GBrowse 2.56
- Released by
- LDS
- Version
- Release Date
- 2017-01-16
- Kwalitee
- 143.75
- Core Kwalitee
- 90.62
- LINKS
GBrowse 2.56 Latest
Kwalitee Issues
- use_strict
-
Add 'use strict' (or its equivalents) to all modules, or convince us that your favorite module is well-known enough and people can easily see the modules are strictly written.
Error: Bio::DB::Tagger::Tag, Bio::Graphics::Browser2::Shellwords
- main_module_version_matches_dist_version
-
Make sure that the main module name and version are the same of the distribution.
- no_pod_errors
-
Remove the POD errors. You can check for POD errors automatically by including Test::Pod to your test suite.
Error: GBrowse-2.56/contrib/install_macosx/BuildConfig.pm -- Around line 24: Unknown directive: =over4 Around line 26: '=item' outside of any '=over' GBrowse-2.56/docs/pod/CONFIGURE_HOWTO.pod -- Around line 1185: Expected '=item *' Around line 1202: Expected '=item *' Around line 1212: Expected '=item *' Around line 2352: Non-ASCII character seen before =encoding in 'Gènes'. Assuming CP1252 GBrowse-2.56/docs/pod/FAQ.pod -- Around line 48: Unknown E content in E<gmod-gbrowse@lists.sourceforge.net> GBrowse-2.56/lib/Bio/Graphics/Browser2/AuthorizedFeatureFile.pm -- Around line 26: =over is the last thing in the document?! GBrowse-2.56/lib/Bio/Graphics/Browser2/DataBase.pm -- Around line 69: '=item' outside of any '=over' =over without closing =back GBrowse-2.56/lib/Bio/Graphics/Browser2/DataSource.pm -- Around line 153: You forgot a '=back' before '=head2' Around line 874: '=item' outside of any '=over' Around line 1118: You forgot a '=back' before '=head2'
- use_warnings
-
Add 'use warnings' (or its equivalents) to all modules, or convince us that your favorite module is well-known enough and people can easily see the modules warn when something bad happens.
Error: Bio::DB::GFF::Aggregator::match_gap, Bio::DB::GFF::Aggregator::reftranscript, Bio::DB::GFF::Aggregator::waba_alignment, Bio::DB::GFF::Aggregator::wormbase_gene, Bio::DB::SeqFeature::Store::Alias, Bio::DB::SeqFeature::Store::BedLoader, Bio::DB::SeqFeature::Store::LoadHelper, Bio::DB::Tagger::Tag, Bio::Graphics::Browser2::Action, Bio::Graphics::Browser2::CAlign, Bio::Graphics::Browser2::DataLoader, Bio::Graphics::Browser2::DataLoader::archive, Bio::Graphics::Browser2::DataLoader::bam, Bio::Graphics::Browser2::DataLoader::bed, Bio::Graphics::Browser2::DataLoader::bigbed, Bio::Graphics::Browser2::DataLoader::bigwig, Bio::Graphics::Browser2::DataLoader::featurefile, Bio::Graphics::Browser2::DataLoader::generic, Bio::Graphics::Browser2::DataLoader::gff, Bio::Graphics::Browser2::DataLoader::gff3, Bio::Graphics::Browser2::DataLoader::sam, Bio::Graphics::Browser2::DataLoader::useq, Bio::Graphics::Browser2::DataLoader::wig2bigwig, Bio::Graphics::Browser2::DataLoader::wiggle, Bio::Graphics::Browser2::ExternalData, Bio::Graphics::Browser2::GFFhelper, Bio::Graphics::Browser2::I18n, Bio::Graphics::Browser2::Markup, Bio::Graphics::Browser2::OptionPick, Bio::Graphics::Browser2::PadAlignment, Bio::Graphics::Browser2::Plugin, Bio::Graphics::Browser2::Plugin::AuthPlugin, Bio::Graphics::Browser2::PluginSet, Bio::Graphics::Browser2::Realign, Bio::Graphics::Browser2::RemoteSet, Bio::Graphics::Browser2::Render::Slave, Bio::Graphics::Browser2::Render::Slave::AWS_Balancer, Bio::Graphics::Browser2::SendMail, Bio::Graphics::Browser2::Shellwords, Bio::Graphics::Browser2::TrackDumper, Bio::Graphics::Browser2::TrackDumper::RichSeqMaker, Bio::Graphics::Browser2::UserDB, Bio::Graphics::Browser2::UserTracks, Bio::Graphics::Browser2::UserTracks::Database, Bio::Graphics::Browser2::UserTracks::Filesystem, Bio::Graphics::Browser2::Util, Bio::Graphics::Karyotype, CGI::Toggle, Legacy::DB::SyntenyBlock, Legacy::DB::SyntenyIO, Legacy::Graphics::Browser, Legacy::Graphics::Browser::I18n, Legacy::Graphics::Browser::PageSettings, Legacy::Graphics::Browser::Synteny, Legacy::Graphics::Browser::Util
- consistent_version
-
Split the distribution, or fix the version numbers to make them consistent (use the highest version number to avoid version downgrade).
