/usr/bin/minccomplete

#! /usr/bin/env perl
#
# Checks if a MINC file is complete
#
# Copyright Andrew Janke a.janke@gmail.com
#
# Permission to use, copy, modify, and distribute this software and its
# documentation for any purpose and without fee is hereby granted,
# provided that the above copyright notice appear in all copies.  The
# author makes no representations about the suitability of this software
# for any purpose.  It is provided "as is" without express or implied warranty.


use strict;
use warnings "all";
use Getopt::Long;
use Pod::Usage;
use File::Basename;

my($me, %opt, $dump, $infile, $error);

$me = basename($0);
%opt = (
   'help' => 0,
   'man' => 0,
   'verbose' => 0,
   'error_string' => undef,
   );

# Check arguments
&GetOptions(
   'help|?' => \$opt{'help'},
   'man' => \$opt{'man'},
   'v|verbose' => \$opt{'verbose'},
   'version' => sub { &print_version_info },
   'e|error_string=s' => \$opt{'error_string'},
   ) or pod2usage(-verbose => 1) && exit;
   
# handle -man, -help or missing args
pod2usage(-verbose => 1) if $opt{'help'};
pod2usage(-exitstatus => 0, -verbose => 2) if $opt{'man'};
pod2usage(-verbose => 0) && exit if ($#ARGV != 0);

$infile = $ARGV[0];

# check if the file in question exists
if(!-e $infile){
   if(defined($opt{error_string})){
      print STDOUT "$opt{error_string}\n";
      exit(-1);
      }
   else{
      die "$me: Couldn't find $infile\n\n";
      }
   }

# figure out what we have here
if($infile =~ m/\.mnc(\.gz|)$/){
   my($version);
   
   print STDOUT "Checking a MINC file ($infile)\n" if $opt{'verbose'};
   
   # first check that the header is "valid"
   if(system("mincdump -h $infile 2> /dev/null 1>&2") == 0){
      $error = 0;
      }
   else{
      $error = -1;
      }
   
   # if good, check if the image is complete for MINC2
   if($error == 0){
      chomp($version = `mincinfo -minc_version $infile 2> /dev/null`);
      
      if($version =~ m/HDF5/){
         print STDOUT "File is $version\n" if $opt{'verbose'};
         
         chomp($dump = `mincinfo -attvalue image:complete $infile 2> /dev/null`);
         $error = -1 if ($dump ne 'true_');
         }
      }
   }

elsif($infile =~ m/\.xfm$/){
   print STDOUT "Checking a XFM file ($infile)\n" if $opt{'verbose'};
   
   if(system("xfm2param $infile 2> /dev/null 1>&2") == 0){
      $error = 0;
      }
   else{
      $error = -1;
      }
   }


# now output the status
if($error){
   if(defined($opt{'error_string'})){
      print STDOUT "$opt{'error_string'}\n";
      }
   else{
      print STDOUT "$error\n";
      }
   }
else{
   print STDOUT "$error\n";
   }

exit($error);

# print version information
sub print_version_info {
   my $PACKAGE = 'minc';
   my $VERSION = '2.2.00';
   my $PACKAGE_BUGREPORT = 'a.janke@gmail.com';
   
   print STDOUT "\n$PACKAGE version $VERSION\n".
                "Comments to $PACKAGE_BUGREPORT\n\n";
   exit 0;
   }


__END__

=head1 NAME

B<minccomplete> - checks if a MINC file is complete

=head1 SYNOPSIS

B<minccomplete> [options] <file.mnc>

minccomplete is designed as a QC tool that you can use to check
if MINC or xfm files have been completely written.

=head1 DESCRIPTION

B<minccomplete> will check if a file exists and is completely written.
The reasons for non-completion are varied but typically caused when 
a process writing a MINC or xfm file is interrupted. A zero will be 
returned if the file is complete and a -1 if it isn't.

Examples:

   $ minccomplete in.mnc
   0
   $ minccomplete in.xfm
   0

A MINC file is returned as complete if the image attribute image:complete
is set. ie:

   mincinfo -attvalue image:complete infile.mnc

A xfm file is deemed complete if xfm2param can parse the file.
The associated exit codes will also be set as part of this so 
that minccomplete can be used in scripts.

An entirely simplistic example:
   
   #! /bin/sh
   
   infile=$1
   
   if [ `minccomplete ${infile}` ]
   then
      echo "Yes!"
   else
      echo "Nope, try again"
   fi

Problems or comments should be sent to: a.janke@gmail.com
 
=head1 OPTIONS

=over 4

=item B<-v>, B<--verbose>

Be noisy when doing things

=item B<--version>

Print version number and exit

=item B<-h>, B<--help>

Dump some quick help output

=item B<--man>

Dump a man page

=item B<-e>, B<--error_string>

Don't die on errors (eg: file not found) and print the supplied value instead

=back

=head1 SEE ALSO

mincheader(1) mincinfo(1) xfm2param(1)

=head1 AUTHOR

Andrew Janke - a.janke@gmail.com

=head1 COPYRIGHTS

Copyright 2000 by Andrew L Janke

=cut
minc-tools 2.2.00-3 / usr / bin / minccomplete
