Received: from localhost (localhost [127.0.0.1]) by mail.netbsd.org (Postfix) with ESMTP id 73F0A85DD6 for ; Sat, 28 Oct 2023 20:37:18 +0000 (UTC) X-Virus-Scanned: amavisd-new at netbsd.org Received: from mail.netbsd.org ([IPv6:::1]) by localhost (mail.netbsd.org [IPv6:::1]) (amavisd-new, port 10025) with ESMTP id sRMVV5Zc-5Jw for ; Sat, 28 Oct 2023 20:37:17 +0000 (UTC) Received: from cvs.NetBSD.org (ivanova.netbsd.org [199.233.217.197]) by mail.netbsd.org (Postfix) with ESMTP id B825684E5D for ; Sat, 28 Oct 2023 20:37:17 +0000 (UTC) Received: by cvs.NetBSD.org (Postfix, from userid 500) id B58C5FADC; Sat, 28 Oct 2023 20:37:17 +0000 (UTC) Content-Transfer-Encoding: 7bit Content-Type: multipart/mixed; boundary="_----------=_1698525437249980" MIME-Version: 1.0 Date: Sat, 28 Oct 2023 20:37:17 +0000 From: "Jason Bacon" Subject: CVS commit: pkgsrc/biology/peak-classifier To: pkgsrc-changes@NetBSD.org Approved: commit_and_comment Reply-To: bacon@netbsd.org X-Mailer: log_accum Message-Id: <20231028203717.B58C5FADC@cvs.NetBSD.org> This is a multi-part message in MIME format. --_----------=_1698525437249980 Content-Disposition: inline Content-Transfer-Encoding: 8bit Content-Type: text/plain; charset="US-ASCII" Module Name: pkgsrc Committed By: bacon Date: Sat Oct 28 20:37:17 UTC 2023 Modified Files: pkgsrc/biology/peak-classifier: DESCR Makefile PLIST distinfo Log Message: biology/peak-classifier: Update to 0.1.4.13 Updates for new libxtend API To generate a diff of this commit: cvs rdiff -u -r1.1 -r1.2 pkgsrc/biology/peak-classifier/DESCR cvs rdiff -u -r1.12 -r1.13 pkgsrc/biology/peak-classifier/Makefile cvs rdiff -u -r1.9 -r1.10 pkgsrc/biology/peak-classifier/PLIST cvs rdiff -u -r1.11 -r1.12 pkgsrc/biology/peak-classifier/distinfo Please note that diffs are not public domain; they are subject to the copyright notices on the relevant files. --_----------=_1698525437249980 Content-Disposition: inline Content-Length: 3535 Content-Transfer-Encoding: binary Content-Type: text/x-diff; charset=us-ascii Modified files: Index: pkgsrc/biology/peak-classifier/DESCR diff -u pkgsrc/biology/peak-classifier/DESCR:1.1 pkgsrc/biology/peak-classifier/DESCR:1.2 --- pkgsrc/biology/peak-classifier/DESCR:1.1 Tue Jun 15 13:54:14 2021 +++ pkgsrc/biology/peak-classifier/DESCR Sat Oct 28 20:37:17 2023 @@ -1,5 +1,6 @@ Classify ChIP/ATAC-Seq peaks based on features provided in a GFF -Peaks are provided in a BED file sorted by chromosome and position. The GFF -must be sorted by chromosome and position, with gene-level features separated -by ### tags and each gene organized into subfeatures such as transcripts and -exons. This is the default for common data sources. +Peaks are provided in a BED file sorted by chromosome and position. +The GFF must be sorted by chromosome