Error: 0.01,0.10,0.20,0.30,0.5,1.00,1.01,1.10,1.17,2.56
- meta_yml_has_repository_resource
-
Add a 'repository' resource to the META.yml via 'meta_add' accessor (for Module::Build) or META_ADD parameter (for ExtUtils::MakeMaker).
Modules
| Name | Abstract | Version | View |
|---|---|---|---|
| Bio::DB::GFF::Aggregator::match_gap | GFF3 match aggregator | metacpan | |
| Bio::DB::GFF::Aggregator::reftranscript | 0.10 | metacpan | |
| Bio::DB::GFF::Aggregator::waba_alignment | A WABA alignment | 0.20 | metacpan |
| Bio::DB::GFF::Aggregator::wormbase_gene | Wormbase gene aggregator | 0.30 | metacpan |
| Bio::DB::SeqFeature::Store::Alias | metacpan | ||
| Bio::DB::SeqFeature::Store::Alias::Iterator | metacpan | ||
| Bio::DB::SeqFeature::Store::Alias::Segment | metacpan | ||
| Bio::DB::SeqFeature::Store::BedLoader | metacpan | ||
| Bio::DB::SeqFeature::Store::LoadHelper | Internal utility for Bio::DB::SeqFeature::Store | 1.10 | metacpan |
| Bio::DB::Tagger | Simple object tagging system | 1.00 | metacpan |
| Bio::DB::Tagger::Iterator | metacpan | ||
| Bio::DB::Tagger::Tag | Authored tags | metacpan | |
| Bio::DB::Tagger::mysql | metacpan | ||
| Bio::Graphics::Browser2 | 2.56 | metacpan | |
| Bio::Graphics::Browser2::Action | metacpan | ||
| Bio::Graphics::Browser2::AdminTracks | metacpan | ||
| Bio::Graphics::Browser2::AuthorizedFeatureFile | Add HTTP authorization features to FeatureFile | metacpan | |
| Bio::Graphics::Browser2::CAlign | Compiled helper for Bio::Graphics::Browser::Realign | metacpan | |
| Bio::Graphics::Browser2::CachedTrack | metacpan | ||
| Bio::Graphics::Browser2::DataBase | A simple cache for database handles | metacpan | |
| Bio::Graphics::Browser2::DataLoader | metacpan | ||
| Bio::Graphics::Browser2::DataLoader::archive | metacpan | ||
| Bio::Graphics::Browser2::DataLoader::bam | metacpan | ||
| Bio::Graphics::Browser2::DataLoader::bed | metacpan | ||
| Bio::Graphics::Browser2::DataLoader::bigbed | metacpan | ||
| Bio::Graphics::Browser2::DataLoader::bigwig | metacpan | ||
| Bio::Graphics::Browser2::DataLoader::featurefile | metacpan | ||
| Bio::Graphics::Browser2::DataLoader::generic | metacpan | ||
| Bio::Graphics::Browser2::DataLoader::gff | metacpan | ||
| Bio::Graphics::Browser2::DataLoader::gff3 | metacpan | ||
| Bio::Graphics::Browser2::DataLoader::sam | metacpan | ||
| Bio::Graphics::Browser2::DataLoader::useq | metacpan | ||
| Bio::Graphics::Browser2::DataLoader::wig2bigwig | metacpan | ||
| Bio::Graphics::Browser2::DataLoader::wiggle | metacpan | ||
| Bio::Graphics::Browser2::DataSource | metacpan | ||
| Bio::Graphics::Browser2::ExternalData | metacpan | ||
| Bio::Graphics::Browser2::GFFhelper | Helps gbrowse plugins handle GFF | metacpan | |
| Bio::Graphics::Browser2::I18n | metacpan | ||
| Bio::Graphics::Browser2::Markup | Markup routines for sequences in text form | metacpan | |
| Bio::Graphics::Browser2::MetaDB | metacpan | ||
| Bio::Graphics::Browser2::MetaSegment | metacpan | ||
