From nobody Sat Jun 11 14:27:01 2022 X-Original-To: dev-commits-ports-all@mlmmj.nyi.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2610:1c1:1:606c::19:1]) by mlmmj.nyi.freebsd.org (Postfix) with ESMTP id ABF758408F8; Sat, 11 Jun 2022 14:27:02 +0000 (UTC) (envelope-from git@FreeBSD.org) Received: from mxrelay.nyi.freebsd.org (mxrelay.nyi.freebsd.org [IPv6:2610:1c1:1:606c::19:3]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits) server-digest SHA256 client-signature RSA-PSS (4096 bits) client-digest SHA256) (Client CN "mxrelay.nyi.freebsd.org", Issuer "R3" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 4LL0X62DBCz4v2F; Sat, 11 Jun 2022 14:27:02 +0000 (UTC) (envelope-from git@FreeBSD.org) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1654957622; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:mime-version:mime-version:content-type:content-type: content-transfer-encoding:content-transfer-encoding; bh=3CqkaLYzP3H0Ir1HBH0LZfSYmgGdcQLvY9Y2fdD5Hl4=; b=S3k4QDqtyPoQ+Wdy2MUFbP14rpfvdh7gKO2UPp3culiY3DwmSQGFPgafzhlH4Iu/rlSnXk VjJ4nnWld30nqYs8A0qtzPGccg9B8WmNm05JpmnBv8ce46/PRTXYj3LQhWs4J48epm7IG5 awjMHy67ACnRQSc0wcqtiiTQoIljH6qNAEUSyKhAKiG9rKFeyWFBEij68WSxcqGoyKpAuC goflpxfRiZJxNCoPXoeom8jw5DUj/Cn0/myxFn6HgrOl+24FakI7SzA9Vb0MzEF/qDN/eu pDmguEzNbCjLLeqQMW++Bbf8lmqIXxkRwQFrAt1k97XgSjMHEeqymU40BGIgUw== Received: from gitrepo.freebsd.org (gitrepo.freebsd.org [IPv6:2610:1c1:1:6068::e6a:5]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits) server-digest SHA256) (Client did not present a certificate) by mxrelay.nyi.freebsd.org (Postfix) with ESMTPS id 1BFD3682D; Sat, 11 Jun 2022 14:27:02 +0000 (UTC) (envelope-from git@FreeBSD.org) Received: from gitrepo.freebsd.org ([127.0.1.44]) by gitrepo.freebsd.org (8.16.1/8.16.1) with ESMTP id 25BER2B9023571; Sat, 11 Jun 2022 14:27:02 GMT (envelope-from git@gitrepo.freebsd.org) Received: (from git@localhost) by gitrepo.freebsd.org (8.16.1/8.16.1/Submit) id 25BER1bj023570; Sat, 11 Jun 2022 14:27:01 GMT (envelope-from git) Date: Sat, 11 Jun 2022 14:27:01 GMT Message-Id: <202206111427.25BER1bj023570@gitrepo.freebsd.org> To: ports-committers@FreeBSD.org, dev-commits-ports-all@FreeBSD.org, dev-commits-ports-main@FreeBSD.org From: "Jason W. Bacon" Subject: git: f869d6b41205 - main - biology/biolibc-tools: Update to 0.1.3 List-Id: Commit messages for all branches of the ports repository List-Archive: https://lists.freebsd.org/archives/dev-commits-ports-all List-Help: List-Post: List-Subscribe: List-Unsubscribe: Sender: owner-dev-commits-ports-all@freebsd.org X-BeenThere: dev-commits-ports-all@freebsd.org MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: 8bit X-Git-Committer: jwb X-Git-Repository: ports X-Git-Refname: refs/heads/main X-Git-Reftype: branch X-Git-Commit: f869d6b4120504eac85add6520b1b74e6144ac5d Auto-Submitted: auto-generated ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1654957622; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:mime-version:mime-version:content-type:content-type: content-transfer-encoding:content-transfer-encoding; bh=3CqkaLYzP3H0Ir1HBH0LZfSYmgGdcQLvY9Y2fdD5Hl4=; b=JxrQbX5UxHsG4jb6qwntXTiAjaG0F8GudB8cOvfBIvUqi+28lbRuh26SsT4/mFwqyz4Kjw