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r372: default mm_verbose to 1, and change in main

This commit is contained in:
Heng Li 2017-09-16 09:14:34 -04:00
parent 446bde214d
commit c07f9f9a49
4 changed files with 12 additions and 4 deletions
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2
.gitignore vendored
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@ -4,3 +4,5 @@
*.a *.a
*.o *.o
*.dSYM *.dSYM
minimap2
minimap2.c

3
main.c
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@ -6,7 +6,7 @@
#include "mmpriv.h" #include "mmpriv.h"
#include "getopt.h" #include "getopt.h"
#define MM_VERSION "2.1.1-r369-dirty" #define MM_VERSION "2.1.1-r372-dirty"
#ifdef __linux__ #ifdef __linux__
#include <sys/resource.h> #include <sys/resource.h>
@ -69,6 +69,7 @@ int main(int argc, char *argv[])
mm_idx_reader_t *idx_rdr; mm_idx_reader_t *idx_rdr;
mm_idx_t *mi; mm_idx_t *mi;
mm_verbose = 3;
liftrlimit(); liftrlimit();
mm_realtime0 = realtime(); mm_realtime0 = realtime();
mm_set_opt(0, &ipt, &opt); mm_set_opt(0, &ipt, &opt);

2
misc.c
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@ -1,6 +1,6 @@
#include "minimap.h" #include "minimap.h"
int mm_verbose = 3; int mm_verbose = 1;
int mm_dbg_flag = 0; int mm_dbg_flag = 0;
double mm_realtime0; double mm_realtime0;

9
setup.py
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@ -1,4 +1,9 @@
from setuptools import setup, Extension try:
from setuptools import setup, Extension
except ImportError:
from distutils.core import setup
from distutils.extension import Extension
from Cython.Build import cythonize from Cython.Build import cythonize
import sys import sys
@ -16,6 +21,6 @@ setup(
['python/minimap2.pyx', 'align.c', 'bseq.c', 'chain.c', 'format.c', 'hit.c', 'index.c', 'kalloc.c', ['python/minimap2.pyx', 'align.c', 'bseq.c', 'chain.c', 'format.c', 'hit.c', 'index.c', 'kalloc.c',
'ksw2_extd2_sse.c', 'ksw2_exts2_sse.c', 'ksw2_extz2_sse.c', 'ksw2_ll_sse.c', 'kthread.c', 'map.c', 'ksw2_extd2_sse.c', 'ksw2_exts2_sse.c', 'ksw2_extz2_sse.c', 'ksw2_ll_sse.c', 'kthread.c', 'map.c',
'misc.c', 'sdust.c', 'sketch.c'], 'misc.c', 'sdust.c', 'sketch.c'],
extra_compile_args = ['-msse4'], extra_compile_args = ['-msse4'], # WARNING: ancient x86_64 CPUs don't have SSE4
include_dirs = ['.'])]) include_dirs = ['.'])])
) )