Dansguardian Access rights

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06-03-2010

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Dansguardian Access rights

well hi to all
The thing is I need to allow particular site to just one or 2 user
not to everybody. Can anybody tell me how do i do it. If i put there
ip in exception then whole Restriction would be bypassed which i dont
want. Your Responses would be highly appreciated
THANKS in ADVANCE

achtani_jeetu

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bio::restriction::enzymecollection

Bio::Restriction::EnzymeCollection(3pm) 		User Contributed Perl Documentation		   Bio::Restriction::EnzymeCollection(3pm)

NAME

       Bio::Restriction::EnzymeCollection - Set of restriction endonucleases

SYNOPSIS

	 use Bio::Restriction::EnzymeCollection;

	 # Create a collection with the default enzymes.
	 my $default_collection = Bio::Restriction::EnzymeCollection->new();

	 # Or create a collection from a REBASE 'withrefm' file obtained from
	 # ftp://ftp.neb.com/pub/rebase/. (See Bio::Restriction::IO for more
	 # information.)
	 my $rebase = Bio::Restriction::IO->new(
	     -file   => 'withrefm.610',
	     -format => 'withrefm' );
	 my $rebase_collection = $rebase->read();

	 # Or create an empty collection and set the enzymes later. See
	 # 'CUSTOM COLLECTIONS' below for more information.
	 my $empty_collection =
	   Bio::Restriction::EnzymeCollection->new( -empty => 1 );

	 # Get an array of Bio::Restriction::Enzyme objects from the collection.
	 my @enzymes = $default_collection->each_enzyme();

	 # Get a Bio::Restriction::Enzyme object for a particular enzyme by name.
	 my $enz = $default_collection->get_enzyme( 'EcoRI' );

	 # Get a Bio::Restriction::EnzymeCollection object containing the enzymes
	 # that have the equivalent of 6-bp recognition sequences.
	 my $six_cutters = $default_collection->cutters( 6 );

	 # Get a Bio::Restriction::EnzymeCollection object containing the enzymes
	 # that are rare cutters.
	 my $rare_cutters = $default_collection->cutters( -start => 6, -end => 8 );

	 # Get a Bio::Restriction::EnzymeCollection object that contains enzymes
	 # that generate blunt ends:
	 my $blunt_cutters = $default_collection->blunt_enzymes();

	 # See 'CUSTOM COLLECTIONS' below for an example of creating a
	 # Bio::Restriction::EnzymeCollection object with a specified subset of
	 # enzymes using methods provided by the Bio::RestrictionEnzyme class.

DESCRIPTION

       Bio::Restriction::EnzymeCollection represents a collection of restriction enzymes.

       If you create a new collection directly rather than from a REBASE file using Bio::Restriction::IO, it will be populated by a default set of
       enzymes with site and cut information only.

       Use Bio::Restriction::Analysis to figure out which enzymes are available and where they cut your sequence.

CUSTOM COLLECTIONS

       Note that the underlying Bio::Restriction::Enzyme objects have a rich variety of methods that allow more complicated selections than the
       methods that are defined by Bio::Restriction::EnzymeCollection.

       For example, the way to create a custom collection of Type II enzymes is as follows:

	 my $complete_collection =
	     Bio::Restriction::EnzymeCollection->new();
	 my $type_ii_collection  =
	     Bio::Restriction::EnzymeCollection->new( -empty => 1 );
	 $type_ii_collection->enzymes(
	     grep { $_->type() eq 'II' } $complete_collection->each_enzyme() );

SEE ALSO

       Bio::Restriction::IO - read in enzymes from REBASE files

       Bio::Restriction::Analysis - figure out what enzymes cut a sequence

       Bio::Restriction::Enzyme - define a single restriction enzyme

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 one
       of the Bioperl mailing lists. 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 the bugs and their resolution. Bug reports can be submitted via the
       web:

	 https://redmine.open-bio.org/projects/bioperl/

AUTHOR

       Rob Edwards, redwards@utmem.edu

CONTRIBUTORS

       Heikki Lehvaslaiho, heikki-at-bioperl-dot-org

COPYRIGHT

       Copyright (c) 2003 Rob Edwards.

       Some of this work is Copyright (c) 1997-2002 Steve A. Chervitz. All Rights Reserved.

       This module is free software; you can redistribute it and/or modify it under the same terms as Perl itself.

APPENDIX

       Methods beginning with a leading underscore are considered private and are intended for internal use by this module. They are not
       considered part of the public interface and are described here for documentation purposes only.

   new
	Title	  : new
	Function  : Initializes the Restriction::EnzymeCollection object
	Returns   : The Restriction::EnzymeCollection object
	Arguments : optional named parameter -empty

       Set parameter -empty to true if you do NOT want the collection be populated by the default set of prototype type II enzymes.

       Alternatively, pass an array of enzymes to -enzymes parameter.

   Manipulate the enzymes within the collection
   enzymes
	Title	  : enzyme
	Function  : add/get method for enzymes and enzyme collections
	Returns   : object itself
	Arguments : array of Bio::Restriction::Enzyme and
		    Bio::Restriction::EnzymeCollection objects

   each_enzyme
	Title	  : each_enzyme
	Function  : get an array of enzymes
	Returns   : array of Bio::Restriction::Enzyme objects
	Arguments : -

   get_enzyme
	Title	  : get_enzyme
	Function  : Gets a Bio::Restriction::Enzyme object for the enzyme name
	Returns   : A Bio::Restriction::Enzyme object or undef
	Arguments : An enzyme name that is in the collection

   available_list
	Title	  : available_list
	Function  : Gets a list of all the enzymes that we know about
	Returns   : A reference to an array with all the enzyme names
		    that we have defined or 0 if none are defined
	Arguments : Nothing
	Comments  : Note, I maintain this for backwards compatibility,
		    but I don't like the name as it is very ambiguous

   longest_cutter
	Title	  : longest_cutter
	Function  : Gets the enzyme with the longest recognition site
	Returns   : A Bio::Restriction::Enzyme object
	Arguments : Nothing
	Comments  : Note, this is used by Bio::Restriction::Analysis
		    to figure out what to do with circular sequences

   Filter enzymes
   blunt_enzymes
	 Title	   : blunt_enzymes
	 Function  : Gets a list of all the enzymes that are blunt cutters
	 Returns   : A reference to an array with all the enzyme names that
		     are blunt cutters or 0 if none are defined
	 Arguments : Nothing
	 Comments  :

       This is an example of the kind of filtering better done by the scripts using the rich collection of methods in Bio::Restriction::Enzyme.

   cutters
	 Title	   : cutters
	 Function  : Gets a list of all the enzymes that recognize a
		     certain size, e.g. 6-cutters
	 Usage	   : $cutters = $collection->cutters(6);
	 Returns   : A reference to an array with all the enzyme names
		     that are x cutters or 0 if none are defined
	 Arguments : A positive number for the size of cutters to return
		     OR
		     A range: (-start => 6, -end => 8,
			       -inclusive => 1, -exclusive = 0 )

       The default for a range is 'inclusive'

perl v5.14.2							    2012-03-02				   Bio::Restriction::EnzymeCollection(3pm)

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