Documentation

ParseNcbiLitManager

in package

• Amelaye
• BioPHP
• Domain
• Parser

implements ParseDatabaseInterface

Class ParseNcbiLitManager The NCBI journal list describes periodicals, not sequences, so this class exposes plain scalars rather than the Sequence/Feature entities of ParseDbAbstractManager. It is the only format the library reads whose fields are "Label: value" pairs and whose entries are closed by a row of dashes rather than a double slash.

Tags

author

Amélie DUVERNET aka Amelaye amelieonline@gmail.com

Table of Contents

Interfaces

ParseDatabaseInterface

Interface ParseDatabaseInterface

Properties

$essn  : string

$id  : string

$isoAbbr  : string

$issn  : string

$medAbbr  : string

$nlmId  : string

$title  : string

Methods

__construct()  : mixed

Constructor.

getEntryId()  : string

Extracts the identifier uniquely naming a journal entry.

getEssn()  : string

getFormat()  : string

The name this format is known by in the collection records and in DatabaseParserFactory.

getId()  : string

getIsoAbbr()  : string

getIssn()  : string

getMedAbbr()  : string

getNlmId()  : string

getTitle()  : string

isEntryEnd()  : bool

Tells whether a line closes a journal entry. The NCBI list separates its records with a row of dashes.

isEntryStart()  : bool

Tells whether a line opens a new journal entry.

parseDataFile()  : Sequence

Parses an NCBI journal list and populates this manager's fields.