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Makefile alphabet.cpp #95

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14 changes: 12 additions & 2 deletions Makefile
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Original file line number Diff line number Diff line change
Expand Up @@ -163,6 +163,11 @@ BITS=32
ifeq (x86_64,$(shell uname -m))
BITS=64
endif

ifeq (aarch64,$(shell uname -m))
BITS=64
endif

# msys will always be 32 bit so look at the cpu arch instead.
ifneq (,$(findstring AMD64,$(PROCESSOR_ARCHITEW6432)))
ifeq (1,$(MINGW))
Expand All @@ -180,8 +185,13 @@ ifeq (32,$(BITS))
$(error bowtie2 compilation requires a 64-bit platform )
endif

DEBUG_FLAGS = -O0 -g3 -m64
RELEASE_FLAGS = -O3 -m64
M64_FLAG := -m64
ifeq (aarch64,$(shell uname -m))
M64_FLAG :=
endif

DEBUG_FLAGS = -O0 -g3 $(M64_FLAG)
RELEASE_FLAGS = -O3 $(M64_FLAG)
NOASSERT_FLAGS = -DNDEBUG
FILE_FLAGS = -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE

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2 changes: 1 addition & 1 deletion alphabet.cpp
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Original file line number Diff line number Diff line change
Expand Up @@ -273,7 +273,7 @@ int dnacomp[5] = {

const char *iupacs = "!ACMGRSVTWYHKDBN!acmgrsvtwyhkdbn";

char mask2iupac[16] = {
signed char mask2iupac[16] = {
-1,
'A', // 0001
'C', // 0010
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