Dist::Zilla::PluginBundle::Author::CJM - Build a distribution like CJM River stage zero No dependents

This is the plugin bundle that CJM uses. It is equivalent to: [VersionFromModule] [GatherDir] [PruneCruft] [ManifestSkip] [MetaJSON] [MetaYAML] [License] [Test::PrereqsFromMeta] [PodSyntaxTests] [PodCoverageTests] [PodLoom] data = tools/loom.pl [Make...

CJM/Dist-Zilla-PluginBundle-Author-CJM-6.000 - 18 Dec 2017 05:30:52 UTC - Search in distribution

Dist::Zilla::Plugin::TemplateCJM - Process templates, including version numbers & changes River stage zero No dependents

This plugin is the successor to Module::Build::DistVersion. It performs the following actions: 1. It opens the Changes file, and finds the first version listed. The line must begin with the version number, and everything after the version number is c...

CJM/Dist-Zilla-Plugin-TemplateCJM-5.001 - 12 Dec 2015 15:50:19 UTC - Search in distribution

Dist::Zilla::Plugin::GitVersionCheckCJM - Ensure version numbers are up-to-date River stage two • 16 direct dependents • 20 total dependents

This plugin makes sure that module version numbers are updated as necessary. In a distribution with multiple module, I like to update a module's version only when a change is made to that module. In other words, a module's version is the version of t...

CJM/Dist-Zilla-Plugins-CJM-6.000 - 18 Dec 2017 05:29:03 UTC - Search in distribution

Data::Stag - Structured Tags datastructures River stage one • 4 direct dependents • 8 total dependents

This module is for manipulating data as hierarchical tag/value pairs (Structured TAGs or Simple Tree AGgreggates). These datastructures can be represented as nested arrays, which have the advantage of being native to perl. A simple example is shown b...

CMUNGALL/Data-Stag-0.14 - 18 Sep 2013 05:33:02 UTC - Search in distribution
  • stag-diff - finds the difference between two stag files

DBIx::DBStag - Relational Database to Hierarchical (Stag/XML) Mapping River stage zero No dependents

This module is for mapping between relational databases and Stag objects (Structured Tags - see Data::Stag). Stag objects can also be represented as XML. The module has two main uses: Querying This module can take the results of any SQL query and dec...

SCAIN/DBIx-DBStag-0.12 - 01 Feb 2010 15:18:51 UTC - Search in distribution

GO::AppHandle - Gene Ontology Data API handle River stage zero No dependents

This is a module for accessing Gene Ontology data sources, e.g the GO relational database. It defines a set of methods that provide a consistent interface independent of the way the GO data is stored. For an explanation of the GO project, please visi...

SJCARBON/go-db-perl-0.04 - 21 Dec 2009 21:56:44 UTC - Search in distribution

load_seqdatabase.pl River stage zero No dependents

This script loads a BioSQL database with sequences. There are a number of options that have to do with where the database is and how it's accessed and the format and namespace of the input files. These are followed by any number of file names. The fi...

CJFIELDS/BioPerl-DB-1.006900 - 15 Apr 2011 19:35:57 UTC - Search in distribution

CPAN::Meta - the distribution metadata for a CPAN dist River stage five • 432 direct dependents • 18631 total dependents

Software distributions released to the CPAN include a META.json or, for older distributions, META.yml, which describes the distribution, its contents, and the requirements for building and installing the distribution. The data structure stored in the...

DAGOLDEN/CPAN-Meta-2.150010 - 18 Aug 2016 16:11:08 UTC - Search in distribution

Dist::Zilla - distribution builder; installer not included! River stage three • 652 direct dependents • 705 total dependents

Dist::Zilla builds distributions of code to be uploaded to the CPAN. In this respect, it is like ExtUtils::MakeMaker, Module::Build, or Module::Install. Unlike those tools, however, it is not also a system for installing code that has been downloaded...

RJBS/Dist-Zilla-6.025 - 28 May 2022 15:57:31 UTC - Search in distribution

bp_unflatten_seq - unflatten a genbank or genbank-style feature file into a nested SeqFeature hierarchy River stage two • 60 direct dependents • 65 total dependents

This script will unflatten a genbank or genbank-style file of SeqFeatures into a nested hierarchy. See Bio::SeqFeature::Tools::Unflattener In a GenBank/EMBL representation, features are 'flat' - for example, there is no link between an mRNA and a CDS...

CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC - Search in distribution

XML::Lenient - extracts strings from HTML, XML and similarly tagged text. River stage zero No dependents

What XML::Lenient is meant to parse markup languages such as HTML and XML in the knowledge that someone, somewhere, is going to break every rule in the book. It will handle malformed XML, wrongly nested HTML tags and everything else that I have throw...

DAVIES/XML-Lenient-1.0.1 - 15 Nov 2016 13:27:29 UTC - Search in distribution

GO::IO::Blast - Gene Ontology Blast Reports DEPRECATED River stage one • 1 direct dependent • 1 total dependent

parses a blast report (must be a a blast that was performed on a seqdb that can with headers that can be mapped to go terms via the go database) takes the blast hits, and finds the corresponding GO terms (currently it requires the fasta to have "gene...

CMUNGALL/go-perl-0.15 - 12 Jun 2013 16:22:41 UTC - Search in distribution

FAST::Bio::Tools::GFF - A FAST::Bio::SeqAnalysisParserI compliant GFF format parser River stage zero No dependents

This class provides a simple GFF parser and writer. In the sense of a SeqAnalysisParser, it parses an input file or stream into SeqFeatureI objects, but is not in any way specific to a particular analysis program and the output that program produces....

DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC - Search in distribution

Dist::Zilla::Plugin::TestRun - run ./Build runtest on the build distribution River stage zero No dependents

SHLOMIF/Dist-Zilla-Plugin-TestRun-0.0.3 - 22 Oct 2020 14:31:07 UTC - Search in distribution

SQL::Translator::Parser::MySQL - parser for MySQL River stage three • 116 direct dependents • 259 total dependents

The grammar is influenced heavily by Tim Bunce's "mysql2ora" grammar. Here's the word from the MySQL site (http://www.mysql.com/doc/en/CREATE_TABLE.html): CREATE [TEMPORARY] TABLE [IF NOT EXISTS] tbl_name [(create_definition,...)] [table_options] [se...

ILMARI/SQL-Translator-1.62 - 14 Sep 2020 13:21:58 UTC - Search in distribution

OBO::Parser::OBOParser - An OBO (Open Biomedical Ontologies) file parser. River stage zero No dependents

An OBOParser object parses an OBO-formatted file: http://www.geneontology.org/GO.format.obo-1_4.shtml http://berkeleybop.org/~cjm/obo2owl/obo-syntax.html...

EASR/ONTO-PERL-1.45 - 30 Oct 2015 16:04:26 UTC - Search in distribution

MySQL::Workbench::Parser::MySQLParser River stage one • 2 direct dependents • 2 total dependents

The grammar is influenced heavily by Tim Bunce's "mysql2ora" grammar. Here's the word from the MySQL site (http://www.mysql.com/doc/en/CREATE_TABLE.html): CREATE [TEMPORARY] TABLE [IF NOT EXISTS] tbl_name [(create_definition,...)] [table_options] [se...

PERLSRVDE/MySQL-Workbench-Parser-1.11 - 06 Dec 2021 09:49:28 UTC - Search in distribution

Dist::Zilla::Plugin::MetaResourcesFromGit - Metadata resource URLs from Git configuration River stage one • 4 direct dependents • 4 total dependents

This plugin is a drop-in replacement for Dist::Zilla::Plugin::MetaResources for users of Git. It *automatically* provides three resource links to your distribution metadata, based on the name of the distribution and the remote URL of the Git reposito...

OLIVER/Dist-Zilla-Plugin-MetaResourcesFromGit-1.103620 - 28 Dec 2010 20:57:17 UTC - Search in distribution

Dist::Zilla::Plugin::CheckExtraTests - check xt tests before release River stage two • 47 direct dependents • 72 total dependents

Runs all xt tests before release. Dies if any fail. Sets RELEASE_TESTING and AUTHOR_TESTING. If you use Dist::Zilla::Plugin::TestRelease, you should consider using Dist::Zilla::Plugin::RunExtraTests instead, which enables xt tests to run as part of "...

DAGOLDEN/Dist-Zilla-Plugin-CheckExtraTests-0.029 - 23 May 2016 22:54:58 UTC - Search in distribution

pod::README-berkeley-gadfly River stage zero No dependents

LDS/GBrowse-2.56 - 15 Jan 2017 21:29:11 UTC - Search in distribution
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