biology/p5-Bio-MAGETAB 1.31_2 FreeBSD

Data model and utility API for the MAGE-TAB format

System: FreeBSD
Repository: FreeBSD ports
Maintainer: [email protected]
License: GPLv2
Categories: biology, perl5
Package size: 167.5 KiB, 580.3 KiB installed

Description

p5-Bio-MAGETAB contains the core MAGE-TAB Utilities Perl modules. This is a beta release. All functions have now been implemented and most have test suites; the exceptions include the modules involved in export of MAGE-TAB documents, which are still a little experimental in nature. The API is mostly finalised (and fully documented), but some details may yet change where necessary to improve usability.

In the other systems

The newest version among them is 1.31, as upstream numbers it.

System

Port

Version

Vulnerabilities

Status

Maintainer

Last update

FreeBSD

biology/p5-Bio-MAGETAB

1.31_2 newest

none known

[email protected]

DragonFly

biology/p5-Bio-MAGETAB

1.31_2 newest

none known

[email protected]

HardenedBSD

biology/p5-Bio-MAGETAB

1.31_2 newest

no data

[email protected]

GhostBSD

biology/p5-Bio-MAGETAB

1.31_2 newest

no data

[email protected]

Install

Binary package:

pkg install p5-Bio-MAGETAB

From the ports tree:

cd /usr/ports/biology/p5-Bio-MAGETAB/ && make install clean

To depend on this port in another port's Makefile:

RUN_DEPENDS=	p5-Bio-MAGETAB>0:biology/p5-Bio-MAGETAB

Packages

The version each package repository carries. “-” means the repository builds no package of it, “n/a” that there is no such repository.

Repository

aarch64

amd64

armv6

armv7

i386

FreeBSD:14:latest

1.31_2

FreeBSD:14:quarterly

1.31_2

n/a

1.31_2

FreeBSD:15:latest

1.31_2

n/a

1.31_2

FreeBSD:15:quarterly

1.31_2

n/a

FreeBSD:16:latest

1.31_2

n/a

FreeBSD:16:quarterly

n/a

Dependency graph

Ports that need it on the left, what it needs to run on the right; at most 8 of each. "Dependencies" below lists them all.

graph LR
  me["biology/p5-Bio-MAGETAB"]
  me --> d0["converters/p5-MIME-Base32"]
  me --> d1["converters/p5-MIME-Base64"]
  me --> d2["devel/p5-Algorithm-C3"]
  me --> d3["devel/p5-B-Hooks-EndOfScope"]
  me --> d4["devel/p5-Carp-Clan"]
  me --> d5["devel/p5-Class-C3"]
  me --> d6["devel/p5-Class-Data-Inheritable"]
  me --> d7["devel/p5-Class-Inspector"]
  me -.-> dmore(["57 more"])
  classDef this fill:#ab2b28,color:#ffffff,stroke:#ab2b28
  class me this

Dependencies

As this port's Makefile names them.

Build 11

p5-Date-Manip>=5.44 : devel/p5-Date-Manip
p5-DateTime>=0.43.02 : devel/p5-DateTime
p5-DateTime-Format-DateManip>=0.04 : devel/p5-DateTime-Format-DateManip
p5-Email-Valid>=0.179 : mail/p5-Email-Valid
p5-Moose>=0.43 : devel/p5-Moose
p5-MooseX-FollowPBP>=0.04 : devel/p5-MooseX-FollowPBP
p5-MooseX-Types>=0.10 : devel/p5-MooseX-Types
p5-Params-Coerce>=0.14 : devel/p5-Params-Coerce
p5-Parse-RecDescent>=1.965001 : devel/p5-Parse-RecDescent
p5-Text-CSV_XS>=0.32 : textproc/p5-Text-CSV_XS
p5-URI>=1.35 : net/p5-URI

Runtime 11

p5-Date-Manip>=5.44 : devel/p5-Date-Manip
p5-DateTime>=0.43.02 : devel/p5-DateTime
p5-DateTime-Format-DateManip>=0.04 : devel/p5-DateTime-Format-DateManip
p5-Email-Valid>=0.179 : mail/p5-Email-Valid
p5-Moose>=0.43 : devel/p5-Moose
p5-MooseX-FollowPBP>=0.04 : devel/p5-MooseX-FollowPBP
p5-MooseX-Types>=0.10 : devel/p5-MooseX-Types
p5-Params-Coerce>=0.14 : devel/p5-Params-Coerce
p5-Parse-RecDescent>=1.965001 : devel/p5-Parse-RecDescent
p5-Text-CSV_XS>=0.32 : textproc/p5-Text-CSV_XS
p5-URI>=1.35 : net/p5-URI

Test 1

p5-Test-Exception>=0.26 : devel/p5-Test-Exception

The full lists below include those, and their dependencies in turn.

Build dependencies 65

Run dependencies 65

No port depends on this one.

Configuration

No options to configure.

