Add CITATION file to default outputs

Related to #2
molbiodiv · Nov 12, 2018 · 72c6c43 · 72c6c43
1 parent 232906c
commit 72c6c43
Show file tree

Hide file tree

Showing 2 changed files with 8 additions and 0 deletions.
diff --git a/bin/reference_db_creator.pl b/bin/reference_db_creator.pl
@@ -219,6 +219,7 @@ =head1 CODE
 # TODO #10
 #$reference_db_creator->write_summary_statistics();
 $reference_db_creator->create_krona_summary();
+$reference_db_creator->add_citation_file();
 
 sub logfile{
 	return "$opt_outdir/reference_db_creator.log";

diff --git a/lib/ReferenceDbCreator.pm b/lib/ReferenceDbCreator.pm
@@ -3,6 +3,7 @@ package ReferenceDbCreator;
 use Log::Log4perl qw(:no_extra_logdie_message);
 use File::Path qw(make_path);
 use NCBI::Taxonomy;
+use FindBin;
 
 our $VERSION = '0.0.1';
 
@@ -237,6 +238,12 @@ sub create_krona_summary{
 	$self->run_command($cmd, $msg);
 }
 
+sub add_citation_file{
+	my $self = shift;
+	my $outdir = $self->{outdir};
+	$self->run_command("cp $FindBin::RealBin/../CITATION $outdir/", "Add CITATION file to output directory");
+}
+
 sub run_command{
 	my $self = shift;
 	my $cmd = shift;