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Sun, 15 Dec 2024 06:50:50 GMT (envelope-from git) Date: Sun, 15 Dec 2024 06:50:50 GMT Message-Id: <202412150650.4BF6ootw085559@gitrepo.freebsd.org> To: ports-committers@FreeBSD.org, dev-commits-ports-all@FreeBSD.org, dev-commits-ports-main@FreeBSD.org From: Yuri Victorovich Subject: git: 14109e26bb5e - main - biology/checkm: update 1.2.2 =?utf-8?Q?=E2=86=92?= 1.2.3 List-Id: Commits to the main branch of the FreeBSD ports repository List-Archive: https://lists.freebsd.org/archives/dev-commits-ports-main List-Help: List-Post: List-Subscribe: List-Unsubscribe: X-BeenThere: dev-commits-ports-main@freebsd.org Sender: owner-dev-commits-ports-main@FreeBSD.org MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: 8bit X-Git-Committer: yuri X-Git-Repository: ports X-Git-Refname: refs/heads/main X-Git-Reftype: branch X-Git-Commit: 14109e26bb5e9616ffb89b5f1ddfb610ba3adaa5 Auto-Submitted: auto-generated The branch main has been updated by yuri: URL: https://cgit.FreeBSD.org/ports/commit/?id=14109e26bb5e9616ffb89b5f1ddfb610ba3adaa5 commit 14109e26bb5e9616ffb89b5f1ddfb610ba3adaa5 Author: Älven AuthorDate: 2024-12-15 06:50:29 +0000 Commit: Yuri Victorovich CommitDate: 2024-12-15 06:50:29 +0000 biology/checkm: update 1.2.2 → 1.2.3 PR: 282551 --- biology/checkm/Makefile | 2 +- biology/checkm/distinfo | 6 +++--- biology/checkm/pkg-descr | 24 +++++++++++++----------- 3 files changed, 17 insertions(+), 15 deletions(-) diff --git a/biology/checkm/Makefile b/biology/checkm/Makefile index 811a6de08dfb..a2c9ed1d195e 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 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.