diff options
| author | Calvin Morrison <mutantturkey@gmail.com> | 2014-03-06 17:05:40 -0500 |
|---|---|---|
| committer | Calvin Morrison <mutantturkey@gmail.com> | 2014-03-06 17:05:40 -0500 |
| commit | 2c038ba630c14c7030186c64e9eb92761ddcba74 (patch) | |
| tree | f4705db1e2603bdc831254eee60800eb10448fcf /Makefile | |
| parent | 5d7e67a846ec104da2d7bdb988672fbd02ddda28 (diff) | |
add kmer_continuous_count
this tool will count continuously, instead of line by line. The way that
this works out is something like this:
test.fa
> header 1
AAAAATTTTT
> header 2
GGGGGAAAAA
counting 6 mers, the program will count TTTGGG, TTGGGG, TGGGGG, like
there was no header seperating them. This can be useful for certain
tyeps of processing, like when the sequences are continuous from a
genome.
initial commit
Diffstat (limited to 'Makefile')
| -rw-r--r-- | Makefile | 6 |
1 files changed, 4 insertions, 2 deletions
@@ -4,7 +4,7 @@ CFLAGS = -O3 -s -mtune=native -Wall -DVERSION=$(VERSION) -Wextra DESTDIR = /usr/local/ -all: libkmer.o libkmer.so kmer_total_count kmer_counts_per_sequence +all: libkmer.o libkmer.so kmer_total_count kmer_counts_per_sequence kmer_continuous_count libkmer.o: kmer_utils.c $(CC) -c kmer_utils.c -o libkmer.o $(CFLAGS) -fPIC @@ -14,9 +14,11 @@ kmer_total_count: libkmer.o kmer_total_count.c kmer_utils.h $(CC) libkmer.o kmer_total_count.c -o kmer_total_count $(CLIBS) $(CFLAGS) kmer_counts_per_sequence: libkmer.o kmer_counts_per_sequence.c kmer_utils.h $(CC) libkmer.o kmer_counts_per_sequence.c -o kmer_counts_per_sequence $(CLIBS) $(CFLAGS) +kmer_continuous_count: libkmer.o kmer_continuous_count.c kmer_utils.h + $(CC) libkmer.o kmer_continuous_count.c -o kmer_continuous_count $(CLIBS) $(CFLAGS) clean: - rm -vf kmer_total_count kmer_counts_per_sequence libkmer.so libkmer.o + rm -vf kmer_total_count kmer_counts_per_sequence kmer_continuous_count libkmer.so libkmer.o debug: CFLAGS = -ggdb -Wall -Wextra -DVERSION=$(VERSION)\"-debug\" debug: all |