+++ /dev/null
-package TreeOfTexts::Controller::Stemmagraph;
-use Moose;
-use namespace::autoclean;
-use File::Temp;
-use JSON;
-use Text::Tradition::Collation;
-use Text::Tradition::StemmaUtil qw/ character_input phylip_pars newick_to_svg /;
-
-BEGIN { extends 'Catalyst::Controller' }
-
-#
-# Sets the actions in this controller to be registered with no prefix
-# so they function identically to actions created in MyApp.pm
-#
-__PACKAGE__->config(namespace => '');
-
-=head1 NAME
-
-TreeOfTexts::Controller::Stemmagraph - Simple controller for stemma display
-
-=head1 DESCRIPTION
-
-[enter your description here]
-
-=head1 METHODS
-
-=cut
-
-sub get_graph :Local {
- my( $self, $c ) = @_;
- # If called interactively, we have params 'display', 'output', 'witnesses'
- # If called non-interactively, we look at headers and content.
- # The body is actually a File::Temp object; this is undocumented but
- # so it seems to be.
- my $dotfile;
- my $must_unlink = 0;
- if( $c->request->params->{'dot'} ) {
- # Make a File::Temp object.
- my $tmpfile = File::Temp->new( UNLINK => 0 );
- print $tmpfile $c->request->params->{'dot'};
- $dotfile = $tmpfile->filename;
- $must_unlink = 1;
- } else {
- $dotfile = $c->request->body;
- }
- my $format = 'svg';
-
- # Render the dot in the given format.
- my $collation = Text::Tradition::Collation->new();
- my $stemma = Text::Tradition::Stemma->new( 'collation' => $collation, 'dot' => $dotfile );
- unlink( $dotfile ) if $must_unlink;
- $c->stash->{result} = $stemma->as_svg;
- $c->forward( "View::SVG" );
-}
-
-=head2 character_matrix
-
-Given an alignment table in JSON form, in the parameter 'alignment', returns a
-character matrix suitable for input to Phylip PARS.
-
-=cut
-
-sub character_matrix :Local {
- my( $self, $c ) = @_;
- my $json = $c->request->params->{'alignment'};
- $c->log->debug( $json );
- my $table = from_json( $json );
- my $matrix = character_input( $table );
- $c->stash->{'result'} = { 'matrix' => $matrix };
- $c->forward( 'View::JSON' );
-}
-
-=head2 run_pars
-
-Takes either an alignment table in JSON format (passed as the parameter 'alignment')
-or a character matrix Phylip accepts (passed as the parameter 'matrix'). Returns
-either the Newick-format answer or an SVG representation of the graph.
-
-=cut
-
-sub run_pars :Local {
- my( $self, $c ) = @_;
- my $error;
- my $view = 'View::JSON';
- my $matrix;
- if( $c->request->param('matrix') ) {
- $matrix = $c->request->param('matrix');
- } elsif( $c->request->param('alignment') ) {
- # Make the matrix from the alignment
- my $table = from_json( $c->request->param('alignment') );
- $matrix = character_input( $table );
- } else {
- $error = "Must pass either an alignment or a matrix";
- }
-
- # Got the matrix, so try to run pars.
- my( $result, $output );
- unless( $error ) {
- ( $result, $output ) = phylip_pars( $matrix );
- $error = $output unless( $result );
- }
-
- # Did we want newick or a graph?
- unless( $error ) {
- my $format = 'newick';
- $format = $c->request->param('format') if $c->request->param('format');
- if( $format eq 'svg' ) {
- # Do something
- $c->stash->{'result'} = newick_to_svg( $output );
- $view = 'View::SVG';
- } elsif( $format ne 'newick' ) {
- $error = "Requested output format $format unknown";
- } else {
- $c->stash->{'result'} = { 'tree' => $output };
- }
- }
-
- if( $error ) {
- $c->stash->{'error'} = $error;
- } # else the stash is populated.
- $c->forward( $view );
-}
-
-=head1 AUTHOR
-
-Tara L Andrews
-
-=head1 LICENSE
-
-This library is free software. You can redistribute it and/or modify
-it under the same terms as Perl itself.
-
-=cut
-
-__PACKAGE__->meta->make_immutable;
-
-1;