CVS commit: pkgsrc/biology/py-cutadapt

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

Module Name:    pkgsrc
Committed By:   bacon
Date:           Sat Mar 16 13:46:42 UTC 2024

Modified Files:
        pkgsrc/biology/py-cutadapt: Makefile PLIST distinfo

Log Message:
py-cutadapt: Update to 4.7 (minor update)

Send error message to stderr
Add support for single-ended uBAM
Drop Python 3.7

Changes: https://cutadapt.readthedocs.io/en/stable/changes.html


To generate a diff of this commit:
cvs rdiff -u -r1.12 -r1.13 pkgsrc/biology/py-cutadapt/Makefile
cvs rdiff -u -r1.4 -r1.5 pkgsrc/biology/py-cutadapt/PLIST
cvs rdiff -u -r1.7 -r1.8 pkgsrc/biology/py-cutadapt/distinfo

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

Modified files:

Index: pkgsrc/biology/py-cutadapt/Makefile
diff -u pkgsrc/biology/py-cutadapt/Makefile:1.12 pkgsrc/biology/py-cutadapt/Makefile:1.13
--- pkgsrc/biology/py-cutadapt/Makefile:1.12    Sun Feb 18 11:14:08 2024
+++ pkgsrc/biology/py-cutadapt/Makefile Sat Mar 16 13:46:42 2024
@@ -1,6 +1,6 @@
-# $NetBSD: Makefile,v 1.12 2024/02/18 11:14:08 wiz Exp $
+# $NetBSD: Makefile,v 1.13 2024/03/16 13:46:42 bacon Exp $
 
-DISTNAME=      cutadapt-4.6
+DISTNAME=      cutadapt-4.7
 PKGNAME=       ${PYPKGPREFIX}-${DISTNAME}
 CATEGORIES=    biology python
 MASTER_SITES=  ${MASTER_SITE_PYPI:=c/cutadapt/}
@@ -10,7 +10,6 @@ HOMEPAGE=     https://cutadapt.readthedocs.i
 COMMENT=       Find and remove adapter sequences, primers, poly-A tails, etc
 LICENSE=       mit
 
-TOOL_DEPENDS+= ${PYPKGPREFIX}-setuptools_scm-[0-9]*:../../devel/py-setuptools_scm
 TOOL_DEPENDS+= ${PYPKGPREFIX}-wheel-[0-9]*:../../devel/py-wheel
 # needed for python 3.11 as of cutadapt 3.5 release
 TOOL_DEPENDS+= ${PYPKGPREFIX}-cython-[0-9]*:../../devel/py-cython
@@ -19,6 +18,8 @@ DEPENDS+=     ${PYPKGPREFIX}-dnaio>=0.10.0:.
 
 PYTHON_VERSIONS_INCOMPATIBLE=  27 # py-xopen
 
+USE_PKG_RESOURCES=     yes
+
 PYTHON_SELF_CONFLICT=  yes
 
 .include "../../lang/python/wheel.mk"

Index: pkgsrc/biology/py-cutadapt/PLIST
diff -u pkgsrc/biology/py-cutadapt/PLIST:1.4 pkgsrc/biology/py-cutadapt/PLIST:1.5
--- pkgsrc/biology/py-cutadapt/PLIST:1.4        Sat Feb 10 13:12:35 2024
+++ pkgsrc/biology/py-cutadapt/PLIST    Sat Mar 16 13:46:42 2024
@@ -1,4 +1,4 @@
-@comment $NetBSD: PLIST,v 1.4 2024/02/10 13:12:35 bacon Exp $
+@comment $NetBSD: PLIST,v 1.5 2024/03/16 13:46:42 bacon Exp $
 bin/cutadapt
 ${PYSITELIB}/${WHEEL_INFODIR}/LICENSE
 ${PYSITELIB}/${WHEEL_INFODIR}/METADATA

Index: pkgsrc/biology/py-cutadapt/distinfo
diff -u pkgsrc/biology/py-cutadapt/distinfo:1.7 pkgsrc/biology/py-cutadapt/distinfo:1.8
--- pkgsrc/biology/py-cutadapt/distinfo:1.7     Sat Feb 10 13:12:35 2024
+++ pkgsrc/biology/py-cutadapt/distinfo Sat Mar 16 13:46:42 2024
@@ -1,5 +1,5 @@
-$NetBSD: distinfo,v 1.7 2024/02/10 13:12:35 bacon Exp $
+$NetBSD: distinfo,v 1.8 2024/03/16 13:46:42 bacon Exp $
 
-BLAKE2s (cutadapt-4.6.tar.gz) = 5a77d2a4b39e59f207c330cfd74641a228940dea50e36f6673b341ec432f57ec
-SHA512 (cutadapt-4.6.tar.gz) = b7ab31c6df72d970625edbf3dd0d0970a99c1a044b898449ec059d261db6f64b1b756a8a937217fb3f298cf4cb002c4a8c616402ec7dbc28fc2cc16ea05c2faf
-Size (cutadapt-4.6.tar.gz) = 250254 bytes
+BLAKE2s (cutadapt-4.7.tar.gz) = f5b03c53fc169c1c9398c40ffc34de0b54a79a082df3064035c0780aef5cde8f
+SHA512 (cutadapt-4.7.tar.gz) = 975a12899fc014b645839ab4ebc1cbb9df7c87d4c4bef67976a72b657d7c274a49edf08e7dfa935d893cf7af35027a0cc04ceb79be0766cbe9ca49c5a2a85c61
+Size (cutadapt-4.7.tar.gz) = 250893 bytes