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Bio::SearchIO::cross_mUser(Contributed Perl DocumBio::SearchIO::cross_match(3)

NAME
       Bio::SearchIO::cross_match - CrossMatch-specific	subclass of
       Bio::SearchIO

SYNOPSIS
	   # Working with iterations (CrossMatch results)
	   my $searchIO	= Bio::SearchIO->new( -format => 'cross_match',
				   -file   => "$file.screen.out" )
	   while(my $r = $searchIO->next_result) {
	     while(my $hit = $r->next_hit) {
		     while(my $hsp = $hit->next_hsp) {
		  #Do the processing here.
	       }
	     }
	   }

       See Bio::SearchIO for details about working with	Bio::SearchIO.

DESCRIPTION
       This object is a	subclass of Bio::SearchIO and provides some operations
       that facilitate working with CrossMatch and CrossMatch results.

       For general information about working with Results, see
       Bio::Search::Result::GenericResult.

FEEDBACK
   Mailing Lists
       User feedback is	an integral part of the	evolution of this and other
       Bioperl modules.	Send your comments and suggestions preferably to the
       Bioperl mailing list.  Your participation is much appreciated.

	 bioperl-l@bioperl.org			- General discussion
	 http://bioperl.org/wiki/Mailing_lists	- About	the mailing lists

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

       bioperl-l@bioperl.org

       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 of
       the bugs	and their resolution. Bug reports can be submitted via the
       web:

	 https://github.com/bioperl/bioperl-live/issues

AUTHOR - Shin Leong
       Email sleong@watson.wustl.edu

CONTRIBUTORS
       Additional contributors names and emails	here

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

   next_result
	Title	: next_result
	Usage	: $result = stream->next_result
	Function: Reads	the next ResultI object	from the stream	and returns it.

		  Certain driver modules may encounter entries in the stream that
		  are either misformatted or that use syntax not yet understood
		  by the driver. If such an incident is	recoverable, e.g., by
		  dismissing a feature of a feature table or some other	non-mandatory
		  part of an entry, the	driver will issue a warning. In	the case
		  of a non-recoverable situation an exception will be thrown.
		  Do not assume	that you can resume parsing the	same stream after
		  catching the exception. Note that you	can always turn	recoverable
		  errors into exceptions by calling $stream->verbose(2)	(see
		  Bio::Root::RootI POD page).
	Returns	: A Bio::Search::Result::ResultI object
	Args	: n/a

       See Bio::Root::RootI

   _alignment
	Title	: _alignment
	Usage	: private

   _parse
	Title	: _parse
	Usage	: private

   result_count
	Title	: result_count
	Usage	: $num = $stream->result_count;
	Function: Gets the number of CrossMatch	results	that have been parsed.
	Returns	: integer
	Args	: none
	Throws	: none

perl v5.32.1			  2019-12-07	 Bio::SearchIO::cross_match(3)

NAME | SYNOPSIS | DESCRIPTION | FEEDBACK | AUTHOR - Shin Leong | CONTRIBUTORS | APPENDIX

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