update svn ignore

[function2gene.git] / bin / function2gene

diff --git a/bin/function2gene b/bin/function2gene
index de4915bc4f95ecbdd9c564ffb7de88938658d4c0..962be188411a6a59d31b893001924bcedba161ec 100755 (executable)
--- a/bin/function2gene
+++ b/bin/function2gene
@@ -53,8 +53,8 @@ the system
 =item B<--database>
 
 Databases to search, can be specified multiple times. [Defaults to
-NCBI, GeneCards and Harvester, the only currently supported
-databases.]
+NCBI, GeneCards and Harvester, but ensembl and uniprot are also
+supported currently.]
 
 =item B<--restart-at>
 
@@ -130,7 +130,7 @@ $ERRORS.="restart-at must be one of get, parse or combine\n" if
 
 $ERRORS.="unknown database(s)" if
      @{$options{databases}} and
-     grep {$_ !~ /^(?:ncbi|genecard|harvester)$/i} @{$options{databases}};
+     grep {$_ !~ /^(?:ncbi|genecard|harvester|ensembl|uniprot)$/i} @{$options{databases}};
 
 if (not length $options{results}) {
      $ERRORS.="results directory not specified";
@@ -192,6 +192,7 @@ if (@{$options{keywords}}) {
               next if /^\s*[#;]/;
               next unless /\w+/;
               chomp;
+              s/\r$//;
               my ($keyword,$weight) = split /\t/, $_;
               $weight = 1 if not defined $weight;
               $state{keyword_weight}{$keyword} = $weight;
@@ -296,6 +297,9 @@ for my $keyword (@{$state{keywords}}) {
      }
 }
 
+$SIG{INT} = sub {
+     save_state(\%state);
+};
 
 for my $state (qw(get parse)) {
      my %databases;