biblicit 2.2.0 → 2.2.1

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Files changed (13) hide show
  1. data/lib/biblicit/version.rb +1 -1
  2. data/parscit/lib/HeaderParse/API/ParserMethods.pm +0 -1
  3. data/parscit/lib/HeaderParse/Config/API_Config.pm +5 -8
  4. data/parscit/lib/ParsCit/Config.pm +1 -1
  5. data/parscit/lib/ParsCit/Tr2crfpp.pm +9 -14
  6. data/parscit/lib/ParsHed/Config.pm +1 -1
  7. data/parscit/lib/ParsHed/Tr2crfpp.pm +10 -7
  8. data/parscit/lib/ParsHed/Tr2crfpp_token.pm +7 -10
  9. data/parscit/lib/SectLabel/AAMatching.pm +6 -2
  10. data/parscit/lib/SectLabel/Config.pm +1 -1
  11. data/parscit/lib/SectLabel/Controller.pm +4 -2
  12. data/parscit/lib/SectLabel/Tr2crfpp.pm +4 -2
  13. metadata +4 -4
data/lib/biblicit/version.rb CHANGED
@@ -2,6 +2,6 @@
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  module Biblicit
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- VERSION = '2.2.0'
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+ VERSION = '2.2.1'
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  end
data/parscit/lib/HeaderParse/API/ParserMethods.pm CHANGED
@@ -17,7 +17,6 @@ package HeaderParse::API::ParserMethods;
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  use utf8;
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  use Data::Dumper;
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- use FindBin;
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  use HeaderParse::API::NamePatternMatch;
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  use HeaderParse::API::MultiClassChunking; #default to use all export by this module
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  use HeaderParse::API::LoadInformation;
data/parscit/lib/HeaderParse/Config/API_Config.pm CHANGED
@@ -12,7 +12,6 @@
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  #
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  package HeaderParse::Config::API_Config;
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- use FindBin qw($Bin);
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  require Exporter;
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  use vars qw($VERSION @ISA @EXPORT @EXPORT_OK %EXPORT_TAGS);
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@@ -26,17 +25,15 @@ else {
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  $Classifier = "svm_classify5"; # assume on path
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  }
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- my $path;
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- BEGIN
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- {
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- if ($FindBin::Bin =~ /(.*)/) { $path = $1; }
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- }
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+ use File::Basename;
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+ my $dir = dirname(__FILE__);
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+ my $parscitHome = "$dir/../../../";
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- $Resource_Dir = "$path/../resources/headerParse";
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+ $Resource_Dir = "$parscitHome/resources/headerParse";
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  $Database_Dir = "$Resource_Dir/database/";
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  $Data_Dir = "$Resource_Dir/data/";
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  $offlineD = "$Resource_Dir/models/";
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- $Tmp_Dir = "$path/../tmp";
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+ $Tmp_Dir = "$parscitHome/tmp";
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  $nMinHeaderLength = 50;
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  $nMaxHeaderLength = 2500;
data/parscit/lib/ParsCit/Config.pm CHANGED
@@ -15,7 +15,7 @@ $serverPort = 10555;
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  $URI = 'http://citeseerx.org/algorithms/parscit/wsdl';
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  ## Tr2crfpp
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- ## Paths relative to ParsCit root dir ($FindBin::Bin/..)
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+ ## Paths relative to ParsCit root dir
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  $tmpDir = "tmp";
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  $dictFile = "resources/parsCitDict.txt";
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  $crf_test = $ENV{'CRFPP_HOME'} ? "$ENV{'CRFPP_HOME'}/bin/crf_test" : "crfpp/crf_test";
data/parscit/lib/ParsCit/Tr2crfpp.pm CHANGED
@@ -12,25 +12,20 @@ package ParsCit::Tr2crfpp;
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  use utf8;
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  use strict 'vars';
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- use FindBin;
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  use Encode ();
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  use ParsCit::Config;
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- ### USER customizable section
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- my $tmp_dir = $ParsCit::Config::tmpDir;
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- $tmp_dir = "$FindBin::Bin/../$tmp_dir";
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-
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- my $dict_file = $ParsCit::Config::dictFile;
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- $dict_file = "$FindBin::Bin/../$dict_file";
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-
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- my $crf_test = $ENV{'CRFPP_HOME'} ? "$ENV{'CRFPP_HOME'}/bin/crf_test" : "$FindBin::Bin/../$ParsCit::Config::crf_test";
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+ use File::Basename;
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+ my $dir = dirname(__FILE__);
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+ my $parscitHome = "$dir/../../";
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- my $model_file = $ParsCit::Config::modelFile;
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- $model_file = "$FindBin::Bin/../$model_file";
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-
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- my $split_model_file = $ParsCit::Config::splitModelFile;
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- $split_model_file = "$FindBin::Bin/../$split_model_file";
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+ ### USER customizable section
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+ my $tmp_dir = "$parscitHome/$ParsCit::Config::tmpDir";
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+ my $dict_file = "$parscitHome/$ParsCit::Config::dictFile";
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+ my $crf_test = $ENV{'CRFPP_HOME'} ? "$ENV{'CRFPP_HOME'}/bin/crf_test" : "$parscitHome/$ParsCit::Config::crf_test";
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+ my $model_file = "$parscitHome/$ParsCit::Config::modelFile";
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+ my $split_model_file = "$parscitHome/$ParsCit::Config::splitModelFile";
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  ### END user customizable section
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  ###
data/parscit/lib/ParsHed/Config.pm CHANGED
@@ -4,7 +4,7 @@ $algorithmName = "ParsHed";
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  $algorithmVersion = "110505";
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  ## Tr2crfpp
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- ## Paths relative to ParsCit root dir ($FindBin::Bin/..)
