From nobody Sat Nov 27 13:28:25 2021 X-Original-To: dev-commits-ports-main@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 4D4CE18B216D; Sat, 27 Nov 2021 13:28:26 +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 4J1XVy0Lkqz3N0k; Sat, 27 Nov 2021 13:28:26 +0000 (UTC) (envelope-from git@FreeBSD.org) 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 DFFE51CB1D; Sat, 27 Nov 2021 13:28:25 +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 1ARDSPCv043472; Sat, 27 Nov 2021 13:28:25 GMT (envelope-from git@gitrepo.freebsd.org) Received: (from git@localhost) by gitrepo.freebsd.org (8.16.1/8.16.1/Submit) id 1ARDSPDI043471; Sat, 27 Nov 2021 13:28:25 GMT (envelope-from git) Date: Sat, 27 Nov 2021 13:28:25 GMT Message-Id: <202111271328.1ARDSPDI043471@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: 5ed416aa0967 - main - biology/hisat2: Remove patch causing quality scores of "-0" List-Id: Commits to the main branch of the FreeBSD ports repository List-Archive: https://lists.freebsd.org/archives/dev-commits-ports-main List-Help: List-Post: List-Subscribe: List-Unsubscribe: Sender: owner-dev-commits-ports-main@freebsd.org X-BeenThere: dev-commits-ports-main@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: 5ed416aa0967ac4cf5153f9f7cae4b9f14c56966 Auto-Submitted: auto-generated ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1638019706; 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=2H4K0fE3QTCSsM7QpdiYmBf93g6JfHG8qHc0zYIu8+A=; b=grj9KeNiWl3fRRppzLRRuzg66rhKinkI89VpYucnWbbzBnXX46RxkSTG2c2RL2isXdOBeT SGM1QZwjWkB7mrSVEnTKQL5XWcV0irhbNFvHXwEXZaZhrFFrrh52y0CEmv+mKsaIhWZxqQ UDaS8QDrVhHfBT+dxKfisAZxAE3vXvyROGvdyB2idhgbpUEr1TfFDYviHV6Q1viI+u3d+d 9XmnrMkXT29js3wDO+ZCse4uR/1h26ov4di98ftCBLTqpYIar8SAllcmNzmtyP7ePaznsJ ffrXbiDkI4jV3Gvu2G9mOSpVsJZxnOSpUAd3zZpHg16uANh/A+kjNVWiiLYvkA== ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1638019706; a=rsa-sha256; cv=none; b=TrWXnJMcOAMVGcsbuJM2ETEehMP68cAswX3S+srA+0yG1mSyLK7vKEKNwvyScule594D/D ahieVkRRvNPQz44LZ9nazoN0OjYEsUDHG00RQPwQ0ukpQPkFVDkMFmoM81V0L6Uu2O4D/o e5niyrZ1bxhD8CWTSo5285570VFRMsADKyYEfEvp9To3XVOYIu0T/5q5UgK4efSaR25iJH JFudBPcu4zzHvih6HLMPo5lCrLeUyUTVTCsGsrzpd4SKxgsFJpgc6iRcLdd7zfinbem7eJ yS+vkghk6QvQKeErQ1PfgqboTU+mP3GDXZ3vM45A8rU3fJcRE5EMEMnUHhjm5Q== 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=5ed416aa0967ac4cf5153f9f7cae4b9f14c56966 commit 5ed416aa0967ac4cf5153f9f7cae4b9f14c56966 Author: Jason W. Bacon AuthorDate: 2021-11-27 13:26:45 +0000 Commit: Jason W. Bacon CommitDate: 2021-11-27 13:26:45 +0000 biology/hisat2: Remove patch causing quality scores of "-0" --- biology/hisat2/Makefile | 1 + biology/hisat2/files/patch-util.h | 11 ----------- 2 files changed, 1 insertion(+), 11 deletions(-) diff --git a/biology/hisat2/Makefile b/biology/hisat2/Makefile index ae0ad38fbe7d..33d56578fcf8 100644 --- a/biology/hisat2/Makefile +++ b/biology/hisat2/Makefile @@ -1,6 +1,7 @@ PORTNAME= hisat2 DISTVERSIONPREFIX= v DISTVERSION= 2.2.1 +PORTREVISION= 1 CATEGORIES= biology perl5 python MAINTAINER= jwb@FreeBSD.org diff --git a/biology/hisat2/files/patch-util.h b/biology/hisat2/files/patch-util.h deleted file mode 100644 index 43c3aa88400c..000000000000 --- a/biology/hisat2/files/patch-util.h +++ /dev/null @@ -1,11 +0,0 @@ ---- util.h.orig 2021-11-26 15:40:17 UTC -+++ util.h -@@ -43,7 +43,7 @@ char* itoa10(const T& value, char* result) { - // Only apply negative sign for base 10 - if(std::numeric_limits::is_signed) { - // Avoid compiler warning in cases where T is unsigned -- if (value <= 0 && value != 0) *out++ = '-'; -+ if (value <= 0) *out++ = '-'; - } - reverse( result, out ); - *out = 0; // terminator