXIT_SYS_ERROR) unless defined $camera;
+# $ipprc->define_camera($camera);
+
+# generate the input 
+print $listFile "INPUT   MULTI\n";
+
+foreach my $file (@$files) {
+    print $listFile "INPUT   METADATA\n";
+
+    $path_base = $file->{path_base};
+    my $imageCnv  = $ipprc->filename("PPSTACK.OUTPUT", $file->{path_base} ); # Mask name
+    my $maskCnv   = $ipprc->filename("PPSTACK.OUTPUT.MASK", $file->{path_base} ); # Mask name
+    my $weightCnv = $ipprc->filename("PPSTACK.OUTPUT.VARIANCE", $file->{path_base} ); # Weight name
+    my $psfCnv    = $ipprc->filename("PSPHOT.PSF.SKY.SAVE", $file->{path_base} ); # PSF name
+
+    my $imageRaw  = $ipprc->filename("PPSTACK.UNCONV", $file->{path_base} ); # Mask name
+    my $maskRaw   = $ipprc->filename("PPSTACK.UNCONV.MASK", $file->{path_base} ); # Mask name
+    my $weightRaw = $ipprc->filename("PPSTACK.UNCONV.VARIANCE", $file->{path_base} ); # Weight name
+
+    my $sources   = $ipprc->filename("PSPHOT.OUT.CMF.MEF", $file->{path_base}); # Sources name
+
+    &my_die("Image $image does not exist", $stack_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists( $image );
+    &my_die("Mask $mask does not exist", $stack_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists( $mask );
+    &my_die("Weight $weight does not exist", $stack_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists( $weight );
+    &my_die("PSF $psf does not exist", $stack_id, $PS_EXIT_SYS_ERROR) if ($convolve and not $ipprc->file_exists( $psf ));
+    &my_die("Sources $sources does not exist", $stack_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists( $sources );
+
+    print $listFile "  RAW:IMAGE     STR  " . $imageRaw  . "\n";
+    print $listFile "  RAW:MASK      STR  " . $maskRaw   . "\n";
+    print $listFile "  RAW:VARIANCE  STR  " . $weightRaw . "\n";
+
+    print $listFile "  CNV:IMAGE     STR  " . $imageCnv  . "\n";
+    print $listFile "  CNV:MASK      STR  " . $maskCnv   . "\n";
+    print $listFile "  CNV:VARIANCE  STR  " . $weightCnv . "\n";
+    print $listFile "  CNV:PSF       STR  " . $psfCnv    . "\n";
+
+    print $listFile "  SOURCES       STR  " . $sources   . "\n";
+
+    print $listFile "END\n\n";
+
+    &my_die("Couldn't find input: $imageRaw",  $sky_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists("$imageRaw");
+    &my_die("Couldn't find input: $maskRaw",   $sky_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists("$maskRaw");
+    &my_die("Couldn't find input: $weightRaw", $sky_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists("$weightRaw");
+    &my_die("Couldn't find input: $imageCnv",  $sky_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists("$imageCnv");
+    &my_die("Couldn't find input: $maskCnv",   $sky_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists("$maskCnv");
+    &my_die("Couldn't find input: $weightCnv", $sky_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists("$weightCnv");
+    &my_die("Couldn't find input: $psfCnv",    $sky_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists("$psfCnv");
+    &my_die("Couldn't find input: $sources",   $sky_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists("$sources");
+}
+
+# Recipes to use based on reduction class
+$reduction = 'DEFAULT' unless defined $reduction;
+my $recipe_psphot  = $ipprc->reduction($reduction, 'STACKPHOT'); # Recipe to use for psphot
+unless ($recipe_psphot) {
+    &my_die("Couldn't find selected reduction for STACKPHOT: $reduction\n", $sky_id, $PS_EXIT_CONFIG_ERROR);
+}
+
+print "reduction: $reduction\n";
+print "recipe_psphot: $recipe_psphot\n";
+
+# Get the output filenames
+my $outputName = $ipprc->filename("PPSUB.OUTPUT", $outroot);
+my $outputMask = $ipprc->filename("PPSUB.OUTPUT.MASK", $outroot);
+my $outputVariance = $ipprc->filename("PPSUB.OUTPUT.VARIANCE", $outroot);
+my $outputSources = $ipprc->filename("PPSUB.OUTPUT.SOURCES", $outroot);
+my $jpeg1Name = $ipprc->filename("PPSUB.OUTPUT.JPEG1", $outroot);
