svn commit: r563844 - in head: archivers/py-xopen biology/py-cutadapt biology/py-dnaio

[Jason W. Bacon]

Author: jwb
Date: Tue Feb  2 20:39:09 2021
New Revision: 563844
URL: https://svnweb.freebsd.org/changeset/ports/563844

Log:
  biology/py-cutadapt: Update to 3.2
  biology/py-dnaio: Update to 0.5.0
  archivers/py-xopen: Update to 1.0.0
  
  Numerous bug fixes and enhancements since cutadapt 3.2
  
  Document cutadapt dependency versions dnaio~=0.5.0 xopen~=1.0.0
  Bump python dependency to 3.6+ to restrict package builds

Modified:
  head/archivers/py-xopen/Makefile
  head/archivers/py-xopen/distinfo
  head/biology/py-cutadapt/Makefile
  head/biology/py-cutadapt/distinfo
  head/biology/py-dnaio/Makefile
  head/biology/py-dnaio/distinfo

Modified: head/archivers/py-xopen/Makefile
==============================================================================
--- head/archivers/py-xopen/Makefile	Tue Feb  2 20:28:38 2021	(r563843)
+++ head/archivers/py-xopen/Makefile	Tue Feb  2 20:39:09 2021	(r563844)
@@ -1,7 +1,7 @@
 # $FreeBSD$
 
 PORTNAME=	xopen
-DISTVERSION=	0.8.4
+DISTVERSION=	1.0.0	# py-cutadapt requires 1.0.x
 CATEGORIES=	archivers python
 MASTER_SITES=	CHEESESHOP
 PKGNAMEPREFIX=	${PYTHON_PKGNAMEPREFIX}
@@ -17,7 +17,7 @@ RUN_DEPENDS=	${PYTHON_PKGNAMEPREFIX}bz2file>=0.98:arch
 		pigz>=0:archivers/pigz
 TEST_DEPENDS=	${PYTHON_PKGNAMEPREFIX}pytest>0:devel/py-pytest@${PY_FLAVOR}
 
-USES=		python:3.4+
+USES=		python:3.6+
 USE_PYTHON=	autoplist distutils
 
 NO_ARCH=	yes

Modified: head/archivers/py-xopen/distinfo
==============================================================================
--- head/archivers/py-xopen/distinfo	Tue Feb  2 20:28:38 2021	(r563843)
+++ head/archivers/py-xopen/distinfo	Tue Feb  2 20:39:09 2021	(r563844)
@@ -1,3 +1,3 @@
-TIMESTAMP = 1574517144
-SHA256 (xopen-0.8.4.tar.gz) = dcd8f5ef5da5564f514a990573a48a0c347ee1fdbb9b6374d31592819868f7ba
-SIZE (xopen-0.8.4.tar.gz) = 13029
+TIMESTAMP = 1612290513
+SHA256 (xopen-1.0.0.tar.gz) = 2fd9f537d96c6fb2f0bfed2c5ea133d8961dcef0baa3d8c388cb8bea2af5b090
+SIZE (xopen-1.0.0.tar.gz) = 17487

Modified: head/biology/py-cutadapt/Makefile
==============================================================================
--- head/biology/py-cutadapt/Makefile	Tue Feb  2 20:28:38 2021	(r563843)
+++ head/biology/py-cutadapt/Makefile	Tue Feb  2 20:39:09 2021	(r563844)
@@ -1,7 +1,7 @@
 # $FreeBSD$
 
 PORTNAME=	cutadapt
-DISTVERSION=	2.7
+DISTVERSION=	3.2
 CATEGORIES=	biology python
 MASTER_SITES=	CHEESESHOP
 PKGNAMEPREFIX=	${PYTHON_PKGNAMEPREFIX}
@@ -13,12 +13,12 @@ LICENSE=	MIT
 LICENSE_FILE=	${WRKSRC}/LICENSE
 
