From nobody Thu Jan 12 19:00:04 2023 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 4NtDPw73QGz2pPkk; Thu, 12 Jan 2023 19:00:04 +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 4NtDPw6ZNxz4JWy; Thu, 12 Jan 2023 19:00:04 +0000 (UTC) (envelope-from git@FreeBSD.org) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1673550004; 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=9SccR4SH4G/+cL9Y7Sztl2aWJjpaiLVR9LLNpkE6tlA=; b=BCk4w0WWtYQXACO979g11hTCll1FpPC4Y385+UbfqcLOPBXyU1mOk4WrzXJOb1Q0l7mJKQ V/JkdMF8GRMvjXXdd2/Un+yfKVruCn8XO/2MsOy53fuawROuSDuhcPVVPBGHPfvlK7K3St aGKQy1Q3KToFoUa9+dD0M6TPfrnYzZSUHLI1Ddg7dEBO/F1X6fQHEzkq9KzS0CMd5R9uYB a2VBms0P/lug+rdcr+put16oOVYrYhLTWa4sylZPoMV8GgaNgig61+py7F1dMeARae1MRk yOkQ/DVrSR048ZXKSj1/u1EpzoUAgSqLsmKyRUuCxbVMKDcLflfFg8i11vZLaQ== ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1673550004; 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=9SccR4SH4G/+cL9Y7Sztl2aWJjpaiLVR9LLNpkE6tlA=; b=P/OmyrPRJ8Mdz0onMtglrIyqc6E2EpQBq5rG+v/0LPEd+Z818uCyQStlShqG/+GqtPBk9P BhVYil9S9U9GOkeu/T7UCjni6+UDbQQD221BWwqUF+VMv5xWjajwu0ZRKtdkDFFOhDMqNW AXv3qg39njdrdVi4bHm3ns0+KQXM1f5pv16ya2s2N5yJKG2psEUCws3+iubEkFBTjWM7rN 6AKSU076nLO04XNrb9R1/f8R/rM0uAfpq1p8TZVaiIGB5TbePDdFGF7od9wIOWHhGW3487 +Ua9yhnixNhYJYyLZlEirCrNdWisqchHXLvnoOotJYJDUx6X/T5e3H/joCWaLg== ARC-Authentication-Results: i=1; mx1.freebsd.org; none ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1673550004; a=rsa-sha256; cv=none; b=ZVgApYbK5/GqVUQ/1uNF53kVsUM7GnakguEj5x+iQ88ZTaY6of36p1eC9IaU9k6btSlSnK ezzpzv1S2rGYlNeyZ/tOdP+wzNF9DHEavuDU2FTxWSO6bQK3SvM2iF9oRdapga2rbUtvkh P27KsUSziaeEu3h99iC9aj39+rOP9dMpr84LWobE8NJcc0reBPGxZLYx1vb5hAc4nT3RKf WmhN1epMm3NB0mY/4NlmcW58x4ypZCrtMl9apQkrD7w/GqFFWKASkQThEaFuoA68rtMjkM cu5ntOmwq5wDRtXXDDg33lcOOPjrLaweW9tsFbo2h+eGBYBsVZIRQHl585s1Dw== 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 4NtDPw5g2TzfLP; Thu, 12 Jan 2023 19:00:04 +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 30CJ04CH067513; Thu, 12 Jan 2023 19:00:04 GMT (envelope-from git@gitrepo.freebsd.org) Received: (from git@localhost) by gitrepo.freebsd.org (8.16.1/8.16.1/Submit) id 30CJ045t067511; Thu, 12 Jan 2023 19:00:04 GMT (envelope-from git) Date: Thu, 12 Jan 2023 19:00:04 GMT Message-Id: <202301121900.30CJ045t067511@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: ff57c60617fb - main - biology/atac-seq: Update to 0.1.1 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: ff57c60617fbb592629afa7684fb9ee1562d8344 Auto-Submitted: auto-generated X-ThisMailContainsUnwantedMimeParts: N The branch main has been updated by jwb: URL: https://cgit.FreeBSD.org/ports/commit/?id=ff57c60617fbb592629afa7684fb9ee1562d8344 commit ff57c60617fbb592629afa7684fb9ee1562d8344 Author: Jason W. Bacon AuthorDate: 2023-01-12 18:58:57 +0000 Commit: Jason W. Bacon CommitDate: 2023-01-12 19:00:03 +0000 biology/atac-seq: Update to 0.1.1 Fix dependency: bowtie -> bowtie2 Add www/webbrowser for portable FastQC report viewing --- biology/atac-seq/Makefile | 7 ++++--- biology/atac-seq/distinfo | 2 +- 2 files changed, 5 insertions(+), 4 deletions(-) diff --git a/biology/atac-seq/Makefile b/biology/atac-seq/Makefile index 6cc3e69e2535..a0da032ee1b0 100644 --- a/biology/atac-seq/Makefile +++ b/biology/atac-seq/Makefile @@ -1,5 +1,5 @@ PORTNAME= atac-seq -DISTVERSION= 0.1.0 +DISTVERSION= 0.1.1 CATEGORIES= biology python MASTER_SITES= # empty @@ -15,12 +15,13 @@ RUN_DEPENDS= sra-tools>0:biology/sra-tools \ ${PYTHON_PKGNAMEPREFIX}multiqc>0:biology/py-multiqc@${PY_FLAVOR} \ biolibc-tools>0:biology/biolibc-tools \ bwa>0:biology/bwa \ - bowtie2>0:biology/bowtie \ + bowtie2>0:biology/bowtie2 \ samtools>0:biology/samtools \ igv>0:biology/igv \ ${PYTHON_PKGNAMEPREFIX}macs2>0:biology/py-macs2@${PY_FLAVOR} \ fasda>0:biology/fasda \ - peak-classifier>0:biology/peak-classifier + peak-classifier>0:biology/peak-classifier \ + webbrowser>0:www/webbrowser USES= metaport python diff --git a/biology/atac-seq/distinfo b/biology/atac-seq/distinfo index 8bf439ee9d9b..79cf14b6de7f 100644 --- a/biology/atac-seq/distinfo +++ b/biology/atac-seq/distinfo @@ -1 +1 @@ -TIMESTAMP = 1673480732 +TIMESTAMP = 1673549889