The package rpms/bwa.git has added or updated architecture specific content in its
spec file (ExclusiveArch/ExcludeArch or %ifarch/%ifnarch) in commit(s):
https://src.fedoraproject.org/cgit/rpms/bwa.git/commit/?id=3d38d998cd66a2....
Change:
+%ifnarch x86_64
Thanks.
Full change:
============
commit 3d38d998cd66a2867d5b5bb84677aea64a480c01
Author: Jun Aruga <jaruga(a)redhat.com>
Date: Fri May 22 19:56:12 2020 +0200
Enable non-x86_64 CPU architectures with simde.
Set -O3 for the better performance.
diff --git a/bwa-simde.patch b/bwa-simde.patch
new file mode 100644
index 0000000..6be4d66
--- /dev/null
+++ b/bwa-simde.patch
@@ -0,0 +1,16 @@
+diff --git a/ksw.c b/ksw.c
+index 9793e5eb..76f39c98 100644
+--- a/ksw.c
++++ b/ksw.c
+@@ -26,7 +26,11 @@
+ #include <stdlib.h>
+ #include <stdint.h>
+ #include <assert.h>
++#ifdef USE_SIMDE
++#include <simde/x86/sse2.h>
++#else
+ #include <emmintrin.h>
++#endif
+ #include "ksw.h"
+
+ #ifdef USE_MALLOC_WRAPPERS
diff --git a/bwa.spec b/bwa.spec
index 55626e9..4d0fce3 100644
--- a/bwa.spec
+++ b/bwa.spec
@@ -1,6 +1,6 @@
Name: bwa
Version: 0.7.17
-Release: 1%{?dist}
+Release: 2%{?dist}
Summary: Burrows-Wheeler Alignment tool
License: GPLv3
@@ -9,11 +9,14 @@ Source0:
http://downloads.sourceforge.net/bio-%{name}/%{name}-%{version}.
# Fix building against GCC 10.
#
https://github.com/lh3/bwa/commit/2a1ae7b6f34a96ea25be007ac9d91e57e9d32284
Patch0: bwa-fix-build-gcc10.patch
-# 0.7.x versions only build on x86_64
-ExclusiveArch: x86_64
-
+# Enable non-x86_64 CPU architectures with simde.
+#
https://github.com/lh3/bwa/pull/283
+Patch1: bwa-simde.patch
BuildRequires: gcc
BuildRequires: perl-generators
+%ifnarch x86_64
+BuildRequires: simde-devel
+%endif
BuildRequires: zlib-devel
%description
@@ -25,10 +28,19 @@ for read shorter than 150bp and the other for longer reads.
%prep
%setup -q
%patch0 -p1
+%patch1 -p1
%build
-make %{?_smp_mflags} CFLAGS="%{optflags}"
+# Set -O3 for the better performance.
+#
https://github.com/lh3/bwa/pull/278
+CFLAGS="%{optflags} -O3"
+%ifnarch x86_64
+# See Makefile in the pull request.
+#
https://github.com/lh3/bwa/pull/283
+CFLAGS="${CFLAGS} -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd
-DSIMDE_ENABLE_OPENMP"
+%endif
+make %{?_smp_mflags} CFLAGS="${CFLAGS}"
%install
@@ -58,6 +70,10 @@ install -m 0644 bwa.1 %{buildroot}/%{_mandir}/man1/bwa.1
%changelog
+* Fri May 22 2020 Jun Aruga <jaruga(a)redhat.com> - 0.7.17-2
+- Enable non-x86_64 CPU architectures with simde.
+- Set -O3 for the better performance.
+
* Thu Apr 16 2020 Jun Aruga <jaruga(a)redhat.com> - 0.7.17-1
- Update to upstream release 0.7.17
- Move bwakit files to data directory to avoid conflicts.