EnsEMBL::Web::Object::Blast

Location: /modules/EnsEMBL/Web/Object/Blast.pm
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No superclasses
No subclasses

Overview

Proxiable Object which wraps around the BLAST back end, analogous to Object::Gene etc which are wrappers around the Ensembl API

Method

Unknown

  • _retrieve_alignments
  • adaptor
  • caption
  • counts
  • fetch_coord_systems
  • retrieve_data
  • retrieve_hit
  • retrieve_hsp
  • retrieve_runnable
  • short_caption
  • sort_table_values
Documentation coverage: 39 %

Methods

    _process_method
    Helper method used by submit_query to set up a search method on the EnsemblSearchMulti object
    TODO will probably need pruning to remove obsolete interface-related code

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    _process_query
    Helper method used by submit_query to turn CGI parameters into a search sequence attached to the EnsemblSearchMulti object
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    get_status
    Takes an array of ticket IDs and returns a hashref containing statuses for each ticket and an overall status for the batch (completed or not completed)
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    new_hsp_image
    -------------------------------- PRIVATE METHODS ------------------------------------------
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    retrieve_ticket
    Retrieves a search result for a given ticket ID and returns a search object
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    run_jobs
    Run any pending jobs
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    submit_query
    Submits a query to the blast server and returns a ticket ID to enable retrieval
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