Attachment 254947 Details for Bug 282551 – [PATCH] biology/checkm: update 1.2.2 → 1.2.3

[patch] [PATCH] biology/checkm: update 1.2.2 → 1.2.3

0001-biology-checkm-update-1.2.2-1.2.3.patch (text/plain), 3.16 KB, created by Älven on 2024-11-04 21:34:25 UTC

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Creator: Älven

Created: 2024-11-04 21:34:25 UTC

Size: 3.16 KB

patch

obsolete

>From e6f3db4cb44be486dfb9160216aa6bf5b422aa07 Mon Sep 17 00:00:00 2001
>From: Ãlven <alster@vinterdalen.se>
>Date: Tue, 5 Nov 2024 01:17:04 +0400
>Subject: [PATCH] biology/checkm: update 1.2.2 â 1.2.3
>MIME-Version: 1.0
>Content-Type: text/plain; charset=UTF-8
>Content-Transfer-Encoding: 8bit
>
>---
> biology/checkm/Makefile  |  4 ++--
> biology/checkm/distinfo  |  6 +++---
> biology/checkm/pkg-descr | 24 +++++++++++++-----------
> 3 files changed, 18 insertions(+), 16 deletions(-)
>
>diff --git a/biology/checkm/Makefile b/biology/checkm/Makefile
>index 811a6de08dfb..51d7d1b13bcd 100644
>--- a/biology/checkm/Makefile
>+++ b/biology/checkm/Makefile
>@@ -1,6 +1,6 @@
> PORTNAME=	CheckM
> DISTVERSIONPREFIX=	v
>-DISTVERSION=	1.2.2
>+DISTVERSION=	1.2.3
> CATEGORIES=	biology python
> 
> MAINTAINER=	yuri@FreeBSD.org
>@@ -19,7 +19,7 @@ RUN_DEPENDS=	${PYNUMPY} \
> USES=		dos2unix python
> USE_GITHUB=	yes
> GH_ACCOUNT=	Ecogenomics
>-USE_PYTHON=	distutils noflavors autoplist
>+USE_PYTHON=	autoplist distutils noflavors
> 
> NO_ARCH=	yes
> 
>diff --git a/biology/checkm/distinfo b/biology/checkm/distinfo
>index 733036b89632..c1da8633ab00 100644
>--- a/biology/checkm/distinfo
>+++ b/biology/checkm/distinfo
>@@ -1,3 +1,3 @@
>-TIMESTAMP = 1713784123
>-SHA256 (Ecogenomics-CheckM-v1.2.2_GH0.tar.gz) = a748b94e93f8d5fecfd0d5b3f17fcb119b25d4b45217e047b2fd742b21e74c0e
>-SIZE (Ecogenomics-CheckM-v1.2.2_GH0.tar.gz) = 1017249
>+TIMESTAMP = 1730733018
>+SHA256 (Ecogenomics-CheckM-v1.2.3_GH0.tar.gz) = 5f8340e71d3256ba8cf407d27bdc7914d1aa86b14b2d63d1e32cceb325e5aa82
>+SIZE (Ecogenomics-CheckM-v1.2.3_GH0.tar.gz) = 1017616
>diff --git a/biology/checkm/pkg-descr b/biology/checkm/pkg-descr
>index 109aed5efe23..4238256d225a 100644
>--- a/biology/checkm/pkg-descr
>+++ b/biology/checkm/pkg-descr
>@@ -1,11 +1,13 @@
>-CheckM provides a set of tools for assessing the quality of genomes
>-recovered from isolates, single cells, or metagenomes.
>-It provides robust estimates of genome completeness and contamination
>-by using collocated sets of genes that are ubiquitous and single-copy
>-within a phylogenetic lineage.
>-Assessment of genome quality can also be examined using plots depicting
>-key genomic characteristics (e.g., GC, coding density) which highlight
>-sequences outside the expected distributions of a typical genome.
>-CheckM also provides tools for identifying genome bins that are likely
>-candidates for merging based on marker set compatibility, similarity in
>-genomic characteristics, and proximity within a reference genome tree.
>+CheckM provides a set of tools for assessing the quality of genomes recovered
>+from isolates, single cells, or metagenomes.
>+
>+It provides robust estimates of genome completeness and contamination by using
>+collocated sets of genes that are ubiquitous and single-copy within a
>+phylogenetic lineage.
>+
>+Assessment of genome quality can also be examined using plots depicting key
>+genomic characteristics (e.g., GC, coding density) which highlight sequences
>+outside the expected distributions of a typical genome. CheckM also provides
>+tools for identifying genome bins that are likely candidates for merging based
>+on marker set compatibility, similarity in genomic characteristics, and
>+proximity within a reference genome tree.
>-- 
>2.47.0
>

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alster: maintainer-approval? (yuri)

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