Received: by mail.netbsd.org (Postfix, from userid 605) id C8F5084D47; Wed, 10 Jan 2024 16:10:18 +0000 (UTC) Received: from localhost (localhost [127.0.0.1]) by mail.netbsd.org (Postfix) with ESMTP id 05EDF84D1B for ; Wed, 10 Jan 2024 16:10:18 +0000 (UTC) X-Virus-Scanned: amavisd-new at netbsd.org Received: from mail.netbsd.org ([127.0.0.1]) by localhost (mail.netbsd.org [127.0.0.1]) (amavisd-new, port 10025) with ESMTP id 0sWV0QJLco-h for ; Wed, 10 Jan 2024 16:10:17 +0000 (UTC) Received: from cvs.NetBSD.org (ivanova.netbsd.org [199.233.217.197]) by mail.netbsd.org (Postfix) with ESMTP id 73D1384CD7 for ; Wed, 10 Jan 2024 16:10:17 +0000 (UTC) Received: by cvs.NetBSD.org (Postfix, from userid 500) id 6ACBDFA42; Wed, 10 Jan 2024 16:10:17 +0000 (UTC) Content-Transfer-Encoding: 7bit Content-Type: multipart/mixed; boundary="_----------=_1704903017204230" MIME-Version: 1.0 Date: Wed, 10 Jan 2024 16:10:17 +0000 From: "Jason Bacon" Subject: CVS commit: pkgsrc/biology/atac-seq To: pkgsrc-changes@NetBSD.org Reply-To: bacon@netbsd.org X-Mailer: log_accum Message-Id: <20240110161017.6ACBDFA42@cvs.NetBSD.org> Sender: pkgsrc-changes-owner@NetBSD.org List-Id: Precedence: bulk List-Unsubscribe: This is a multi-part message in MIME format. --_----------=_1704903017204230 Content-Disposition: inline Content-Transfer-Encoding: 8bit Content-Type: text/plain; charset="US-ASCII" Module Name: pkgsrc Committed By: bacon Date: Wed Jan 10 16:10:17 UTC 2024 Modified Files: pkgsrc/biology/atac-seq: DESCR Makefile Log Message: biology/atac-seq: Update to 1.4 Add biology/py-macs3 dep to metapackage To generate a diff of this commit: cvs rdiff -u -r1.1 -r1.2 pkgsrc/biology/atac-seq/DESCR cvs rdiff -u -r1.8 -r1.9 pkgsrc/biology/atac-seq/Makefile Please note that diffs are not public domain; they are subject to the copyright notices on the relevant files. --_----------=_1704903017204230 Content-Disposition: inline Content-Length: 1963 Content-Transfer-Encoding: binary Content-Type: text/x-diff; charset=us-ascii Modified files: Index: pkgsrc/biology/atac-seq/DESCR diff -u pkgsrc/biology/atac-seq/DESCR:1.1 pkgsrc/biology/atac-seq/DESCR:1.2 --- pkgsrc/biology/atac-seq/DESCR:1.1 Mon Jan 23 21:38:50 2023 +++ pkgsrc/biology/atac-seq/DESCR Wed Jan 10 16:10:17 2024 @@ -1,5 +1,6 @@ -The atac-seq meta-package provides the core tools needed for performing -a typical ATAC-Seq differential accessibility analysis, including -adapter trimming, quality control, alignment, peak calling, and -identification of differentially accessible peaks. Researchers may -want additional tools for data manipulation, gene ontology, etc. +The atac-seq meta-package provides the core tools needed for +performing a typical ATAC-Seq differential accessibility analysis, +including adapter trimming, quality control, alignment, peak calling, +and identification of differentially accessible peaks. Researchers +may want additional tools for data manipulation, gene ontology, +etc. Index: pkgsrc/biology/atac-seq/Makefile diff -u pkgsrc/biology/atac-seq/Makefile:1.8 pkgsrc/biology/atac-seq/Makefile:1.9 --- pkgsrc/biology/atac-seq/Makefile:1.8 Sat Dec 23 16:23:22 2023 +++ pkgsrc/biology/atac-seq/Makefile Wed Jan 10 16:10:17 2024 @@ -1,9 +1,9 @@ -# $NetBSD: Makefile,v 1.8 2023/12/23 16:23:22 bacon Exp $ +# $NetBSD: Makefile,v 1.9 2024/01/10 16:10:17 bacon Exp $ # # Update minor version when adding or removing dependencies # Update revision for all other changes -DISTNAME= atac-seq-1.3 +DISTNAME= atac-seq-1.4 CATEGORIES= biology meta-pkgs MASTER_SITES= # empty @@ -20,6 +20,7 @@ DEPENDS+= bowtie2>0:../../biology/bowtie DEPENDS+= samtools>0:../../biology/samtools DEPENDS+= igv>0:../../biology/igv DEPENDS+= ${PYPKGPREFIX}-macs2>0:../../biology/py-macs2 +DEPENDS+= ${PYPKGPREFIX}-macs3>0:../../biology/py-macs3 DEPENDS+= fasda>0:../../biology/fasda DEPENDS+= peak-classifier>0:../../biology/peak-classifier DEPENDS+= ${PYPKGPREFIX}-multiqc-[0-9]*:../../biology/py-multiqc --_----------=_1704903017204230--