Provided by: libbio-perl-perl_1.6.901-2_all bug


       Bio::Tools::EUtilities::EUtilDataI - eutil data object interface


         # say you had some data in a hash ref ($data) and wanted to create hierarchies
         # of object using the same interface, starting with the topmost...

         # $object is a Bio::Tools::EUtilities::EUtilDataI instance


         # in _add_data()... sort through keys and create subobjects as needed

         if ($key eq 'foo') {
            my $sub = Bio::Tools::EUtilities::FooData->new(-eutil => 'efoo',
                                                           -type => 'foo');
            # store into parent object as needed...

          # access stored data

          while (my $sub = $parent->next_Foo) {...}


       This is a simple interface which allows creation of simple typed object hierarchies.
       Single layers can be accessed via simple iterators (next_* methods) or retrieved all at
       once (get_*) methods; nested data can be iterated through nested iterators for each
       object, or retrieved using get_all_* methods.

       This interface defines common methods required for all eutil data-holding objects:
       _add_data(), eutil(), and type(). It also specifies inheriting interface classes use at
       least one of three methods: get_ids(), get_term(), or get_database(), which are the three
       types of data that eutils mainly centers on.

       Generally, eutil() is the Bio::Tools::EUtilities parser used to set the data.  Similarly,
       datatype() is the specific data type for the class.

       Implementations which rely on subclasses to store data and have iterators should also
       define a generalized rewind() method that (by default) rewinds all iterators to the start.
       Args passed can specify exactly which iterator to rewind and (if possible) recursively
       rewind nested object iterators.

       As the method implies, _add_data() is a private method that adds data chunks to the object
       and sets internal parameters for the various data objects. Methods corresponding to the
       data type simply return the set data or iterate through the data sets if the values are
       more complex. Data can alternatively be passed through the object constructor.

       Please direct usage questions or support issues to the mailing list:

       rather than to the module maintainer directly. Many experienced and reponsive experts will
       be able look at the problem and quickly address it. Please include a thorough description
       of the problem with code and data examples if at all possible.

   Reporting Bugs
       Report bugs to the Bioperl bug tracking system to help us keep track the bugs and their
       resolution.  Bug reports can be submitted via the web.


       Email cjfields at bioperl dot org


       The rest of the documentation details each of the object methods. Internal methods are
       usually preceded with a _

        Title    : eutil
        Usage    : $eutil->$foo->eutil
        Function : Get/Set eutil
        Returns  : string
        Args     : string (eutil)
        Throws   : on invalid eutil

        Title   : type
        Usage   : $type = $qd->datatype;
        Function: retrieve simple data type object holds (linkset, docsum, item, etc)
        Returns : string (eutil name)
        Args    : none
        Note    : this is probably more useful for devs than for users as a way to keep
                  track of the various types of modules used

        Title    : rewind
        Usage    : $esum->rewind
        Function : rewinds the requested iterator
        Returns  : none
        Args     : [OPTIONAL] may include 'all', 'recursive', etc.

        Title    : _add_data
        Usage    : $foo->_add_data($data)
        Function : adds data to current object as a chunk
        Returns  : none
        Args     : hash ref containing relevant data

        Title    : to_string
        Usage    : $foo->to_string()
        Function : converts current object to string
        Returns  : none
        Args     : (optional) simple data for text formatting
        Note     : Used generally for debugging and for the print_* methods

        Title    : _text_wrap
        Usage    : $foo->_text_wrap($string)
        Function : private internal wrapper for Text::Wrap::wrap
        Returns  : string
        Args     : string
        Note     : Internal use only.  Simple wrapper method.