Commit 98e5ec60 authored by Tiago Grego's avatar Tiago Grego
Browse files

use warnings

parent 8f136ae9
......@@ -18,7 +18,9 @@ limitations under the License.
=cut
package Bio::EnsEMBL::IO::Adaptor::BAMAdaptor;
use strict;
use warnings;
use Bio::EnsEMBL::Feature;
use Data::Dumper;
......
......@@ -18,8 +18,9 @@ limitations under the License.
=cut
package Bio::EnsEMBL::IO::Adaptor::BigBedAdaptor;
use strict;
use strict;
use warnings;
#########################################################################
# DEPRECATED MODULE - please use Bio::EnsEMBL::IO::Parser::BigBed instead
......
......@@ -18,7 +18,9 @@ limitations under the License.
=cut
package Bio::EnsEMBL::IO::Adaptor::BigWigAdaptor;
use strict;
use warnings;
#########################################################################
# DEPRECATED MODULE - please use Bio::EnsEMBL::IO::Parser::BigBed instead
......
......@@ -18,7 +18,9 @@ limitations under the License.
=cut
package Bio::EnsEMBL::IO::Adaptor::HTSAdaptor;
use strict;
use warnings;
use Bio::EnsEMBL::Feature;
use Data::Dumper;
......
......@@ -23,8 +23,8 @@ package Bio::EnsEMBL::IO::Adaptor::PairwiseAdaptor;
# No longer in use by the webcode; will be removed in November 2016
####################################################################
use strict;
use warnings;
use Bio::EnsEMBL::IO::Parser::PairwiseTabix;
......
......@@ -18,7 +18,9 @@ limitations under the License.
=cut
package Bio::EnsEMBL::IO::Adaptor::VCFAdaptor;
use strict;
use warnings;
use EnsEMBL::Web::Utils::FormatText qw(date_format);
use File::Path qw(make_path);
......
......@@ -18,7 +18,9 @@ limitations under the License.
=cut
package Bio::EnsEMBL::IO::NamedColours;
use strict;
use warnings;
## Simple package to return the Unix named colours
......
......@@ -18,7 +18,9 @@ limitations under the License.
=cut
package Bio::EnsEMBL::Utils::ColourMap;
use strict;
use warnings;
use Bio::EnsEMBL::Utils::NamedColours;
......
......@@ -18,7 +18,9 @@ limitations under the License.
=cut
package Bio::EnsEMBL::Utils::NamedColours;
use strict;
use warnings;
## Simple package to return the Unix named colours
## plus other ones... it is a really just list of colours
......
......@@ -37,6 +37,7 @@ Bio::EnsEMBL::Utils::RDF::Mapper
package Bio::EnsEMBL::Utils::RDF::Mapper;
use strict;
use warnings;
use JSON qw/decode_json/;
use IO::File;
......
......@@ -22,6 +22,7 @@ package EnsEMBL::Web::File::Utils;
### Library for location-independent file functions such as compression support
use strict;
use warnings;
use Compress::Zlib qw//;
use Compress::Bzip2;
......
......@@ -55,6 +55,7 @@ package EnsEMBL::Web::File::Utils::IO;
### }
use strict;
use warnings;
use Bio::EnsEMBL::Utils::IO qw(:all);
use Bio::EnsEMBL::Utils::Exception qw(throw);
......
......@@ -23,6 +23,7 @@ package EnsEMBL::Web::File::Utils::TrackHub;
### which also fetches each file in the trackhub configuration
use strict;
use warnings;
use Digest::MD5 qw(md5_hex);
......
......@@ -33,6 +33,7 @@ package EnsEMBL::Web::File::Utils::URL;
### can access site-wide parameters such as proxies
use strict;
use warnings;
use HTTP::Tiny;
use LWP::UserAgent;
......
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