gemma: Update to 0.98.5

[Jason W. Bacon (via pkgsrc-wip) <commit-notify%pkgsrc.org@localhost>]

Module Name:	pkgsrc-wip
Committed By:	Jason W. Bacon <bacon%NetBSD.org@localhost>
Pushed By:	outpaddling
Date:		Fri Dec 6 10:25:33 2024 -0600
Changeset:	614cee3b8d4a97ec8535ffc0cf908b17102a0140

Modified Files:
	gemma/Makefile
	gemma/distinfo
Removed Files:
	gemma/patches/patch-src_fastopenblas.h

Log Message:
gemma: Update to 0.98.5

To see a diff of this commit:
https://wip.pkgsrc.org/cgi-bin/gitweb.cgi?p=pkgsrc-wip.git;a=commitdiff;h=614cee3b8d4a97ec8535ffc0cf908b17102a0140

Please note that diffs are not public domain; they are subject to the
copyright notices on the relevant files.

diffstat:
 gemma/Makefile                         |  6 +++---
 gemma/distinfo                         |  6 +++---
 gemma/patches/patch-src_fastopenblas.h | 19 -------------------
 3 files changed, 6 insertions(+), 25 deletions(-)

diffs:
diff --git a/gemma/Makefile b/gemma/Makefile
index 97ab16a4cb..0a9cef848b 100644
--- a/gemma/Makefile
+++ b/gemma/Makefile
@@ -5,11 +5,11 @@
 #              Mon Apr 29 11:01:43 CDT 2019               #
 ###########################################################
 
-DISTNAME=	GEMMA-0.98.1
-PKGREVISION=	1
+DISTNAME=	gemma-0.98.5
 CATEGORIES=	biology
 MASTER_SITES=	${MASTER_SITE_GITHUB:=genetics-statistics/}
 GITHUB_PROJECT=	GEMMA
+GITHUB_TAG=	v${PKGVERSION_NOREV}
 
 MAINTAINER=	bacon%NetBSD.org@localhost
 HOMEPAGE=	https://github.com/genetics-statistics/GEMMA
@@ -27,7 +27,7 @@ MAKE_FILE=	${FILESDIR}/Makefile
 # Requires multithreading for decent performance
 # Remember that this would interact with any limitation
 # of math/cblas, if there were any.
-BLAS_ACCEPTED=	openblas_pthread openblas_openmp accelerate.framework
+BLAS_ACCEPTED=	openblas_pthread openblas_openmp
 
 BLAS_C_INTERFACE=	yes
 CXXFLAGS+=		${BLAS_INCLUDES}
diff --git a/gemma/distinfo b/gemma/distinfo
index 7796324ade..329313e109 100644
--- a/gemma/distinfo
+++ b/gemma/distinfo
@@ -1,8 +1,8 @@
 $NetBSD$
 
-RMD160 (GEMMA-0.98.1.tar.gz) = a2a89a092e653536a50c8ad9561a7c534cebff2c
-SHA512 (GEMMA-0.98.1.tar.gz) = 501e77a0150d9de25c793b67245f813569d12313a60ee6974719cd6f97d0044fe8f975f039b7864b1e3c93c16fe31cb8e3a69e719bc058532bbd46891c8a6d45
-Size (GEMMA-0.98.1.tar.gz) = 49569015 bytes
+BLAKE2s (gemma-0.98.5.tar.gz) = b3fcee44e77f2454d7cf05c877b0ff1b481ed040d7d4129e592365c38343485f
+SHA512 (gemma-0.98.5.tar.gz) = 77d9862be44750462317f35f5cdd292e83e90238f8c31d0e380e7b941bc69a080d1d378a45c7ae423aea447ad2be31c43135b513c3018733b8cbc914a1e2f0ae
+Size (gemma-0.98.5.tar.gz) = 51259250 bytes
 SHA1 (patch-doc_manual.tex) = 02b3c057b31794b3f87d825870369d264c4b9f31
 SHA1 (patch-src_fastblas.cpp) = 1190884b24ddefbff785fc84c6381db0dbde14d1
 SHA1 (patch-src_fastopenblas.h) = 7a70c72de630bef2a7f24d66324a7d8a153195df
diff --git a/gemma/patches/patch-src_fastopenblas.h b/gemma/patches/patch-src_fastopenblas.h
deleted file mode 100644
index adffdccc3e..0000000000
--- a/gemma/patches/patch-src_fastopenblas.h
+++ /dev/null
@@ -1,19 +0,0 @@
-$NetBSD$
-
-# gcc7 error
-
---- src/fastopenblas.h.orig	2019-04-29 21:48:45.740065714 +0000
-+++ src/fastopenblas.h
-@@ -29,9 +29,9 @@ extern "C"
- }
- #include "gsl/gsl_matrix.h"
- 
--void fast_cblas_dgemm(const enum CBLAS_ORDER Order,
--                      const enum CBLAS_TRANSPOSE TransA,
--                      const enum CBLAS_TRANSPOSE TransB,
-+void fast_cblas_dgemm(const CBLAS_ORDER Order,
-+                      const CBLAS_TRANSPOSE TransA,
-+                      const CBLAS_TRANSPOSE TransB,
-                       const size_t M,
-                       const size_t N,
-                       const size_t K,