kallisto: Upgrade to 0.45.0 and clean up

[Jason Bacon <bacon%NetBSD.org@localhost>]

Module Name:	pkgsrc-wip
Committed By:	Jason Bacon <bacon%NetBSD.org@localhost>
Pushed By:	outpaddling
Date:		Wed Dec 19 11:25:49 2018 -0600
Changeset:	59fd6c3f534052bb7afbb59edbf7f4aeab23cba4

Modified Files:
	kallisto/Makefile
	kallisto/distinfo
	kallisto/patches/patch-CMakeLists.txt

Log Message:
kallisto: Upgrade to 0.45.0 and clean up

To see a diff of this commit:
https://wip.pkgsrc.org/cgi-bin/gitweb.cgi?p=pkgsrc-wip.git;a=commitdiff;h=59fd6c3f534052bb7afbb59edbf7f4aeab23cba4

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

diffstat:
 kallisto/Makefile                     | 12 ++----------
 kallisto/distinfo                     | 10 +++++-----
 kallisto/patches/patch-CMakeLists.txt |  4 ++--
 3 files changed, 9 insertions(+), 17 deletions(-)

diffs:
diff --git a/kallisto/Makefile b/kallisto/Makefile
index a39a16fdb9..68e313ac5e 100644
--- a/kallisto/Makefile
+++ b/kallisto/Makefile
@@ -1,18 +1,12 @@
 # $NetBSD$
-#
-###########################################################
-#                  Generated by fbsd2pkg                  #
-#              Thu Oct 19 20:40:39 CDT 2017               #
-###########################################################
 
 DISTNAME=	kallisto-${PV}
 CATEGORIES=	biology
 MASTER_SITES=	${MASTER_SITE_GITHUB:=pachterlab/}
-GITHUB_PROJECT=	kallisto
 GITHUB_TAG=	v${PV}
 
 MAINTAINER=	bacon%NetBSD.org@localhost
-HOMEPAGE=	https://pachterlab.github.io/kallisto/about.html
+HOMEPAGE=	https://pachterlab.github.io/kallisto/
 COMMENT=	Quantify abundances of transcripts from RNA-Seq data
 LICENSE=	2-clause-bsd
 
@@ -20,9 +14,7 @@ USE_LANGUAGES=	c c++
 USE_TOOLS+=	pax
 USE_CMAKE=	yes
 
-# CXXFLAGS+=	-I${PREFIX}/include
-
-PV=		0.44.0
+PV=		0.45.0
 DATADIR=	${PREFIX}/share/kallisto
 
 INSTALLATION_DIRS=	bin ${DATADIR}
diff --git a/kallisto/distinfo b/kallisto/distinfo
index 1a3c78ce68..faae34d6ad 100644
--- a/kallisto/distinfo
+++ b/kallisto/distinfo
@@ -1,8 +1,8 @@
 $NetBSD$
 
-SHA1 (kallisto-0.44.0.tar.gz) = 77f4e5ec4f94ed222ece07fee2792dfe0e8f096f
-RMD160 (kallisto-0.44.0.tar.gz) = 15888692b43c7aed659d27e7d21659b54d51aece
-SHA512 (kallisto-0.44.0.tar.gz) = 7809257c2aa9ccca98e34cb16e12ce00ceb691600430ae689d4fdcdd7a43850ec940b6868550399bf3cef1136af8a6e6320ecd5215ee4aee6a136d1e27c062c2
-Size (kallisto-0.44.0.tar.gz) = 2242173 bytes
-SHA1 (patch-CMakeLists.txt) = 6624f6dd544d3d310dc103c64d5bada17e8c2381
+SHA1 (kallisto-0.45.0.tar.gz) = ab0890c5d675d678dbcf415a86512b4694b3a4a6
+RMD160 (kallisto-0.45.0.tar.gz) = f482f7525dde0bfc2425cf803812c1c7748c882e
+SHA512 (kallisto-0.45.0.tar.gz) = b120c36ccb4725b19307c3e90c7f9b73b87efc53f08d3f2c12fc2e4b7afc3c03c52ba07dff623c9c8ad5a7e89c1eeb907389ccf3e4440236e81a0611500639e2
+Size (kallisto-0.45.0.tar.gz) = 2250430 bytes
+SHA1 (patch-CMakeLists.txt) = 2817091347e35898fec0bab77e8d9cc5ca5fff3f
 SHA1 (patch-src_CMakeLists.txt) = 2ef72024591c5216fbf44fb7cdfa4a8330b0c81a
diff --git a/kallisto/patches/patch-CMakeLists.txt b/kallisto/patches/patch-CMakeLists.txt
index 3f79ba35b7..fb2e62ac5b 100644
--- a/kallisto/patches/patch-CMakeLists.txt
+++ b/kallisto/patches/patch-CMakeLists.txt
@@ -2,7 +2,7 @@ $NetBSD$
 
 # Unbundle htslib
 
---- CMakeLists.txt.orig	2018-10-17 23:58:06 UTC
+--- CMakeLists.txt.orig	2018-12-19 17:13:04.000000000 +0000
 +++ CMakeLists.txt
 @@ -35,21 +35,6 @@ ELSE(LINK MATCHES shared)
  ENDIF(LINK MATCHES static)
@@ -13,7 +13,7 @@ $NetBSD$
 -    PREFIX ${PROJECT_SOURCE_DIR}/ext/htslib
 -    SOURCE_DIR ${PROJECT_SOURCE_DIR}/ext/htslib
 -    BUILD_IN_SOURCE 1
--    CONFIGURE_COMMAND ${PROJECT_SOURCE_DIR}/ext/htslib/configure 
+-    CONFIGURE_COMMAND autoheader && autoconf && ${PROJECT_SOURCE_DIR}/ext/htslib/configure 
 -        --prefix=${PREFIX} --disable-bz2 --disable-lzma --disable-libcurl
 -    BUILD_COMMAND make lib-static
 -    INSTALL_COMMAND ""