 BUILD_DEPENDS=	${PYTHON_PKGNAMEPREFIX}setuptools_scm>0:devel/py-setuptools_scm@${PY_FLAVOR}
-RUN_DEPENDS=	${PYTHON_PKGNAMEPREFIX}xopen>=0.8.4:archivers/py-xopen@${PY_FLAVOR} \
-		${PYTHON_PKGNAMEPREFIX}dnaio>=0.4.1:biology/py-dnaio@${PY_FLAVOR}
+RUN_DEPENDS=	${PYTHON_PKGNAMEPREFIX}xopen==1.0:archivers/py-xopen@${PY_FLAVOR} \
+		${PYTHON_PKGNAMEPREFIX}dnaio==0.5:biology/py-dnaio@${PY_FLAVOR}
 TEST_DEPENDS=	${PYTHON_PKGNAMEPREFIX}pytest>0:devel/py-pytest@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}pytest-timeout>0:devel/py-pytest-timeout@${PY_FLAVOR}
 
-USES=		python:3.5+
+USES=		python:3.6+
 USE_PYTHON=	autoplist concurrent cython distutils
 
 post-install:

Modified: head/biology/py-cutadapt/distinfo
==============================================================================
--- head/biology/py-cutadapt/distinfo	Tue Feb  2 20:28:38 2021	(r563843)
+++ head/biology/py-cutadapt/distinfo	Tue Feb  2 20:39:09 2021	(r563844)
@@ -1,3 +1,3 @@
-TIMESTAMP = 1574517013
-SHA256 (cutadapt-2.7.tar.gz) = 070dec8d94b8bda72906c614b9e71bd61254a67a176dd17e5b57671edd567983
-SIZE (cutadapt-2.7.tar.gz) = 272702
+TIMESTAMP = 1612289840
+SHA256 (cutadapt-3.2.tar.gz) = 82c063129d0449d3c0bfb9b849db2bee6b226d3d1c31cad68011e2473791dc75
+SIZE (cutadapt-3.2.tar.gz) = 292702

Modified: head/biology/py-dnaio/Makefile
==============================================================================
--- head/biology/py-dnaio/Makefile	Tue Feb  2 20:28:38 2021	(r563843)
+++ head/biology/py-dnaio/Makefile	Tue Feb  2 20:39:09 2021	(r563844)
@@ -1,7 +1,7 @@
 # $FreeBSD$
 
 PORTNAME=	dnaio
-DISTVERSION=	0.4.2
+DISTVERSION=	0.5.0	# py-cutadapt 3.2 requires 0.5.x
 CATEGORIES=	biology python
 MASTER_SITES=	CHEESESHOP
 PKGNAMEPREFIX=	${PYTHON_PKGNAMEPREFIX}
@@ -14,7 +14,7 @@ LICENSE_FILE=	${WRKSRC}/LICENSE
 
 BUILD_DEPENDS=	${PYTHON_PKGNAMEPREFIX}setuptools_scm>0:devel/py-setuptools_scm@${PY_FLAVOR}
 
-USES=		python:3.4+
+USES=		python:3.6+
 USE_PYTHON=	autoplist distutils
 
 .include <bsd.port.mk>

Modified: head/biology/py-dnaio/distinfo
==============================================================================
--- head/biology/py-dnaio/distinfo	Tue Feb  2 20:28:38 2021	(r563843)
+++ head/biology/py-dnaio/distinfo	Tue Feb  2 20:39:09 2021	(r563844)
@@ -1,3 +1,3 @@
-TIMESTAMP = 1589846766
-SHA256 (dnaio-0.4.2.tar.gz) = fa55a45bfd5d9272409b714158fb3a7de5dceac1034a0af84502c7f503ee84f8
-SIZE (dnaio-0.4.2.tar.gz) = 125495
+TIMESTAMP = 1612290443
+SHA256 (dnaio-0.5.0.tar.gz) = 6d01979159057954a265d81767f8cb26721a6d3a458601a73d1647792a50134c
+SIZE (dnaio-0.5.0.tar.gz) = 126321