+my $jpeg2Name = $ipprc->filename("PPSUB.OUTPUT.JPEG2", $outroot);
+my $configuration = $ipprc->filename("PPSUB.CONFIG", $outroot);
+my $outputStats = $ipprc->filename("SKYCELL.STATS", $outroot);
+my $traceDest = $ipprc->filename("TRACE.EXP", $outroot);
+
+if ($run_state eq 'update') {
+    $traceDest .= '.update';
+    $outputStats .= '.update';
+}
+
+my ($inverseName, $inverseMask, $inverseVariance, $inverseSources);
+if ($inverse) {
+    $inverseName = $ipprc->filename("PPSUB.INVERSE", $outroot);
+    $inverseMask = $ipprc->filename("PPSUB.INVERSE.MASK", $outroot);
+    $inverseVariance = $ipprc->filename("PPSUB.INVERSE.VARIANCE", $outroot);
+    $inverseSources = $ipprc->filename("PPSUB.INVERSE.SOURCES", $outroot);
+}
+
+my $cmdflags;
+
+# Perform subtraction
+{
+    my $command = "$ppSub $outroot";
+    $command .= " -inimage $input";
+    $command .= " -refimage $template";
+    $command .= " -inmask $inputMask";
+    $command .= " -refmask $templateMask";
+    $command .= " -invariance $inputVariance";
+    $command .= " -refvariance $templateVariance";
+    $command .= " -insources $inputSources";
+    $command .= " -refsources $templateSources";
+    $command .= " -stats $outputStats";
+    $command .= " -threads $threads" if defined $threads;
+    if ($run_state eq "new") {
+        $command .= " -dumpconfig $configuration";
+    } else {
+        my $configurationReal = $ipprc->file_resolve($configuration) or &my_die("Couldn't resolve configuration file: $configuration", $sky_id, $skycell_id, $PS_EXIT_SYS_ERROR);
+        $command .= " -ipprc $configurationReal";
+    }
+    $command .= " -save-inconv" if defined $saveInConv;
+    $command .= " -save-refconv" if defined $saveRefConv;
+    $command .= " -recipe PPSUB $recipe_ppSub";
+    $command .= " -recipe PSPHOT $recipe_psphot";
+    $command .= " -recipe PPSTATS WARPSTATS";
+    $command .= " -F PSPHOT.PSF.SAVE PSPHOT.PSF.SKY.SAVE";
+    $command .= " -F PSPHOT.OUTPUT PSPHOT.OUT.CMF.MEF";
+    $command .= " -F PSPHOT.BACKMDL PSPHOT.BACKMDL.MEF";
+    if ($run_state eq "new") {
+        $command .= " -photometry";
+    }
+    $command .= " -inverse" if $inverse;
+    $command .= " -tracedest $traceDest -log $logDest";
+    $command .= " -dbname $dbname" if defined $dbname;
+    $command .= " -image_id $diff_skyfile_id" if defined $diff_skyfile_id;
+    $command .= " -source_id $source_id" if defined $source_id;
+
+    unless ($no_op) {
+        my ( $success, $error_code, $full_buf, $stdout_buf, $stderr_buf ) =
+            run(command => $command, verbose => $verbose);
+        unless ($success) {
+            $error_code = (($error_code >> 8) or $PS_EXIT_PROG_ERROR);
+            &my_die("Unable to perform ppSub: $error_code", $sky_id, $skycell_id, $error_code);
+        }
+
+        my $outputStatsReal = $ipprc->file_resolve($outputStats);
+        &my_die("Couldn't find expected output file: $outputStats", $sky_id, $skycell_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists($outputStatsReal);
+
+        # measure chip stats
+        $command = "$ppStatsFromMetadata $outputStatsReal - DIFF_SKYCELL";
+        ( $success, $error_code, $full_buf, $stdout_buf, $stderr_buf ) =
+            run(command => $command, verbose => $verbose);
+        unless ($success) {
+            $error_code = (($error_code >> 8) or $PS_EXIT_PROG_ERROR);
+            &my_die("Unable to perform ppStatsFromMetadata: $error_code", $sky_id, $skycell_id, $error_code);
+        }
+        foreach my $line (@$stdout_buf) {
+            $cmdflags .= " $line";
+        }
+        chomp $cmdflags;
+
+        my ($quality) = $cmdflags =~ /-quality (\d+)/; # Quality flag
+
+        if (!$quality) {
+            &my_die("Couldn't find expected output file: $outputName", $sky_id, $skycell_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists($outputName);
+            &my_die("Couldn't find expected output file: $outputMask", $sky_id, $skycell_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists($outputMask);