and position, with gene-level +features separated by ### tags and each gene organized into +subfeatures such as transcripts and exons. This is the default +for common data sources. Index: pkgsrc/biology/peak-classifier/Makefile diff -u pkgsrc/biology/peak-classifier/Makefile:1.12 pkgsrc/biology/peak-classifier/Makefile:1.13 --- pkgsrc/biology/peak-classifier/Makefile:1.12 Mon Aug 14 05:23:52 2023 +++ pkgsrc/biology/peak-classifier/Makefile Sat Oct 28 20:37:17 2023 @@ -1,10 +1,9 @@ -# $NetBSD: Makefile,v 1.12 2023/08/14 05:23:52 wiz Exp $ +# $NetBSD: Makefile,v 1.13 2023/10/28 20:37:17 bacon Exp $ -DISTNAME= peak-classifier-0.1.4.11 -PKGREVISION= 1 +DISTNAME= peak-classifier-0.1.4.13 CATEGORIES= biology MASTER_SITES= ${MASTER_SITE_GITHUB:=auerlab/} -GITHUB_TAG= 394f61cb00eadcd07b0d7d2df4631502c0aa46d4 +GITHUB_TAG= fb89af3b2e976c2ccb42d861324aa40591f5cadb OWNER= bacon@NetBSD.org HOMEPAGE= https://github.com/auerlab/peak-classifier Index: pkgsrc/biology/peak-classifier/PLIST diff -u pkgsrc/biology/peak-classifier/PLIST:1.9 pkgsrc/biology/peak-classifier/PLIST:1.10 --- pkgsrc/biology/peak-classifier/PLIST:1.9 Sat Aug 12 14:52:46 2023 +++ pkgsrc/biology/peak-classifier/PLIST Sat Oct 28 20:37:17 2023 @@ -1,4 +1,4 @@ -@comment $NetBSD: PLIST,v 1.9 2023/08/12 14:52:46 bacon Exp $ +@comment $NetBSD: PLIST,v 1.10 2023/10/28 20:37:17 bacon Exp $ bin/extract-genes bin/feature-view bin/filter-overlaps Index: pkgsrc/biology/peak-classifier/distinfo diff -u pkgsrc/biology/peak-classifier/distinfo:1.11 pkgsrc/biology/peak-classifier/distinfo:1.12 --- pkgsrc/biology/peak-classifier/distinfo:1.11 Sat Aug 12 14:52:46 2023 +++ pkgsrc/biology/peak-classifier/distinfo Sat Oct 28 20:37:17 2023 @@ -1,5 +1,5 @@ -$NetBSD: distinfo,v 1.11 2023/08/12 14:52:46 bacon Exp $ +$NetBSD: distinfo,v 1.12 2023/10/28 20:37:17 bacon Exp $ -BLAKE2s (peak-classifier-0.1.4.11-394f61cb00eadcd07b0d7d2df4631502c0aa46d4.tar.gz) = 4e78ebc54cf7c3e5c940ce9dfa1ee5ebcf124ef4bda52f0173ff93fa1e13c851 -SHA512 (peak-classifier-0.1.4.11-394f61cb00eadcd07b0d7d2df4631502c0aa46d4.tar.gz) = 94f6cc97d40b251f006aba1bbc0262051b9070ea7fd13284156a508f544e1e46f38e35c66502e3478d67de47c547478d11c22a36090237dcbea21621d11e2200 -Size (peak-classifier-0.1.4.11-394f61cb00eadcd07b0d7d2df4631502c0aa46d4.tar.gz) = 87358 bytes +BLAKE2s (peak-classifier-0.1.4.13-fb89af3b2e976c2ccb42d861324aa40591f5cadb.tar.gz) = 6f7f1bd00518dc39ecfa8fa0ab0c34436174c1366bec6e15708e255627c0dede +SHA512 (peak-classifier-0.1.4.13-fb89af3b2e976c2ccb42d861324aa40591f5cadb.tar.gz) = 9463b291b402613bed6a1bf4bda7d0a5508c95093eb48a5c336e42161745f66684ee86d7486f9f55505ef99faf48c1de567396e7f1e8869a587d3a96770f12d7 +Size (peak-classifier-0.1.4.13-fb89af3b2e976c2ccb42d861324aa40591f5cadb.tar.gz) = 87434 bytes --_----------=_1698525437249980--