QSVGu2ivhdJz+ZDFYunQXQQN1HGVVn/gs5fglm64bHru3Qw+1tAjDmA2MPPyH9QXO1bphw S76hwmaelpGj04nTvQA636nm/AAZ5gxOJP0USNA1+euab7IkGI4bFsg872Iqm895BOroZI YxDHJbrCVmh0PAIBCP0fFJHPZW/Z4vg/d053ThVKkYZBEd02MuhWDNhTJVr6xmjla7xd6E Zt7OXw9lAQkeiR6io9+Eg+CY0ecwT2uV9UFiBTBtP0Sv6jKQtrS2gm51M9I9Gw== ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1654957622; a=rsa-sha256; cv=none; b=ViF0cAmrceHEZroTKhWcMvRbty5a9Ov3bQFTcRls0NJc1gvZrB9mIPG5hZ8vYqTIuf7JLJ F3Z1FB14faNWeRwe7yDhljzmtCrllNsZ6XmSIShMa4I2hbkyZYjzDdT5wVzu1tO0iEj3fw T9rW6TG9BVV7rYYtx+LQ+yMzSZHJ/qzWORSVRM8GT0pcmd+QiRwQeKmPeAAlCLI7g6UZ5Z b45nZcA0cUh83FwV+RvqSQQZlU1h0tdqqXUAY/ij5RTP8OG+Iq5fHk/zpfQEXfzqvCo8wE kn8KjNwpl9oYueKXpZZV7I5g6cMutFBDa8irBeVRJN6io71VC6PEdXAqCG6Paw== ARC-Authentication-Results: i=1; mx1.freebsd.org; none X-ThisMailContainsUnwantedMimeParts: N The branch main has been updated by jwb: URL: https://cgit.FreeBSD.org/ports/commit/?id=f869d6b4120504eac85add6520b1b74e6144ac5d commit f869d6b4120504eac85add6520b1b74e6144ac5d Author: Jason W. Bacon AuthorDate: 2022-06-11 14:09:12 +0000 Commit: Jason W. Bacon CommitDate: 2022-06-11 14:26:56 +0000 biology/biolibc-tools: Update to 0.1.3 Add vcf-downsample subcommand Improvements to build system extract-seq: Recurse to output subfeatures Numerous other minor enhancements and fixes Changes: https://github.com/auerlab/biolibc-tools/tags --- biology/biolibc-tools/Makefile | 2 +- biology/biolibc-tools/distinfo | 6 +++--- biology/biolibc-tools/pkg-plist | 2 ++ 3 files changed, 6 insertions(+), 4 deletions(-) diff --git a/biology/biolibc-tools/Makefile b/biology/biolibc-tools/Makefile index 7cf0341514eb..739f81d62fa7 100644 --- a/biology/biolibc-tools/Makefile +++ b/biology/biolibc-tools/Makefile @@ -1,7 +1,7 @@ # Created by: J. Bacon PORTNAME= biolibc-tools -DISTVERSION= 0.1.2 +DISTVERSION= 0.1.3 CATEGORIES= biology MAINTAINER= jwb@FreeBSD.org diff --git a/biology/biolibc-tools/distinfo b/biology/biolibc-tools/distinfo index e513f059cd26..c74c87b2dc3e 100644 --- a/biology/biolibc-tools/distinfo +++ b/biology/biolibc-tools/distinfo @@ -1,3 +1,3 @@ -TIMESTAMP = 1647347831 -SHA256 (auerlab-biolibc-tools-0.1.2_GH0.tar.gz) = 817b3f88b1d83a28389dbbb43ef1e0d2c1fb3b7e72ca7151fa26a35058ef4558 -SIZE (auerlab-biolibc-tools-0.1.2_GH0.tar.gz) = 24610 +TIMESTAMP = 1654951264 +SHA256 (auerlab-biolibc-tools-0.1.3_GH0.tar.gz) = 0d5d983ea84e2aa8b23a4954b06f0f7b2eee033b570bf593d75a1196989b985e +SIZE (auerlab-biolibc-tools-0.1.3_GH0.tar.gz) = 27735 diff --git a/biology/biolibc-tools/pkg-plist b/biology/biolibc-tools/pkg-plist index b82ed3ef61dc..f936b1acd1cf 100644 --- a/biology/biolibc-tools/pkg-plist +++ b/biology/biolibc-tools/pkg-plist @@ -10,6 +10,7 @@ libexec/biolibc-tools/fastx2tsv libexec/biolibc-tools/find-orfs libexec/biolibc-tools/gff2bed libexec/biolibc-tools/uniq-seqs.awk +libexec/biolibc-tools/vcf-downsample libexec/biolibc-tools/vcf-search man/man1/blt-chrom-lens.1.gz man/man1/blt-ensemblid2gene.1.gz @@ -21,5 +22,6 @@ man/man1/blt-fastx-stats.1.gz man/man1/blt-fastx2tsv.1.gz man/man1/blt-find-orfs.1.gz man/man1/blt-gff2bed.1.gz +man/man1/blt-vcf-downsample.1.gz man/man1/blt-vcf-search.1.gz man/man1/blt.1.gz