CVS commit: pkgsrc/biology/py-dnaio

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

Module Name:    pkgsrc
Committed By:   bacon
Date:           Sat Feb 10 13:07:54 UTC 2024

Modified Files:
        pkgsrc/biology/py-dnaio: DESCR Makefile PLIST distinfo

Log Message:
biology/py-dnaio: Update to 1.2.0

Numerous bug fixes and enhancements since 0.9.1
Changes: https://github.com/marcelm/dnaio/tags


To generate a diff of this commit:
cvs rdiff -u -r1.1 -r1.2 pkgsrc/biology/py-dnaio/DESCR
cvs rdiff -u -r1.7 -r1.8 pkgsrc/biology/py-dnaio/Makefile
cvs rdiff -u -r1.3 -r1.4 pkgsrc/biology/py-dnaio/PLIST
cvs rdiff -u -r1.5 -r1.6 pkgsrc/biology/py-dnaio/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-dnaio/DESCR
diff -u pkgsrc/biology/py-dnaio/DESCR:1.1 pkgsrc/biology/py-dnaio/DESCR:1.2
--- pkgsrc/biology/py-dnaio/DESCR:1.1   Mon Feb  8 01:52:24 2021
+++ pkgsrc/biology/py-dnaio/DESCR       Sat Feb 10 13:07:54 2024
@@ -1,3 +1,4 @@
-dnaio is a Python 3 library for fast input and output of FASTQ and FASTA files.
-It supports paired-end data in separate files, interleaved paired-end in a
-single file and compression using gzip, bzip, and xz.
+dnaio is a Python 3 library for fast input and output of FASTQ and
+FASTA files.  It supports paired-end data in separate files,
+interleaved paired-end in a single file and compression using gzip,
+bzip, and xz.

Index: pkgsrc/biology/py-dnaio/Makefile
diff -u pkgsrc/biology/py-dnaio/Makefile:1.7 pkgsrc/biology/py-dnaio/Makefile:1.8
--- pkgsrc/biology/py-dnaio/Makefile:1.7        Mon Nov 14 10:39:40 2022
+++ pkgsrc/biology/py-dnaio/Makefile    Sat Feb 10 13:07:54 2024
@@ -1,6 +1,6 @@
-# $NetBSD: Makefile,v 1.7 2022/11/14 10:39:40 wiz Exp $
+# $NetBSD: Makefile,v 1.8 2024/02/10 13:07:54 bacon Exp $
 
-DISTNAME=      dnaio-0.9.1
+DISTNAME=      dnaio-1.2.0
 PKGNAME=       ${PYPKGPREFIX}-${DISTNAME}
 CATEGORIES=    biology python
 MASTER_SITES=  ${MASTER_SITE_PYPI:=d/dnaio/}
@@ -12,9 +12,9 @@ LICENSE=      mit
 
 TOOL_DEPENDS+= ${PYPKGPREFIX}-setuptools_scm-[0-9]*:../../devel/py-setuptools_scm
 TOOL_DEPENDS+= ${PYPKGPREFIX}-cython>=0.29.20:../../devel/py-cython
-DEPENDS+=      ${PYPKGPREFIX}-xopen>=0.8.2:../../devel/py-xopen
+DEPENDS+=      ${PYPKGPREFIX}-xopen>=1.4.0:../../devel/py-xopen
 
 PYTHON_VERSIONS_INCOMPATIBLE=  27
 
-.include "../../lang/python/egg.mk"
+.include "../../lang/python/wheel.mk"
 .include "../../mk/bsd.pkg.mk"

