svn commit: r526244 - head/biology/kallisto

[Jason W. Bacon]

Author: jwb
Date: Sat Feb 15 23:09:19 2020
New Revision: 526244
URL: https://svnweb.freebsd.org/changeset/ports/526244

Log:
  biology/kallisto: Upgrade to 0.46.2
  
  Kallisto no longer builds in hdf5 by default, but it is still required
  for some downstream tools like Sleuth.  Forcing it ON for now, but will
  disable it in a future upgrade.
  
  Reported by:    portscout

Modified:
  head/biology/kallisto/Makefile
  head/biology/kallisto/distinfo

Modified: head/biology/kallisto/Makefile
==============================================================================
--- head/biology/kallisto/Makefile	Sat Feb 15 22:34:02 2020	(r526243)
+++ head/biology/kallisto/Makefile	Sat Feb 15 23:09:19 2020	(r526244)
@@ -2,7 +2,7 @@
 
 PORTNAME=		kallisto
 DISTVERSIONPREFIX=	v
-DISTVERSION=		0.46.1
+DISTVERSION=		0.46.2
 CATEGORIES=		biology
 
 MAINTAINER=	jwb at FreeBSD.org
@@ -15,7 +15,7 @@ LIB_DEPENDS=	libhdf5.so:science/hdf5 \
 		libsz.so:science/szip \
 		libhts.so:biology/htslib
 
-USES=		cmake:noninja compiler:c++11-lang
+USES=		cmake:noninja compiler:c++11-lang localbase:ldflags
 USE_GITHUB=	yes
 GH_ACCOUNT=	pachterlab
 
@@ -25,8 +25,12 @@ PORTEXAMPLES=		*
 PLIST_FILES=		bin/kallisto
 EXAMPLES_PLIST_FILES=	bin/kallisto-test
 
+# hdf5 is being phased out and is no longer build in by default, but is still
+# required for Sleuth and other downstream tools.  Remove this after Sleuth
+# et all catch up.
+CMAKE_ARGS+=	-DUSE_HDF5:BOOL=ON
+
 OPTIONS_DEFINE=	EXAMPLES
-LDFLAGS+=	-L${LOCALBASE}/lib
 
 post-install-EXAMPLES-on:
 	${INSTALL_SCRIPT} ${WRKDIR}/kallisto-test ${STAGEDIR}${PREFIX}/bin

Modified: head/biology/kallisto/distinfo
==============================================================================
--- head/biology/kallisto/distinfo	Sat Feb 15 22:34:02 2020	(r526243)
+++ head/biology/kallisto/distinfo	Sat Feb 15 23:09:19 2020	(r526244)
@@ -1,3 +1,3 @@
-TIMESTAMP = 1572972210
-SHA256 (pachterlab-kallisto-v0.46.1_GH0.tar.gz) = 492ef081395e8858fcd9832aceb8b61c79358f00afb45e6709146c0fb51dd231
-SIZE (pachterlab-kallisto-v0.46.1_GH0.tar.gz) = 2254560
+TIMESTAMP = 1581611719
+SHA256 (pachterlab-kallisto-v0.46.2_GH0.tar.gz) = 10bab0c2929d8c345750e02735b305bbbfa89e8a48f42c4b9af44f3d44ff4c82
+SIZE (pachterlab-kallisto-v0.46.2_GH0.tar.gz) = 2693857