USES: perl5
Service scripts: none

Files

pkg-plist 118

bin/deploy_magetab_db.pl
bin/fix_ae_magetab.pl
bin/read_magetab.pl
bin/unload_magetab_namespace.pl
%%SITE_PERL%%/Bio/MAGETAB.pm
%%SITE_PERL%%/Bio/MAGETAB/ArrayDesign.pm
%%SITE_PERL%%/Bio/MAGETAB/Assay.pm
%%SITE_PERL%%/Bio/MAGETAB/BaseClass.pm
%%SITE_PERL%%/Bio/MAGETAB/Comment.pm
%%SITE_PERL%%/Bio/MAGETAB/CompositeElement.pm
%%SITE_PERL%%/Bio/MAGETAB/Contact.pm
%%SITE_PERL%%/Bio/MAGETAB/ControlledTerm.pm
%%SITE_PERL%%/Bio/MAGETAB/Data.pm
%%SITE_PERL%%/Bio/MAGETAB/DataAcquisition.pm
%%SITE_PERL%%/Bio/MAGETAB/DataFile.pm
%%SITE_PERL%%/Bio/MAGETAB/DataMatrix.pm
%%SITE_PERL%%/Bio/MAGETAB/DatabaseEntry.pm
%%SITE_PERL%%/Bio/MAGETAB/DesignElement.pm
%%SITE_PERL%%/Bio/MAGETAB/Edge.pm
%%SITE_PERL%%/Bio/MAGETAB/Event.pm
%%SITE_PERL%%/Bio/MAGETAB/Extract.pm
%%SITE_PERL%%/Bio/MAGETAB/Factor.pm
%%SITE_PERL%%/Bio/MAGETAB/FactorValue.pm
%%SITE_PERL%%/Bio/MAGETAB/Feature.pm
%%SITE_PERL%%/Bio/MAGETAB/Investigation.pm
%%SITE_PERL%%/Bio/MAGETAB/LabeledExtract.pm
%%SITE_PERL%%/Bio/MAGETAB/Material.pm
%%SITE_PERL%%/Bio/MAGETAB/MatrixColumn.pm
%%SITE_PERL%%/Bio/MAGETAB/MatrixRow.pm
%%SITE_PERL%%/Bio/MAGETAB/Measurement.pm
%%SITE_PERL%%/Bio/MAGETAB/Node.pm
%%SITE_PERL%%/Bio/MAGETAB/Normalization.pm
%%SITE_PERL%%/Bio/MAGETAB/ParameterValue.pm
%%SITE_PERL%%/Bio/MAGETAB/Protocol.pm
%%SITE_PERL%%/Bio/MAGETAB/ProtocolApplication.pm
%%SITE_PERL%%/Bio/MAGETAB/ProtocolParameter.pm
%%SITE_PERL%%/Bio/MAGETAB/Publication.pm
%%SITE_PERL%%/Bio/MAGETAB/Reporter.pm
%%SITE_PERL%%/Bio/MAGETAB/SDRF.pm
%%SITE_PERL%%/Bio/MAGETAB/SDRFRow.pm
%%SITE_PERL%%/Bio/MAGETAB/Sample.pm
%%SITE_PERL%%/Bio/MAGETAB/Source.pm
%%SITE_PERL%%/Bio/MAGETAB/TermSource.pm
%%SITE_PERL%%/Bio/MAGETAB/Types.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/Builder.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/DBLoader.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/Persistence.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/Reader.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/Reader/ADF.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/Reader/DataMatrix.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/Reader/IDF.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/Reader/SDRF.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/Reader/Tabfile.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/Reader/TagValueFile.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/RewriteAE.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/Writer.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/Writer/ADF.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/Writer/GraphViz.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/Writer/IDF.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/Writer/SDRF.pm
%%SITE_PERL%%/Bio/MAGETAB/Util/Writer/Tabfile.pm
%%PERL5_MAN3%%/Bio::MAGETAB.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::ArrayDesign.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Assay.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::BaseClass.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Comment.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::CompositeElement.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Contact.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::ControlledTerm.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Data.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::DataAcquisition.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::DataFile.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::DataMatrix.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::DatabaseEntry.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::DesignElement.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Edge.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Event.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Extract.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Factor.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::FactorValue.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Feature.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Investigation.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::LabeledExtract.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Material.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::MatrixColumn.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::MatrixRow.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Measurement.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Node.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Normalization.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::ParameterValue.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Protocol.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::ProtocolApplication.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::ProtocolParameter.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Publication.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Reporter.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::SDRF.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::SDRFRow.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Sample.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::Source.3.gz
%%PERL5_MAN3%%/Bio::MAGETAB::TermSource.3.gz

The first 100 are listed.

distinfo 1

File

Size

SHA256

Bio-MAGETAB-1.31.tar.gz

255578

d94954a4d4d942774be85d80cff244b94e43c19c060019e4d7d5eebb1004d774

Master sites 1

CPAN

Commit history 0

No commits in the history this site was built from.