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+ ## Paths relative to ParsCit root dir
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  $tmpDir = "tmp";
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  $dictFile = "resources/parsCitDict.txt";
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  $keywordFile = "resources/parsHed/keywords";
data/parscit/lib/ParsHed/Tr2crfpp.pm CHANGED
@@ -10,28 +10,31 @@ package ParsHed::Tr2crfpp;
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  use strict 'vars';
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  use utf8;
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- use FindBin;
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  use ParsHed::Config;
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  use Encode ();
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+ use File::Basename;
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+ my $dir = dirname(__FILE__);
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+ my $parscitHome = "$dir/../../";
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+
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  ### USER customizable section
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  my $tmpDir = $ParsHed::Config::tmpDir;
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- $tmpDir = "$FindBin::Bin/../$tmpDir";
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+ $tmpDir = "$parscitHome/$tmpDir";
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  my $dictFile = $ParsHed::Config::dictFile;
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- $dictFile = "$FindBin::Bin/../$dictFile";
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+ $dictFile = "$parscitHome/$dictFile";
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  my $keywordFile = $ParsHed::Config::keywordFile;
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- $keywordFile = "$FindBin::Bin/../$keywordFile";
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+ $keywordFile = "$parscitHome/$keywordFile";
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  my $bigramFile = $ParsHed::Config::bigramFile;
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- $bigramFile = "$FindBin::Bin/../$bigramFile";
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+ $bigramFile = "$parscitHome/$bigramFile";
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- my $crf_test = $ENV{'CRFPP_HOME'} ? "$ENV{'CRFPP_HOME'}/bin/crf_test" : "$FindBin::Bin/../$ParsHed::Config::crf_test";
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+ my $crf_test = $ENV{'CRFPP_HOME'} ? "$ENV{'CRFPP_HOME'}/bin/crf_test" : "$parscitHome/$ParsHed::Config::crf_test";
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  my $modelFile = $ParsHed::Config::modelFile;
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- $modelFile = "$FindBin::Bin/../$modelFile";
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+ $modelFile = "$parscitHome/$modelFile";
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  ### END user customizable section
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data/parscit/lib/ParsHed/Tr2crfpp_token.pm CHANGED
@@ -10,22 +10,19 @@ package ParsHed::Tr2crfpp_token;
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  use strict 'vars';
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  use utf8;
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- use FindBin;
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  use ParsHed::Config;
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  use Encode ();
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  ### USER customizable section
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- my $tmpDir = $ParsHed::Config::tmpDir;
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- $tmpDir = "$FindBin::Bin/../$tmpDir";
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+ use File::Basename;
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+ my $dir = dirname(__FILE__);
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+ my $parscitHome = "$dir/../../";
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- my $dictFile = $ParsHed::Config::dictFile;
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- $dictFile = "$FindBin::Bin/../$dictFile";
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-
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- my $crf_test = $ENV{'CRFPP_HOME'} ? "$ENV{'CRFPP_HOME'}/bin/crf_test" : "$FindBin::Bin/../$ParsHed::Config::crf_test";
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-
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- my $modelFile = $ParsHed::Config::oldModelFile;
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- $modelFile = "$FindBin::Bin/../$modelFile";
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+ my $tmpDir = "$parscitHome/$ParsHed::Config::tmpDir";
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+ my $dictFile = "$parscitHome/$ParsHed::Config::dictFile";
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+ my $crf_test = $ENV{'CRFPP_HOME'} ? "$ENV{'CRFPP_HOME'}/bin/crf_test" : "$parscitHome/$ParsHed::Config::crf_test";
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+ my $modelFile = "$parscitHome/$ParsHed::Config::oldModelFile";
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  ### END user customizable section
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data/parscit/lib/SectLabel/AAMatching.pm CHANGED
@@ -21,10 +21,14 @@ use Class::Struct;
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  use SectLabel::Config;
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  use ParsCit::PostProcess;
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+ use File::Basename;
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+ my $dir = dirname(__FILE__);
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+ my $parscitHome = "$dir/../../";
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+
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  # Dictionary
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  my %dict = ();
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  # CRF++
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- my $crft = $ENV{'CRFPP_HOME'} ? "$ENV{'CRFPP_HOME'}/bin/crf_test" : "$FindBin::Bin/../$SectLabel::Config::crf_test";
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+ my $crft = $ENV{'CRFPP_HOME'} ? "$ENV{'CRFPP_HOME'}/bin/crf_test" : "$parscitHome/$SectLabel::Config::crf_test";
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  # Matching features of each author, including
