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ngmlr: support for aarch64 (#18621)

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* ngmlr: support for aarch64

* ngmlr: Fixed patch file
This commit is contained in:
t-nojiri 2020-09-14 13:14:59 +09:00 committed by GitHub
parent 3cfce42563
commit a250006449
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GPG Key ID: 4AEE18F83AFDEB23
3 changed files with 59 additions and 0 deletions
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33
var/spack/repos/builtin/packages/ngmlr/for_aarch64.patch Normal file
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@ -0,0 +1,33 @@
--- spack-src/lib/Complete-Striped-Smith-Waterman-Library/src/ssw.h.bak 2017-06-27 02:01:12.000000000 +0900
+++ spack-src/lib/Complete-Striped-Smith-Waterman-Library/src/ssw.h 2020-09-02 16:16:01.835283173 +0900
@@ -14,7 +14,7 @@
#include <stdio.h>
#include <stdint.h>
#include <string.h>
-#include <emmintrin.h>
+#include <SSE2NEON.h>
#ifdef __cplusplus
extern "C" {
--- spack-src/lib/Complete-Striped-Smith-Waterman-Library/src/ssw.c.bak 2017-06-27 02:01:12.000000000 +0900
+++ spack-src/lib/Complete-Striped-Smith-Waterman-Library/src/ssw.c 2020-09-08 11:44:57.995497574 +0900
@@ -35,7 +35,7 @@
*
*/
-#include <emmintrin.h>
+#include <SSE2NEON.h>
#include <stdint.h>
#include <stdlib.h>
#include <stdio.h>
--- spack-src/src/ConvexAlignFast.cpp.bak 2017-06-27 02:01:12.000000000 +0900
+++ spack-src/src/ConvexAlignFast.cpp 2020-09-07 17:03:29.325279688 +0900
@@ -8,7 +8,7 @@
#include <string.h>
#include <stdio.h>
#include <algorithm>
-#include <x86intrin.h>
+#include <SSE2NEON.h>
#include "IConfig.h"

22
var/spack/repos/builtin/packages/ngmlr/for_va_list.patch Normal file
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@ -0,0 +1,22 @@
--- spack-src/src/AlignmentBuffer.cpp.bak 2017-06-27 02:01:12.000000000 +0900
+++ spack-src/src/AlignmentBuffer.cpp 2020-09-08 11:38:24.075464116 +0900
@@ -2365,7 +2365,7 @@
va_list args;
va_start(args, s);
- if (args != 0)
+ if (va_arg(args, char *) != 0)
vfprintf(stderr, s, args);
else
fprintf(stderr, "%s", s);
--- spack-src/src/Logging.cpp.bak 2020-09-08 11:30:20.915422258 +0900
+++ spack-src/src/Logging.cpp 2020-09-08 11:32:33.125437676 +0900
@@ -94,7 +94,7 @@
if (color)
SetConsoleColor((ConsoleColor) (Message + (lvl * 2)));
- if (args != 0)
+ if (va_arg(args, char *) != 0)
vfprintf(stderr, s, args);
else
fprintf(stderr, "%s", s);

4
var/spack/repos/builtin/packages/ngmlr/package.py
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@ -17,3 +17,7 @@ class Ngmlr(CMakePackage):
version('0.2.5', sha256='719944a35cc7ff9c321eedbf3385a7375ce2301f609b3fd7be0a850cabbb028b')
depends_on('zlib', type='link')
depends_on('sse2neon', when='target=aarch64:')
patch('for_aarch64.patch', when='target=aarch64:')
patch('for_va_list.patch')