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: App::Sandy, App::Sandy::BGZF, App::Sandy::CLI, App::Sandy::CLI::App, App::Sandy::CLI::Command, App::Sandy::Command::Citation, App::Sandy::Command::Expression, App::Sandy::Command::Expression::Add, App::Sandy::Command::Expression::Dump, App::Sandy::Command::Expression::Remove, App::Sandy::Command::Expression::Restore, App::Sandy::Command::Genome, App::Sandy::Command::Quality, App::Sandy::Command::Quality::Add, App::Sandy::Command::Quality::Dump, App::Sandy::Command::Quality::Remove, App::Sandy::Command::Quality::Restore, App::Sandy::Command::Transcriptome, App::Sandy::Command::Variation, App::Sandy::Command::Variation::Add, App::Sandy::Command::Variation::Dump, App::Sandy::Command::Variation::Remove, App::Sandy::Command::Variation::Restore, App::Sandy::Command::Version, App::Sandy::DB, App::Sandy::DB::Handle::Expression, App::Sandy::DB::Handle::Quality, App::Sandy::DB::Handle::Variation, App::Sandy::InterlaceProcesses, App::Sandy::PieceTable, App::Sandy::Quality, App::Sandy::Read, App::Sandy::Read::PairedEnd, App::Sandy::Read::SingleEnd, App::Sandy::Role::BSearch, App::Sandy::Role::Counter, App::Sandy::Role::Digest, App::Sandy::Role::IO, App::Sandy::Role::ParseArgv, App::Sandy::Role::RNorm, App::Sandy::Role::RunTimeTemplate, App::Sandy::Role::SeqID, App::Sandy::Role::Statistic, App::Sandy::Role::Template::Fastq, App::Sandy::Role::Template::Sam, App::Sandy::Seq, App::Sandy::Seq::PairedEnd, App::Sandy::Seq::SingleEnd, App::Sandy::Simulator, App::Sandy::WeightedRaffle

use_warnings

Add 'use warnings' (or its equivalents) to all modules (this will require perl > 5.6), or convince us that your favorite module is well-known enough and people can easily see the modules warn when something bad happens.

Error: App::Sandy, App::Sandy::BGZF, App::Sandy::CLI, App::Sandy::CLI::App, App::Sandy::CLI::Command, App::Sandy::Command::Citation, App::Sandy::Command::Expression, App::Sandy::Command::Expression::Add, App::Sandy::Command::Expression::Dump, App::Sandy::Command::Expression::Remove, App::Sandy::Command::Expression::Restore, App::Sandy::Command::Genome, App::Sandy::Command::Quality, App::Sandy::Command::Quality::Add, App::Sandy::Command::Quality::Dump, App::Sandy::Command::Quality::Remove, App::Sandy::Command::Quality::Restore, App::Sandy::Command::Transcriptome, App::Sandy::Command::Variation, App::Sandy::Command::Variation::Add, App::Sandy::Command::Variation::Dump, App::Sandy::Command::Variation::Remove, App::Sandy::Command::Variation::Restore, App::Sandy::Command::Version, App::Sandy::DB, App::Sandy::DB::Handle::Expression, App::Sandy::DB::Handle::Quality, App::Sandy::DB::Handle::Variation, App::Sandy::InterlaceProcesses, App::Sandy::PieceTable, App::Sandy::Quality, App::Sandy::Read, App::Sandy::Read::PairedEnd, App::Sandy::Read::SingleEnd, App::Sandy::Role::BSearch, App::Sandy::Role::Counter, App::Sandy::Role::Digest, App::Sandy::Role::IO, App::Sandy::Role::ParseArgv, App::Sandy::Role::RNorm, App::Sandy::Role::RunTimeTemplate, App::Sandy::Role::SeqID, App::Sandy::Role::Statistic, App::Sandy::Role::Template::Fastq, App::Sandy::Role::Template::Sam, App::Sandy::Seq, App::Sandy::Seq::PairedEnd, App::Sandy::Seq::SingleEnd, App::Sandy::Simulator, App::Sandy::WeightedRaffle

build_prereq_matches_use

List all modules used in the test suite in META.yml build_requires

Error:

  • Test::Pod

meta_yml_has_provides

Add all modules contained in this distribution to the META.yml field 'provides'. Module::Build or Dist::Zilla::Plugin::MetaProvides do this automatically for you.

