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Revision 1.1 - (download) (as text) (annotate)
Fri Sep 28 19:50:40 2007 UTC (12 years, 9 months ago) by wilke
Branch: MAIN
CVS Tags: mgrast_dev_08112011, rast_rel_2009_05_18, mgrast_dev_08022011, rast_rel_2014_0912, rast_rel_2008_06_18, 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
WebPage for all modifications for a job

package WebPage::ModifyJob;

use warnings;
use strict;

use Carp qw( confess );
use base qw( WebApp::WebPage );

use GenomeMeta;
use GD;
use MIME::Base64;
use Table;

use FIG_Config;

use Job48;

use GenomeBrowser;

1;

=pod

=head1 NAME

Genomes - an instance of WebPage which displays the list of genomes currently in pipeline and their status

=head1 DESCRIPTION

TODO

=head1 METHODS

=over 4

=item * B<output> ()

Returns the html output of the page.

=cut

sub output {
  my ($self) = @_;

  $self->title('Annotation Server - Import Jobs into SEED');

  my $content = '';

  # check if a user is logged in and admin
  if ($self->application->authorized(2)) {

    if ($self->application->cgi->param('change_name')) {
      $content = $self->change_name();
    }
    elsif ($self->application->cgi->param('accept_new_name')) {
      $content = $self->new_name();
    }
    else{
      $content = "<h1>JOB ".$self->application->cgi->param('job')."</h1>";
 
      print STDERR " No accept \n";
    }

  }
  
  # catch errors
  if ($self->application->error) {
    $content = "<p>An error has occured: ".$self->application->error().
      "<br/>Please return to the <a href='".$self->application->url."?page=Login'>login page</a>.</p>";
  }
  
  return $content;
}


=pod

=item * B<find_related> ()

Find similar genomes and present them in a table.

=cut

sub change_name {
  my $self = shift;

  my $job_id = $self->application->cgi->param('change_name');
  my $job = Job48->new($job_id);
  my $fig = FIGV->new($job->dir);
  my $cgi = $self->application->cgi;
  
 

  my $id = $job->genome_id;
  my $name = $job->genome_name;

  # build search term
  my @terms = split(' ',$name);
  my $search = $terms[0];

  my $content = " <h1> Change Genome Name</h1>  <p>Change genome name for <b>$name</b> from user ". $job->user . ".</p>";
  
  $content .= '<p>'.$self->start_form("", { job => $job_id });
  #$self->application->cgi->param('job',"$job_id");
  $content .= "New name: ". $cgi->textfield( "new_name" , "") ;

  $content .= $cgi->submit(-name => 'accept_new_name', -value => 'Accept new name');
  $content .= $self->end_form.'</p>';

  return $content;
}


sub new_name {
  my $self = shift;

  my $job_id = $self->application->cgi->param('job');
  my $new_name = $self->application->cgi->param('new_name');
  my $job = Job48->new($job_id);
  my $fig = FIGV->new($job->dir);
  my $cgi = $self->application->cgi;
  
  my $id = $job->genome_id;
  my $old_name = $job->genome_name;

  my $changed_name = $job->set_genome_name( $new_name );


  my $content = "  <p>Name changed from $old_name to ". $job->genome_name." for  user ". $job->user . " and job $job_id.</p>";
  $content .= "<p>Go back to <a href=\"".$self->application->url."?page=ControlCenter\">V2C2</a>.";


  return $content;
}

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