| Bio::Graphics::Browser2::MetaSegment::Iterator | metacpan | ||
| Bio::Graphics::Browser2::OptionPick | Pick options | metacpan | |
| Bio::Graphics::Browser2::PadAlignment | Insert pads into a multiple alignment | metacpan | |
| Bio::Graphics::Browser2::Plugin | Base class for gbrowse plugins. | 0.30 | metacpan |
| Bio::Graphics::Browser2::Plugin::AuthPlugin | Base class for authentication plugins | metacpan | |
| Bio::Graphics::Browser2::PluginSet | A set of plugins | metacpan | |
| Bio::Graphics::Browser2::Realign | Perl extension for Smith-Waterman alignments | metacpan | |
| Bio::Graphics::Browser2::Region | metacpan | ||
| Bio::Graphics::Browser2::RegionSearch | Search through multiple databases for feature matches. | metacpan | |
| Bio::Graphics::Browser2::RemoteSet | metacpan | ||
| Bio::Graphics::Browser2::Render | metacpan | ||
| Bio::Graphics::Browser2::Render::HTML | metacpan | ||
| Bio::Graphics::Browser2::Render::HTML::TrackListing | metacpan | ||
| Bio::Graphics::Browser2::Render::HTML::TrackListing::Categories | metacpan | ||
| Bio::Graphics::Browser2::Render::Login | metacpan | ||
| Bio::Graphics::Browser2::Render::Slave | metacpan | ||
| Bio::Graphics::Browser2::Render::Slave::AWS_Balancer | metacpan | ||
| Bio::Graphics::Browser2::Render::Slave::StagingServer | metacpan | ||
| Bio::Graphics::Browser2::Render::Slave::Status | metacpan | ||
| Bio::Graphics::Browser2::Render::SnapshotManager | metacpan | ||
| Bio::Graphics::Browser2::Render::TrackConfig | metacpan | ||
| Bio::Graphics::Browser2::RenderPanels | metacpan | ||
| Bio::Graphics::Browser2::SendMail | metacpan | ||
| Bio::Graphics::Browser2::Session | metacpan | ||
| Bio::Graphics::Browser2::Shellwords | metacpan | ||
| Bio::Graphics::Browser2::SubtrackTable | metacpan | ||
| Bio::Graphics::Browser2::TrackDumper | metacpan | ||
| Bio::Graphics::Browser2::TrackDumper::RichSeqMaker | metacpan | ||
| Bio::Graphics::Browser2::UserConf | metacpan | ||
| Bio::Graphics::Browser2::UserDB | 0.5 | metacpan | |
| Bio::Graphics::Browser2::UserTracks | metacpan | ||
| Bio::Graphics::Browser2::UserTracks::Database | metacpan | ||
| Bio::Graphics::Browser2::UserTracks::Filesystem | metacpan | ||
| Bio::Graphics::Browser2::Util | Exported utilities | metacpan | |
| Bio::Graphics::GBrowseFeature | metacpan | ||
| Bio::Graphics::Karyotype | metacpan | ||
| Bio::Graphics::Wiggle::Loader::Nosample | metacpan | ||
| CGI::Toggle | Utility methods for collapsible sections | metacpan | |
| FakeHomol | metacpan | ||
| LRUCache | metacpan | ||
| Legacy::DB::SyntenyBlock | metacpan | ||
| Legacy::DB::SyntenyIO | metacpan | ||
| Legacy::Graphics::Browser | 1.17 | metacpan | |
| Legacy::Graphics::Browser::I18n | 1.01 | metacpan | |
| Legacy::Graphics::Browser::PageSettings | metacpan | ||
| Legacy::Graphics::Browser::Synteny | 0.01 | metacpan | |
| Legacy::Graphics::Browser::Util | metacpan | ||
| Legacy::Graphics::BrowserConfig | metacpan | ||
| MyFeatureFileLoader | metacpan |