Modules

Name Abstract Version View
App::Sandy App builder that simulates single-end and paired-end reads. 0.20 metacpan
App::Sandy::BGZF Wrapper around Compress::BGZF::Writer in order metacpan
App::Sandy::Base Policy and base module to App::Sandy project. 0.20 metacpan
App::Sandy::CLI Base class for command line interface. 0.20 metacpan
App::Sandy::CLI::App App::Sandy::CLI subclass for command line application interface. 0.20 metacpan
App::Sandy::CLI::Command App::Sandy::CLI subclass for commands interface 0.20 metacpan
App::Sandy::Command::Citation citation command class. Print citation 0.20 metacpan
App::Sandy::Command::Expression expression command class. Manage expression-matrix database. 0.20 metacpan
App::Sandy::Command::Expression::Add expression subcommand class. Add an expression-matrix to the database. 0.20 metacpan
App::Sandy::Command::Expression::Dump expression subcommand class. Dump an expression-matrix from database. 0.20 metacpan
App::Sandy::Command::Expression::Remove expression subcommand class. Remove an expression-matrix from database. 0.20 metacpan
App::Sandy::Command::Expression::Restore expression subcommand class. Restore database. 0.20 metacpan
App::Sandy::Command::Genome simulate command class. Simulate genome sequencing 0.20 metacpan
App::Sandy::Command::Quality quality command class. Manage quality profile database. 0.20 metacpan
App::Sandy::Command::Quality::Add quality subcommand class. Add a quality profile to the database. 0.20 metacpan
App::Sandy::Command::Quality::Dump quality subcommand class. Dump a quality profile from database. 0.20 metacpan
App::Sandy::Command::Quality::Remove quality subcommand class. Remove a quality profile from database. 0.20 metacpan
App::Sandy::Command::Quality::Restore quality subcommand class. Restore database. 0.20 metacpan
App::Sandy::Command::Transcriptome simulate command class. Simulate transcriptome sequencing 0.20 metacpan
App::Sandy::Command::Variation variation command class. Manage structural variation database. 0.20 metacpan
App::Sandy::Command::Variation::Add variation subcommand class. Add structural variation to the database. 0.20 metacpan
App::Sandy::Command::Variation::Dump variation subcommand class. Dump structural variation from database. 0.20 metacpan
App::Sandy::Command::Variation::Remove variation subcommand class. Remove structural variation from database. 0.20 metacpan
App::Sandy::Command::Variation::Restore variation subcommand class. Restore database. 0.20 metacpan
App::Sandy::Command::Version version command class. Print version 0.20 metacpan
App::Sandy::DB Singleton class to manage database 0.20 metacpan
App::Sandy::DB::Handle::Expression Class to handle expression-matrix database schemas. 0.20 metacpan
App::Sandy::DB::Handle::Quality Class to handle quality database schemas. 0.20 metacpan
App::Sandy::DB::Handle::Variation Class to handle structural variation database schemas. 0.20 metacpan
App::Sandy::DB::Schema metacpan
App::Sandy::DB::Schema::Result::ExpressionMatrix metacpan
App::Sandy::DB::Schema::Result::QualityProfile metacpan
App::Sandy::DB::Schema::Result::StructuralVariation metacpan
App::Sandy::InterlaceProcesses Interlaces the processe id for differents processes, actually for parent, child processes. 0.20 metacpan
App::Sandy::PieceTable Implement a piece table data structure class 0.20 metacpan
App::Sandy::Quality Class to simulate quality entries 0.20 metacpan
App::Sandy::Read Base class to simulate reads 0.20 metacpan
App::Sandy::Read::PairedEnd App::Sandy::Read subclass for simulate paired-end reads. 0.20 metacpan
App::Sandy::Read::SingleEnd App::Sandy::Read subclass for simulate single-end reads. 0.20 metacpan
App::Sandy::Role::BSearch Binary search role metacpan
App::Sandy::Role::Counter Bayes counter metacpan
App::Sandy::Role::Digest Wrapper on Simulator class for genome/transcriptome sequencing metacpan
App::Sandy::Role::IO Input and output custom wrappers. metacpan
App::Sandy::Role::ParseArgv Getopt::Long wrapper. metacpan
App::Sandy::Role::RNorm Random normal distribution metacpan
App::Sandy::Role::RunTimeTemplate Extends class with runtime printf like function metacpan
App::Sandy::Role::SeqID Role for seqid standardization metacpan
App::Sandy::Role::Statistic Basic statistics metacpan
App::Sandy::Role::Template::Fastq Fastq template role metacpan
App::Sandy::Role::Template::Sam Sam template role 0.20 metacpan
App::Sandy::Seq Base class to simulate seq entries 0.20 metacpan
App::Sandy::Seq::PairedEnd App::Sandy::Seq subclass for simulate paired-end entries. 0.20 metacpan
App::Sandy::Seq::SingleEnd App::Sandy::Seq subclass for simulate single-end entries. 0.20 metacpan
App::Sandy::Simulator Class responsible to make the simulation 0.20 metacpan
App::Sandy::Types Moose type constraints for App::Sandy project 0.20 metacpan
App::Sandy::WeightedRaffle Weighted raffle interface. 0.20 metacpan

Other Files

Changes metacpan
MANIFEST metacpan
META.json metacpan
META.yml metacpan
Makefile.PL metacpan
README.md metacpan
dist.ini metacpan