/usr/include/GNUstep/Frameworks/BioCocoa.framework/Versions/2/BCToolSequenceFinder.h is in libbiococoa-dev 2.2.2-2.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 | //
// BCToolSequenceFinder.h
// BioCocoa
//
// Created by Koen van der Drift on 10/28/04.
// Copyright (c) 2003-2009 The BioCocoa Project.
// All rights reserved.
//
// Redistribution and use in source and binary forms, with or without
// modification, are permitted provided that the following conditions
// are met:
// 1. Redistributions of source code must retain the above copyright
// notice, this list of conditions and the following disclaimer.
// 2. Redistributions in binary form must reproduce the above copyright
// notice, this list of conditions and the following disclaimer in the
// documentation and/or other materials provided with the distribution.
// 3. The name of the author may not be used to endorse or promote products
// derived from this software without specific prior written permission.
//
// THIS SOFTWARE IS PROVIDED BY THE AUTHOR ``AS IS'' AND ANY EXPRESS OR
// IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES
// OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED.
// IN NO EVENT SHALL THE AUTHOR BE LIABLE FOR ANY DIRECT, INDIRECT,
// INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT
// NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE,
// DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY
// THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
// (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF
// THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
/*!
@header
@abstract Sequence searching.
*/
#import <Foundation/Foundation.h>
#import "BCSequenceTool.h"
@class BCSequence, BCSymbol;
/*!
@class BCToolSequenceFinder
@abstract A wrapper class to search a sequence
@discussion This class can be used to search a sequence for a subsequence.
* To use it simply pass any BCSequence object to the initializer or class method.
* Then call the findSequence: method and pass the sequence to search for. The class will
* return an NSArray containing NSRanges where all subsequences have been found.
* The search can be influenced in two ways:
* When the BOOL strict is set to NO, the search will include ambigous symbols
* When the BOOL firstOnly is set to YES, only the first occurance of the subsequence is returned.
*/
@interface BCToolSequenceFinder : BCSequenceTool
{
BCSequence *searchSequence;
NSRange searchRange;
BOOL strict;
BOOL firstOnly;
}
+ (BCToolSequenceFinder *) sequenceFinderWithSequence: (BCSequence *)list;
- (BCSequence *)searchSequence;
- (void)setSearchSequence:(BCSequence *)list;
- (NSRange)searchRange;
- (void)setSearchRange:(NSRange)aRange;
- (void)setStrict: (BOOL)value;
- (void)setFirstOnly: (BOOL)value;
- (BOOL)compareSymbol: (BCSymbol *)first withSymbol: (BCSymbol *) second;
- (NSArray *)findSequence: (BCSequence *)entry;
@end
|