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to Nucleotide Count in the Objective-C Track

Published at Jul 13 2018 · 0 comments
Instructions
Test suite
Solution

Given a single stranded DNA string, compute how many times each nucleotide occurs in the string.

The genetic language of every living thing on the planet is DNA. DNA is a large molecule that is built from an extremely long sequence of individual elements called nucleotides. 4 types exist in DNA and these differ only slightly and can be represented as the following symbols: 'A' for adenine, 'C' for cytosine, 'G' for guanine, and 'T' thymine.

Here is an analogy:

  • twigs are to birds nests as
  • nucleotides are to DNA as
  • legos are to lego houses as
  • words are to sentences as...

Setup

There are two different methods of getting set up to run the tests with Objective-C:

  • Create an Xcode project with a test target which will run the tests.
  • Use the ruby gem objc as a test runner utility.

Both are described in more detail here: http://exercism.io/languages/objective-c

Submitting Exercises

When submitting an exercise, make sure your solution file is in the same directory as the test code.

The submit command will look something like:

exercism submit <path-to-exercism-workspace>/objective-c/nucleotide-count/NucleotideCount.m

You can find the Exercism workspace by running exercism debug and looking for the line beginning with Workspace.

Source

The Calculating DNA Nucleotides_problem at Rosalind http://rosalind.info/problems/dna/

Submitting Incomplete Solutions

It's possible to submit an incomplete solution so you can see how others have completed the exercise.

NucleotideCountTest.m

#import <XCTest/XCTest.h>

#if __has_include("NucleotideCountExample.h")
# import "NucleotideCountExample.h"
# else
# import "NucleotideCount.h"
#endif

NS_ASSUME_NONNULL_BEGIN

@interface NucleotideCountTest : XCTestCase

@end

@implementation NucleotideCountTest

- (void)testEmptyDNAStringHasNoAdenosine {
  NucleotideCount *dna = [[NucleotideCount alloc] initWithStrand:@""];
  NSUInteger result = [dna count:@"A"];
  NSUInteger expected = 0;
  XCTAssertEqual(expected,result);
}

- (void)testEmptyNucleotideCountStringHasNoNucleotides {
  NucleotideCount *dna = [[NucleotideCount alloc] initWithStrand:@""];
  NSDictionary<NSString *, NSNumber *> *results = [dna nucleotideCounts];
  NSDictionary<NSString *, NSNumber *> *expected = @{ @"A": @0, @"T" : @0, @"C" : @0, @"G" : @0 };
  XCTAssertEqualObjects(results, expected);
}

- (void)testRepetitiveCytidineGetsCounted {
  NucleotideCount *dna = [[NucleotideCount alloc] initWithStrand:@"CCCCC"];
  NSUInteger result = [dna count:@"C"];
  NSUInteger expected = 5;
  XCTAssertEqual(expected,result);
}

- (void)testRepetitiveSequenceHasOnlyGuanosine {
  NucleotideCount *dna = [[NucleotideCount alloc] initWithStrand:@"GGGGGGGG"];
  NSDictionary<NSString *, NSNumber *> *results = [dna nucleotideCounts];
  NSDictionary<NSString *, NSNumber *> *expected = @{ @"A": @0, @"T" : @0, @"C" : @0, @"G" : @8 };
  XCTAssertEqualObjects(results, expected);
}

- (void)testCountsByThymidine {
  NucleotideCount *dna = [[NucleotideCount alloc] initWithStrand:@"GGGGGTAACCCGG"];
  NSUInteger result = [dna count:@"T"];
  NSUInteger expected = 1;
  XCTAssertEqual(expected,result);
}

- (void)testCountsANucleotideOnlyOnce {
  NucleotideCount *dna = [[NucleotideCount alloc] initWithStrand:@"CGATTGGG"];
  NSUInteger result = [dna count:@"T"];
  NSUInteger expected = 2;
  XCTAssertEqual(expected,result);
}

- (void)testValidatesNucleotideCount {
  XCTAssertThrows([[NucleotideCount alloc] initWithStrand:@"John"]);
}

- (void)testCountsAllNucleotides {
  NSString *longStrand = @"AGCTTTTCATTCTGACTGCAACGGGCAATATGTCTCTGTGTGGATTAAAAAAAGAGTGTCTGATAGCAGC";
  NucleotideCount *dna = [[NucleotideCount alloc] initWithStrand:longStrand];
  NSDictionary<NSString *, NSNumber *> *results = [dna nucleotideCounts];
  NSDictionary<NSString *, NSNumber *> *expected = @{ @"A": @20, @"T" : @21, @"C" : @12, @"G" : @17 };
  XCTAssertEqualObjects(results, expected);
}

@end
NS_ASSUME_NONNULL_END
//
//  NucleotideCount.m
//  NucleotideCount
//
//  Created by Maneesh Goel on 3/13/18.
//  Copyright © 2018 Maneesh Goel. All rights reserved.
//

#import "NucleotideCount.h"
@interface NucleotideCount()
@property (nonatomic, strong) NSString *strand;
@end

@implementation NucleotideCount
-(instancetype)initWithStrand:(NSString *)strand {
    if (self = [super init]) {
        NSSet *allowedTides = [NSSet setWithArray:@[@"A", @"C", @"G", @"T"]];
        @try {
            for (NSInteger i = 0; i < strand.length; i++) {
                if (![allowedTides containsObject:[strand substringWithRange:NSMakeRange(i, 1)]]) {
                    @throw [NSException exceptionWithName:@"Test" reason:@"Test" userInfo:nil];
                }
            }
        }
        @catch(NSException *ex) {
            NSLog(@"hello");
        }
        _strand = strand;
    }
    return self;
}

-(NSInteger)count:(NSString *)nucleotide {
    NSInteger count = 0;
    for (NSInteger i = 0; i < self.strand.length; i++) {
        if ([nucleotide isEqualToString:[self.strand substringWithRange:NSMakeRange(i, 1)]]) {
            count++;
        }
    }
    return count;
}

-(NSDictionary *)nucleotideCounts {
    NSMutableDictionary *nucleotideCounts = [[NSMutableDictionary alloc] initWithObjects:@[@0, @0, @0, @0] forKeys:@[@"A", @"C", @"G", @"T"]];
    for (NSInteger i = 0; i < self.strand.length; i++) {
        [nucleotideCounts setObject:[NSNumber numberWithInteger:([nucleotideCounts[[self.strand substringWithRange:NSMakeRange(i, 1)]] integerValue]+1)] forKey:[self.strand substringWithRange:NSMakeRange(i, 1)]];
    }
    return nucleotideCounts;
}
@end

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