diff options
| author | Calvin Morrison <mutantturkey@gmail.com> | 2014-04-10 15:38:48 -0400 |
|---|---|---|
| committer | Calvin Morrison <mutantturkey@gmail.com> | 2014-04-10 15:38:48 -0400 |
| commit | f4a048981a1001f8d2826551e523e3e9cd38f983 (patch) | |
| tree | 33c60ac73d8601840ffc89542288b07791339e17 | |
| parent | bfab0cc8ed7887206457b01285e6d014f2fcfa2c (diff) | |
make sure arrays aer in utils.h
| -rw-r--r-- | kmer_utils.h | 20 |
1 files changed, 17 insertions, 3 deletions
diff --git a/kmer_utils.h b/kmer_utils.h index 9fcc03c..f5087f2 100644 --- a/kmer_utils.h +++ b/kmer_utils.h @@ -43,9 +43,23 @@ typedef struct { typedef unordered_map<size_t,unsigned long long, kmer_noHash_hash, kmer_eq> kmer_map; -unsigned char alpha[256]; -unsigned char reverse_alpha[4]; -unsigned char compliment[5]; +const unsigned char alpha[256] = +{5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, +5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, +5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 0, 5, 1, 5, 5, 5, 2, 5, 5, 5, 5, 5, 5, +5, 5, 5, 5, 5, 5, 3, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 0, 5, 1, 5, 5, 5, 2, +5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 3, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, +5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, +5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, +5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, +5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, +5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5}; +const char reverse_alpha[4] = { 'A', 'C', 'G', 'T' }; + + // compliments + // A C G T E E + // T G C A E E +const char compliment[6] = { 3, 2, 1, 0, 5, 5}; // open file from filename in char array *fn, and try and parse in one mer per // line, of size kmer, and store the indicies of those mers in the *arr |