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
|
CC ?= gcc
CFLAGS+=-g -Wall -O2 -Wno-unused-function
all:seqtk-trinity
seqtk-trinity:seqtk.c khash.h kseq.h
$(CC) $(LDFLAGS) $(CFLAGS) $(CPPFLAGS) seqtk.c -o $@ -lz -lm
clean:
rm -fr gmon.out *.o ext/*.o a.out seqtk trimadap *~ *.a *.dSYM session*
test:
./seqtk-trinity seq -A -R 1 testing/oldformat_1.fq > test.fa
./seqtk-trinity seq -A -R 2 testing/oldformat_2.fq > test.fa
./seqtk-trinity seq -A -R 1 testing/newformat_1.fq > test.fa
./seqtk-trinity seq -A -R 2 testing/newformat_2.fq > test.fa
./seqtk-trinity seq -A -R 1 testing/stripped.fq > test.fa
./seqtk-trinity seq -A -R 2 testing/stripped.fq > test.fa
./seqtk-trinity seq -A -R 1 testing/forward_reverse_notation_1.fq > test.fa
./seqtk-trinity seq -A -R 2 testing/forward_reverse_notation_2.fq > test.fa
|