+            &my_die("Couldn't find expected output file: $outputVariance", $sky_id, $skycell_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists($outputVariance);
+            &my_die("Couldn't find expected output file: $outputSources", $sky_id, $skycell_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists($outputSources);
+            &my_die("Couldn't find expected output file: $jpeg1Name",    $sky_id, $skycell_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists($jpeg1Name);
+            &my_die("Couldn't find expected output file: $jpeg2Name",    $sky_id, $skycell_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists($jpeg2Name);
+            if ($inverse) {
+                &my_die("Couldn't find expected output file: $inverseName", $sky_id, $skycell_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists($inverseName);
+                &my_die("Couldn't find expected output file: $inverseMask", $sky_id, $skycell_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists($inverseMask);
+                &my_die("Couldn't find expected output file: $inverseVariance", $sky_id, $skycell_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists($inverseVariance);
+                &my_die("Couldn't find expected output file: $inverseSources", $sky_id, $skycell_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists($inverseSources);
+                if ($run_state eq 'new') {
+                    &my_die("Couldn't find expected output file: $configuration", $sky_id, $skycell_id, $PS_EXIT_SYS_ERROR) unless $ipprc->file_exists($configuration);
+                }
+            }
+        }
+    } else {
+        print "Not executing: $command\n";
+    }
+}
+
+unless ($no_update) {
+
+    # Add the subtraction result
+    {
+        my $command = "$difftool -sky_id $sky_id -skycell_id $skycell_id";
+        $command .= " -magicked $magicked" if $magicked;
+        if ($run_state eq 'new') {
+            $command .= " -adddiffskyfile -path_base $outroot";
+            $command .= " $cmdflags";
+            $command .= (" -dtime_script " . ((DateTime->now->mjd - $mjd_start) * 86400));
+            $command .= " -hostname $host" if defined $host;
+        } else {
+            $command .= " -tofullskyfile";
+        }
+        $command .= " -dbname $dbname" if defined $dbname;
+
+        my ( $success, $error_code, $full_buf, $stdout_buf, $stderr_buf ) =
+            run(command => $command, verbose => $verbose);
+        unless ($success) {
+            $error_code = (($error_code >> 8) or $PS_EXIT_PROG_ERROR);
+            my $err_message = $run_state eq "update" ?
+                "Unable to perform difftool -adddiffskyfile" :
+                "Unable to perform difftool -tofullskyfile";
+            &my_die("$err_message: $error_code", $sky_id, $skycell_id, $error_code);
+        }
+    }
+}
+
+
+sub my_die
+{
+    my $msg = shift;            # Warning message on die
+    my $sky_id = shift;        # Diff identifier
+    my $exit_code = shift;      # Exit code to add
+
+    $exit_code = $PS_EXIT_PROG_ERROR unless defined $exit_code;
+
+    warn($msg);
+    if (defined $sky_id and defined $skycell_id and not $no_update) {
+        my $command = "$difftool -sky_id $sky_id -skycell_id $skycell_id -fault $exit_code";
+        if ($run_state eq 'new') {
+            $command .= " -adddiffskyfile";
+            $command .= (" -dtime_script " . ((DateTime->now->mjd - $mjd_start) * 86400));
+            $command .= " -hostname $host" if defined $host;
+            $command .= " -path_base $outroot" if defined $outroot;
+            $command .= " -dbname $dbname" if defined $dbname;
+        } else {
+            $command .= " -updatediffskyfile";
+        }
+        run(command => $command, verbose => $verbose);
+    }
+    exit $exit_code;
+}
+
+END {
+    my $exit = $?;
+    system("sync") == 0 or die "failed to execute sync: $!";
+    $? = $exit;
+}
+
+__END__