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  # Signals
@@ -77,7 +81,7 @@ sub AAMatching
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  my $aff_lines = Omni::Traversal::OmniCollector($doc, $aff_addrs, $need_object);
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  # Dictionary
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- ReadDict($FindBin::Bin . "/../" . $SectLabel::Config::dictFile);
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+ ReadDict($parscitHome . $SectLabel::Config::dictFile);
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  # Authors
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  my ($aut_features, $aut_rc_features) = AuthorFeatureExtraction($aut_lines, $aut_addrs);
data/parscit/lib/SectLabel/Config.pm CHANGED
@@ -5,7 +5,7 @@ $algorithmVersion = "110505";
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  ###
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  # Tr2crfpp
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- # Paths relative to SectLabel root dir ($FindBin::Bin/..)
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+ # Paths relative to SectLabel root dir
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  ###
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  $tmpDir = "tmp";
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  $dictFile = "resources/parsCitDict.txt";
data/parscit/lib/SectLabel/Controller.pm CHANGED
@@ -17,7 +17,9 @@ require 'dumpvar.pl';
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  use strict;
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  # Dependencies
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- use FindBin;
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+ use File::Basename;
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+ my $dir = dirname(__FILE__);
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+ my $parscitHome = "$dir/../../";
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  # Local libraries
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  use SectLabel::Config;
@@ -25,7 +27,7 @@ use SectLabel::Tr2crfpp;
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  use SectLabel::PostProcess;
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  use CSXUtil::SafeText qw(cleanXML);
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- my $generic_sect_path = $FindBin::Bin . "/sectLabel/genericSectExtract.rb";
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+ my $generic_sect_path = $parscitHome . "bin/sectLabel/genericSectExtract.rb";
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  ###
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  # Main API method for generating an XML document including all
data/parscit/lib/SectLabel/Tr2crfpp.pm CHANGED
@@ -13,14 +13,16 @@ use utf8;
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  use strict 'vars';
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  # Dependencies
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- use FindBin;
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  use Encode ();
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+ use File::Basename;
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+ my $dir = dirname(__FILE__);
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+ my $parscitHome = "$dir/../../";
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  # Local libraries
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  use SectLabel::Config;
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  ### USER customizable section
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- my $crf_test = $ENV{'CRFPP_HOME'} ? "$ENV{'CRFPP_HOME'}/bin/crf_test" : "$FindBin::Bin/../$SectLabel::Config::crf_test";
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+ my $crf_test = $ENV{'CRFPP_HOME'} ? "$ENV{'CRFPP_HOME'}/bin/crf_test" : "$parscitHome/$SectLabel::Config::crf_test";
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  ### END user customizable section
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  my %dict = ();
metadata CHANGED
@@ -2,14 +2,14 @@
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  name: biblicit
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  version: !ruby/object:Gem::Version
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  prerelease:
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- version: 2.2.0
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+ version: 2.2.1
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  platform: ruby
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  authors:
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  - David Judd
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  autorequire:
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  bindir: bin
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  cert_chain: []
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- date: 2013-05-07 00:00:00.000000000 Z
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+ date: 2013-05-08 00:00:00.000000000 Z
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  dependencies:
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  - !ruby/object:Gem::Dependency
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  prerelease: false
@@ -435,7 +435,7 @@ required_ruby_version: !ruby/object:Gem::Requirement
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  - !ruby/object:Gem::Version
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  segments:
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  - 0
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- hash: -1273271501522024016
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+ hash: 782848681955337634
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  version: '0'
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  none: false
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  required_rubygems_version: !ruby/object:Gem::Requirement
@@ -444,7 +444,7 @@ required_rubygems_version: !ruby/object:Gem::Requirement
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  - !ruby/object:Gem::Version
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  segments:
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  - 0
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- hash: -1273271501522024016
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+ hash: 782848681955337634
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  version: '0'
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  none: false
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  requirements: