|File||This provides access to local Omim entries by reading from a flat file (typically omim.txt file downloadable from NCBIs Ftp site). The stream will return a Stone corresponding to each of the entries in the file, starting from the top of the file and working downward. The parameter is the path to the local file.|
This section lists the public methods that the Boulder::Omim class makes available.
new() # Local fetch via File $om=new Boulder::Omim(-accessor => File, -param => /data/omim/omim.txt);
The new() method creates a new Boulder::Omim stream on the accessor provided. The only possible accessors is <B>FileB>. If successful, the method returns the stream object. Otherwise it returns undef.
new() takes the following arguments:
-accessor Name of the accessor to use -param Parameters to pass to the accessor
get() The get() method is inherited from Boulder::Stream, and simply returns the next parsed Omim Stone, or undef if there is nothing more to fetch. It has the same semantics as the parent class, including the ability to restrict access to certain top-level tags. put() The put() method is inherited from the parent Boulder::Stream class, and will write the passed Stone to standard output in Boulder format. This means that it is currently not possible to write a Boulder::Omim object back into Omim flatfile form.
The tags returned by the parsing operation are taken from the names shown in the network Entrez interface to Omim.
These are tags that appear at the top level of the parsed Omim entry.
Identifier The Omim identifier of this entry. Identifier is a single-value tag.
my $identifierNo = $s->Identifier;
Title The Omim title for this entry.
Text The Text of this Omim entry Example:
Mini The text condensed version, also called Mini in Entrez interface Example:
SeeAlso References to other relevant work. Example:
CreationDate This field contains the name of the person who originated the initial entry in OMIM and the date it appeared in the database. The entry may have been subsequently added to, edited, or totally rewritten by others, and their attribution is listed in the CONTRIBUTORS field. Example:
Contributors This field contains a list, in chronological order, of the persons who have contributed significantly to the content of the MIM entry. The name is followed by updated, edited or re-created. Example:
History This field contains the edit history of this record, with an identifier and a date in which minor changes had been performed on the record. Example:
References The references cited in the entry. Example: my @theReferences=$s->References; ClinicalSynopsis The content of the Clinical Synopsis data field. Example: my @theClinicalSynopsis=$s->ClinicalSynopsis; AllelicVariants The Allelic Variants Example: my @theAllelicVariants=$s->AllelicVariants;
Lincoln Stein <email@example.com>. Luca I.G. Toldo <firstname.lastname@example.org>
Copyright (c) 1997 Lincoln D. Stein Copyright (c) 1999 Luca I.G. Toldo
This library is free software; you can redistribute it and/or modify it under the same terms as Perl itself. See DISCLAIMER.txt for disclaimers of warranty.
|perl v5.20.3||BOULDER::OMIM (3)||2000-01-18|