From nobody Fri Feb 24 23:31:47 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 4PNmPc08DQz3v4lG; Fri, 24 Feb 2023 23:31:48 +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 4PNmPb6kpxz4Jrb; Fri, 24 Feb 2023 23:31:47 +0000 (UTC) (envelope-from git@FreeBSD.org) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1677281507; 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=OF78izotwOxynz+8XyS+Gdfxgw1E7gBP4vsz0RqdKXA=; b=I2RquCLI92w7YiSmvXXBWDVlr8TFc3wqZ6Pl73ZuN6jJZqibtZnVV8W0jqlfhzaUQnrkX5 5Ob9JaKOswIODXmBPU8Ypc0PO7FClJRr6I6ENpmJLM3COT4vHXvxGRKwwt7up7ZrgvWcyG 2ZuKD4eaB7uDOHMzwDZ2wIrdmfkNo+r4MhQMHd5QQKFpHXLMmABhnQO9kF8tqM8RSQE6hv mNMWJlimdttRNKv2i77kErhcwdJMxagIfpe570K60qXf/C7GN/y9ijY+/xbgDph/XGeUdk gNTwvBRjdGDq43gIVZVLJEDND7LdFM9eOabwGRazUAW+qa1tEtdEDL06BVFUKw== ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1677281507; 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=OF78izotwOxynz+8XyS+Gdfxgw1E7gBP4vsz0RqdKXA=; b=pumcxUTnYAvsHwbDUre8rPipQ2empFR8GlADWIa7tt9oZHFQaNNrrgCgEgdP0t+be7sztK aCHEcLwa8EaqfShY0OTfPja5yRhs4cD3uVaeHHiB4LRP2p0P4Dnfynh46scasoNKiQDbJI QdXx1YbmrdTRYm06MWPv7ba60OaRI4PKRlW4d0O9rHXasPMKU4CxfEjgMkdt3KN3+wATGx Uyh4F/ZVLl3IvP/iOeP28xBNl5KEx6aXwohclRHC2zIRpqZ7XwetLO5bOe+m4+dpqcWwuU cUE943Q6GdddbQ9MlUmoHPntumalgx3xOmhvXsGFz4BAY4jcsnNe0pIvnLdwQg== ARC-Authentication-Results: i=1; mx1.freebsd.org; none ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1677281507; a=rsa-sha256; cv=none; b=PGBcwY+9iixi+HDU1VIjU3AQNHniqhAk+R5RVosRRK+4FWzuUAbLv/728Oq/YhobrbmHb5 JnmfzYPIQDYMnXC7oD4AHzAnhS5iv+5m5sjt4iHAr4hQ9CrMNwrJn1Rf+wnStz1zLcDt7v yOgqhG9Tzneti8aueVrsrc04GsdyeoKaOya6KheFzjAlBNR+RpuhoO+Hvl1vlcyInAEqzJ 724gjMlU/jYPx5sWD+HLwPL0gFznCvbhpq4Uv7BXq0s+8YuSy/inGXKM7EzqrmPhneM+Ds 1s87k+9ypk9NXMU93gJoFe+43kTA4Fs5VZKayI2IPuC1CxW/u9vtSyDew/xv/A== 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 4PNmPb5PLNzhh9; Fri, 24 Feb 2023 23:31:47 +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 31ONVl3L059439; Fri, 24 Feb 2023 23:31:47 GMT (envelope-from git@gitrepo.freebsd.org) Received: (from git@localhost) by gitrepo.freebsd.org (8.16.1/8.16.1/Submit) id 31ONVlF3059438; Fri, 24 Feb 2023 23:31:47 GMT (envelope-from git) Date: Fri, 24 Feb 2023 23:31:47 GMT Message-Id: <202302242331.31ONVlF3059438@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: 1993bfc7cf7d - main - biology/samtools: Update to 1.17 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: 1993bfc7cf7d933c1a8cc11bf2198ce8691a0d76 Auto-Submitted: auto-generated X-ThisMailContainsUnwantedMimeParts: N The branch main has been updated by jwb: URL: https://cgit.FreeBSD.org/ports/commit/?id=1993bfc7cf7d933c1a8cc11bf2198ce8691a0d76 commit 1993bfc7cf7d933c1a8cc11bf2198ce8691a0d76 Author: Jason W. Bacon AuthorDate: 2023-02-24 23:27:21 +0000 Commit: Jason W. Bacon CommitDate: 2023-02-24 23:27:21 +0000 biology/samtools: Update to 1.17 Numerous enhancements and bug fixes Changes: https://github.com/samtools/samtools/releases Reported by: portscout --- biology/samtools/Makefile | 2 +- biology/samtools/distinfo | 6 +++--- biology/samtools/pkg-plist | 2 ++ 3 files changed, 6 insertions(+), 4 deletions(-) diff --git a/biology/samtools/Makefile b/biology/samtools/Makefile index 64b06bff07e8..92da7c61eff7 100644 --- a/biology/samtools/Makefile +++ b/biology/samtools/Makefile @@ -1,5 +1,5 @@ PORTNAME= samtools -DISTVERSION= 1.16.1 +DISTVERSION= 1.17 CATEGORIES= biology MAINTAINER= jwb@FreeBSD.org diff --git a/biology/samtools/distinfo b/biology/samtools/distinfo index d0c7b4cbb765..55c01a4de639 100644 --- a/biology/samtools/distinfo +++ b/biology/samtools/distinfo @@ -1,3 +1,3 @@ -TIMESTAMP = 1672094602 -SHA256 (samtools-samtools-1.16.1_GH0.tar.gz) = 70a7f358088929272d8c22d6063290ac8420f5351fba237a99fe17851a45d8be -SIZE (samtools-samtools-1.16.1_GH0.tar.gz) = 4992787 +TIMESTAMP = 1677245969 +SHA256 (samtools-samtools-1.17_GH0.tar.gz) = f76ec1880468ecaa5341a7256ae896f2cfb191193dbb683046776fb81e18af49 +SIZE (samtools-samtools-1.17_GH0.tar.gz) = 5459752 diff --git a/biology/samtools/pkg-plist b/biology/samtools/pkg-plist index 1d228254f042..15e146e410cd 100644 --- a/biology/samtools/pkg-plist +++ b/biology/samtools/pkg-plist @@ -29,6 +29,7 @@ man/man1/samtools-cat.1.gz man/man1/samtools-collate.1.gz man/man1/samtools-consensus.1.gz man/man1/samtools-coverage.1.gz +man/man1/samtools-cram-size.1.gz man/man1/samtools-depad.1.gz man/man1/samtools-depth.1.gz man/man1/samtools-dict.1.gz @@ -50,6 +51,7 @@ man/man1/samtools-phase.1.gz man/man1/samtools-quickcheck.1.gz man/man1/samtools-reference.1.gz man/man1/samtools-reheader.1.gz +man/man1/samtools-reset.1.gz man/man1/samtools-rmdup.1.gz man/man1/samtools-samples.1.gz man/man1/samtools-sort.1.gz