Bio-Phylo 0.07
- Released by
- RVOSA
- Version
- Release Date
- 2005-10-01
- Kwalitee
- 140.62
- Core Kwalitee
- 93.75
- LINKS
Bio-Phylo 0.07 Deleted
Kwalitee Issues
- buildtool_not_executable
-
Change the permissions of Build.PL/Makefile.PL to not-executable.
- no_pod_errors
-
Remove the POD errors. You can check for POD errors automatically by including Test::Pod to your test suite.
Error: Bio-Phylo-0.07/lib/Bio/Phylo/Manual.pod -- Around line 105: Non-ASCII character seen before =encoding in 'façade'. Assuming CP1252
- meta_yml_declares_perl_version
-
If you are using Build.PL define the {requires}{perl} = VERSION field. If you are using MakeMaker (Makefile.PL) you should upgrade ExtUtils::MakeMaker to 6.48 and use MIN_PERL_VERSION parameter. Perl::MinimumVersion can help you determine which version of Perl your module needs.
- has_meta_json
-
Add a META.json to the distribution. Your buildtool should be able to autogenerate it.
- meta_yml_has_license
-
Define the license if you are using in Build.PL. If you are using MakeMaker (Makefile.PL) you should upgrade to ExtUtils::MakeMaker version 6.31.
- no_invalid_versions
-
Fix the version numbers so that version::is_lax($version) returns true.
Error:
- lib/Bio/Phylo/CONSTANT.pm: HASH(0x560b63e02a98)
- lib/Bio/Phylo/Exceptions.pm: HASH(0x560b648e33a0)
- lib/Bio/Phylo/Forest.pm: HASH(0x560b647c6790)
- lib/Bio/Phylo/Forest/Node.pm: HASH(0x560b647b0b90)
- lib/Bio/Phylo/Forest/Tree.pm: HASH(0x560b6473d970)
- lib/Bio/Phylo/Generator.pm: HASH(0x560b64807608)
- lib/Bio/Phylo/IO.pm: HASH(0x560b646f83f0)
- lib/Bio/Phylo/Listable.pm: HASH(0x560b63e02978)
- lib/Bio/Phylo/Matrices.pm: HASH(0x560b646de3b0)
- lib/Bio/Phylo/Matrices/Alignment.pm: HASH(0x560b646dbf80)
- lib/Bio/Phylo/Matrices/Datum.pm: HASH(0x560b647a4fb8)
- lib/Bio/Phylo/Matrices/Matrix.pm: HASH(0x560b64933858)
- lib/Bio/Phylo/Matrices/Sequence.pm: HASH(0x560b64828f30)
- lib/Bio/Phylo/Parsers/Newick.pm: HASH(0x560b6479af28)
- lib/Bio/Phylo/Parsers/Nexus.pm: HASH(0x560b646ad458)
- lib/Bio/Phylo/Parsers/Table.pm: HASH(0x560b646ee730)
- lib/Bio/Phylo/Parsers/Taxlist.pm: HASH(0x560b647dfac0)
- lib/Bio/Phylo/Taxa.pm: HASH(0x560b646d84d8)
- lib/Bio/Phylo/Taxa/Taxon.pm: HASH(0x560b64756ce0)
- lib/Bio/Phylo/Treedrawer.pm: HASH(0x560b64650310)
- lib/Bio/Phylo/Treedrawer/SVG.pm: HASH(0x560b648694c8)
- lib/Bio/Phylo/Unparsers/Newick.pm: HASH(0x560b64689aa8)
- lib/Bio/Phylo/Unparsers/Pagel.pm: HASH(0x560b6476b368)
- 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.
- 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).
- has_separate_license_file
-
This is not a critical issue. Currently mainly informative for the CPANTS authors. It might be removed later.
- has_security_doc
-
Add SECURITY(.pod|md). See Software::Security::Policy.
- security_doc_contains_contact
-
Add SECURITY(.pod|md) and add a contact address. See Software::Security::Policy.
- has_contributing_doc
-
Add CONTRIBUTING(.pod|md). See https://docs.github.com/en/communities/setting-up-your-project-for-healthy-contributions/setting-guidelines-for-repository-contributors.
Modules
| Name | Abstract | Version | View |
|---|---|---|---|
| Bio::Phylo | Phylogenetic analysis using perl. | 0.07 | metacpan |
| Bio::Phylo::CONSTANT | Global constants for Bio::Phylo. No serviceable parts inside. | metacpan | |
| Bio::Phylo::Exceptions | Exception classes for Bio::Phylo. No serviceable parts inside. | metacpan | |
| Bio::Phylo::Forest | The forest object, a set of phylogenetic trees. | metacpan | |
| Bio::Phylo::Forest::Node | The tree node object. | metacpan | |
| Bio::Phylo::Forest::Tree | The tree object. | metacpan | |
| Bio::Phylo::Generator | Generates random trees. | metacpan | |
| Bio::Phylo::IO | Input and output of phylogenetic data. | metacpan | |
| Bio::Phylo::Listable | Abstract class for listable/iterator objects. | metacpan | |
| Bio::Phylo::Matrices | Holds a set of matrix objects. | metacpan | |
| Bio::Phylo::Matrices::Alignment | The alignment object to aggregate sequences. | metacpan | |
| Bio::Phylo::Matrices::Datum | The single observations object. | metacpan | |
| Bio::Phylo::Matrices::Matrix | The matrix object to aggregate datum objects. | metacpan | |
| Bio::Phylo::Matrices::Sequence | The molecular sequence object. | metacpan | |
| Bio::Phylo::Parsers::Newick | Parses newick trees. No serviceable parts inside. | metacpan | |
| Bio::Phylo::Parsers::Nexus | Parses nexus files. No serviceable parts inside. | metacpan | |
| Bio::Phylo::Parsers::Table | Parses tab- (or otherwise) delimited matrices. No serviceable parts inside. | metacpan | |
| Bio::Phylo::Parsers::Taxlist | Parses lists of taxon names. No serviceable parts inside. | metacpan | |
| Bio::Phylo::Taxa | An object-oriented module for managing taxa. | metacpan | |
| Bio::Phylo::Taxa::Taxon | The operational taxonomic unit. | metacpan | |
| Bio::Phylo::Treedrawer | An object-oriented facade for drawing trees. | metacpan | |
| Bio::Phylo::Treedrawer::SVG | Creates svg tree drawings. No serviceable parts inside. | metacpan | |
| Bio::Phylo::Unparsers::Newick | Unparses newick trees. No serviceable parts inside. | metacpan | |
| Bio::Phylo::Unparsers::Pagel | Unparses pagel data files. No serviceable parts inside. | metacpan |