Date: Tue, 26 Nov 2019 16:25:09 +0000 (UTC) From: "Jason W. Bacon" <jwb@FreeBSD.org> To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r518470 - in head/biology/py-multiqc: . files Message-ID: <201911261625.xAQGP983013831@repo.freebsd.org>
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Author: jwb Date: Tue Nov 26 16:25:08 2019 New Revision: 518470 URL: https://svnweb.freebsd.org/changeset/ports/518470 Log: biology/py-multiqc: Upgrade to 1.8 Major enhancements including 6 new modules and improvements to existing modules Numerous minor fixes and enhancements Reported by: portscout Added: head/biology/py-multiqc/files/patch-multiqc_multiqc.py (contents, props changed) Deleted: head/biology/py-multiqc/files/patch-multiqc_utils_config.py head/biology/py-multiqc/files/patch-scripts_multiqc Modified: head/biology/py-multiqc/Makefile head/biology/py-multiqc/distinfo Modified: head/biology/py-multiqc/Makefile ============================================================================== --- head/biology/py-multiqc/Makefile Tue Nov 26 16:20:12 2019 (r518469) +++ head/biology/py-multiqc/Makefile Tue Nov 26 16:25:08 2019 (r518470) @@ -1,7 +1,7 @@ # $FreeBSD$ PORTNAME= multiqc -DISTVERSION= 1.7 +DISTVERSION= 1.8 CATEGORIES= biology python MASTER_SITES= CHEESESHOP PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX} @@ -15,6 +15,7 @@ LICENSE_FILE= ${WRKSRC}/LICENSE RUN_DEPENDS= ${PYNUMPY} \ ${PYTHON_PKGNAMEPREFIX}click>0:devel/py-click@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}future>0.14.0:devel/py-future@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}coloredlogs>0:devel/py-coloredlogs@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}matplotlib>=2.1.1:math/py-matplotlib@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}markdown>0:textproc/py-markdown@${PY_FLAVOR} \ ${PYTHON_PKGNAMEPREFIX}yaml>0:devel/py-yaml@${PY_FLAVOR} \ Modified: head/biology/py-multiqc/distinfo ============================================================================== --- head/biology/py-multiqc/distinfo Tue Nov 26 16:20:12 2019 (r518469) +++ head/biology/py-multiqc/distinfo Tue Nov 26 16:25:08 2019 (r518470) @@ -1,3 +1,3 @@ -TIMESTAMP = 1569116068 -SHA256 (multiqc-1.7.tar.gz) = 02e6a7fac7cd9ed036dcc6c92b8f8bcacbd28983ba6be53afb35e08868bd2d68 -SIZE (multiqc-1.7.tar.gz) = 1168389 +TIMESTAMP = 1574697347 +SHA256 (multiqc-1.8.tar.gz) = ea7f3e320a8812a0d5a8778605f76ff4bb6ca5c3ed23d4269f0bac2159838f3e +SIZE (multiqc-1.8.tar.gz) = 1657725 Added: head/biology/py-multiqc/files/patch-multiqc_multiqc.py ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/py-multiqc/files/patch-multiqc_multiqc.py Tue Nov 26 16:25:08 2019 (r518470) @@ -0,0 +1,30 @@ +--- multiqc/multiqc.py.orig 2019-11-25 15:53:22 UTC ++++ multiqc/multiqc.py +@@ -11,16 +11,25 @@ from __future__ import print_function + + import base64 + import click ++import os ++import sys ++ ++if 'LC_ALL' in os.environ and 'LANG' in os.environ: ++ import click ++else: ++ print('multiqc: LC_ALL and LANG must be set to a UTF-8 character set') ++ print('in your environment in order for the click module to function.') ++ print('E.g. export LC_ALL=en_US.UTF-8 or setenv LC_ALL en_US.UTF-8') ++ sys.exit() ++ + from distutils import version + from distutils.dir_util import copy_tree + import errno + import io + import jinja2 +-import os + import re + import shutil + import subprocess +-import sys + import tempfile + import traceback +
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