Index: pkgsrc/biology/py-dnaio/PLIST
diff -u pkgsrc/biology/py-dnaio/PLIST:1.3 pkgsrc/biology/py-dnaio/PLIST:1.4
--- pkgsrc/biology/py-dnaio/PLIST:1.3   Mon Nov 14 10:39:40 2022
+++ pkgsrc/biology/py-dnaio/PLIST       Sat Feb 10 13:07:54 2024
@@ -1,9 +1,9 @@
-@comment $NetBSD: PLIST,v 1.3 2022/11/14 10:39:40 wiz Exp $
-${PYSITELIB}/${EGG_INFODIR}/PKG-INFO
-${PYSITELIB}/${EGG_INFODIR}/SOURCES.txt
-${PYSITELIB}/${EGG_INFODIR}/dependency_links.txt
-${PYSITELIB}/${EGG_INFODIR}/requires.txt
-${PYSITELIB}/${EGG_INFODIR}/top_level.txt
+@comment $NetBSD: PLIST,v 1.4 2024/02/10 13:07:54 bacon Exp $
+${PYSITELIB}/${WHEEL_INFODIR}/LICENSE
+${PYSITELIB}/${WHEEL_INFODIR}/METADATA
+${PYSITELIB}/${WHEEL_INFODIR}/RECORD
+${PYSITELIB}/${WHEEL_INFODIR}/WHEEL
+${PYSITELIB}/${WHEEL_INFODIR}/top_level.txt
 ${PYSITELIB}/dnaio/__init__.py
 ${PYSITELIB}/dnaio/__init__.pyc
 ${PYSITELIB}/dnaio/__init__.pyo
@@ -18,7 +18,7 @@ ${PYSITELIB}/dnaio/_version.pyc
 ${PYSITELIB}/dnaio/_version.pyi
 ${PYSITELIB}/dnaio/_version.pyo
 ${PYSITELIB}/dnaio/ascii_check.h
-${PYSITELIB}/dnaio/ascii_check_sse2.h
+${PYSITELIB}/dnaio/bam.h
 ${PYSITELIB}/dnaio/chunks.py
 ${PYSITELIB}/dnaio/chunks.pyc
 ${PYSITELIB}/dnaio/chunks.pyo
@@ -28,6 +28,9 @@ ${PYSITELIB}/dnaio/exceptions.pyo
 ${PYSITELIB}/dnaio/interfaces.py
 ${PYSITELIB}/dnaio/interfaces.pyc
 ${PYSITELIB}/dnaio/interfaces.pyo
+${PYSITELIB}/dnaio/multipleend.py
+${PYSITELIB}/dnaio/multipleend.pyc
+${PYSITELIB}/dnaio/multipleend.pyo
 ${PYSITELIB}/dnaio/pairedend.py
 ${PYSITELIB}/dnaio/pairedend.pyc
 ${PYSITELIB}/dnaio/pairedend.pyo

Index: pkgsrc/biology/py-dnaio/distinfo
diff -u pkgsrc/biology/py-dnaio/distinfo:1.5 pkgsrc/biology/py-dnaio/distinfo:1.6
--- pkgsrc/biology/py-dnaio/distinfo:1.5        Mon Nov 14 10:39:40 2022
+++ pkgsrc/biology/py-dnaio/distinfo    Sat Feb 10 13:07:54 2024
@@ -1,5 +1,5 @@
-$NetBSD: distinfo,v 1.5 2022/11/14 10:39:40 wiz Exp $
+$NetBSD: distinfo,v 1.6 2024/02/10 13:07:54 bacon Exp $
 
-BLAKE2s (dnaio-0.9.1.tar.gz) = 7c5ec560b4efba83d73bbcfdbfcd582b38e118f84e58dcd1701b0e63af314a2b
-SHA512 (dnaio-0.9.1.tar.gz) = c5975451fd458030a2626e4e85607232c7d169a4b6dabe88830006eea326a810c77955e7d104d30ddd4af5fe552fc10c292ef475a74f84d7e9f03bd9164b1993
-Size (dnaio-0.9.1.tar.gz) = 41594 bytes
+BLAKE2s (dnaio-1.2.0.tar.gz) = 798b8c22234423de1c9f088cb5bc2b8b6a5fd2999b1021dfa07d1bab2d1fe48e
+SHA512 (dnaio-1.2.0.tar.gz) = 049d97e73c327b2370fa5500a4fbe3a560eed24d37e1203553a8427dc7c17efc1c6efcbd46e7dd1291fc0ebe2e2d830d6184d3d7bd150c873472505093d3752d
+Size (dnaio-1.2.0.tar.gz) = 58225 bytes