bedtools: Upgrade to 2.30.0

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

Module Name:	pkgsrc-wip
Committed By:	Jason W Bacon <bacon%NetBSD.org@localhost>
Pushed By:	outpaddling
Date:		Sun Jan 24 09:29:51 2021 -0600
Changeset:	afd4f3b02f137b019c1f4ce34b50e49de25a9a14

Modified Files:
	bedtools/Makefile
	bedtools/distinfo

Log Message:
bedtools: Upgrade to 2.30.0

Add test target

To see a diff of this commit:
https://wip.pkgsrc.org/cgi-bin/gitweb.cgi?p=pkgsrc-wip.git;a=commitdiff;h=afd4f3b02f137b019c1f4ce34b50e49de25a9a14

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

diffstat:
 bedtools/Makefile | 10 +++++-----
 bedtools/distinfo |  8 ++++----
 2 files changed, 9 insertions(+), 9 deletions(-)

diffs:
diff --git a/bedtools/Makefile b/bedtools/Makefile
index b1bc0d6554..439a5d5958 100644
--- a/bedtools/Makefile
+++ b/bedtools/Makefile
@@ -1,6 +1,6 @@
 # $NetBSD$
 
-DISTNAME=	bedtools-2.29.2
+DISTNAME=	bedtools-2.30.0
 CATEGORIES=	biology
 MASTER_SITES=	${MASTER_SITE_GITHUB:=arq5x/}
 GITHUB_PROJECT=	bedtools2
@@ -11,6 +11,8 @@ HOMEPAGE=	https://bedtools.readthedocs.io/en/latest/
 COMMENT=	Swiss army knife for genome arithmetic
 LICENSE=	mit
 
+DEPENDS=	samtools>0:../../biology/samtools
+
 USE_LANGUAGES=	c c++
 USE_TOOLS+=	gmake
 REPLACE_SH+=	scripts/vcfsort.sh
@@ -21,10 +23,8 @@ SUBST_STAGE.pybin=	pre-configure
 SUBST_SED.pybin=	-e 's|python|${PYTHONBIN}|g'
 SUBST_FILES.pybin=	Makefile
 
-# Avoid conflict with C++20 <version> by adding .txt suffix
-post-extract:
-	${MV} ${WRKSRC}/src/utils/gzstream/version \
-		${WRKSRC}/src/utils/gzstream/version.txt
+do-test:
+	(cd ${WRKSRC}/test && bash test.sh)
 
 .include "../../devel/zlib/buildlink3.mk"
 .include "../../archivers/bzip2/buildlink3.mk"
diff --git a/bedtools/distinfo b/bedtools/distinfo
index 17501fd9cb..9ba694c9cc 100644
--- a/bedtools/distinfo
+++ b/bedtools/distinfo
@@ -1,8 +1,8 @@
 $NetBSD$
 
-SHA1 (bedtools-2.29.2.tar.gz) = 51f03e1cac60f99c062d9babb6385800c89c78f6
-RMD160 (bedtools-2.29.2.tar.gz) = 08ea14501ddfc85f2d4a5a756a10512a61ec93f2
-SHA512 (bedtools-2.29.2.tar.gz) = 06b0016674acb08fd85b80fe1a8ff1ebce5c54c0a30ff7f4e52e63fe5b3f3841413f49df3c51088454d79048ca267fde8c23d9ed51f309ee6916d9b49610be41
-Size (bedtools-2.29.2.tar.gz) = 20638840 bytes
+SHA1 (bedtools-2.30.0.tar.gz) = b3bae21434f261818e15875727b4a3c5c7366bc7
+RMD160 (bedtools-2.30.0.tar.gz) = 1cc30e5bc3df12f38d8f1e055ff2f939d7608395
+SHA512 (bedtools-2.30.0.tar.gz) = 3d69d6a53d3e5d15597dfefa26f7895231adbf3c1fe3b16ee4213e497ef01a20698add2f0e6f03d8eb7cd7c70709955f0ebdf897a025a83d31ef17e2c91f9856
+Size (bedtools-2.30.0.tar.gz) = 20639858 bytes
 SHA1 (patch-Makefile) = d6a76cb23e623842d6d5c60d67eff928b45b091c
 SHA1 (patch-src_utils_htslib_Makefile) = ba513efa59eed05321c176185fb576f4892ea7a5