class PlasmoDB
Provides fast indexed access to a swissprot database in a flat .dat file
Public Class Methods
new(env=nil)
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# File lib/protk/plasmodb.rb, line 10 def initialize(env=nil) if ( env!=nil) @genv=env else @genv=Constants.instance end database_file="#{@genv.protein_database_root}/#{@genv.plasmodb_annotation_database}/raw.txt" throw "The plasmodb database at \"#{database_file}\" does not exist" if ( database_file==nil || !FileTest.exist?(database_file) ) @db_object=EuPathDBGeneInformationFileExtractor.new(database_file) end
Public Instance Methods
get_entry_for_name(name)
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# File lib/protk/plasmodb.rb, line 26 def get_entry_for_name(name) @genv.log("Getting entry for #{name}",:info) begin result=nil result=@db_object.extract_gene_info(name,10000) rescue if result==nil if ( @genv!=nil) @genv.log("Failed to find PlasmoDB entry for gene named #{name} in database",:warn) end end return result end end