From nobody Tue Jan 31 15:19:36 2023 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 4P5pcn1YMfz3bHcF; Tue, 31 Jan 2023 15:19:37 +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 4P5pcn14DSz3vZr; Tue, 31 Jan 2023 15:19:37 +0000 (UTC) (envelope-from git@FreeBSD.org) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1675178377; 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=WLqmf9lSsQutwYNl5R3wije5owaKm6ciDHEZ9Zzituo=; b=db+34L6c6v2SrBVzRCwkgyg1J9l048kdlZYxNCqX4tZsu6ELMLE8C7+0CBXM7/wYHpDJht oc6SfPlXiox2Gev8FEyo8oRJD5U7cCWmr8EllsKsObLAH967PoRApdnRAm2mTQ9mCMA6LJ jawMEmDXbdEeSf8NC8/QPk5ZagBuFD4RHaKRdRDOJaUvBASIzf5xNC+KjK6vx0dQfIjsvE slKI2XlCRpy/Wvq7BamXrZwrFSEdUTxiQdwidTENbvYb1u5vix/iPf/QbSPGXPG93qSb2G 4S7Ld5KVXNlMPpzcMe2E5QfaO9GSgrqvyGGt8GF5IvCH6Jmv2sbT5OCP87/xWw== ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1675178377; 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=WLqmf9lSsQutwYNl5R3wije5owaKm6ciDHEZ9Zzituo=; b=HPXauwZkbbx5bU7jl6xZjXbtwl7GldjUuOVTDxIBhzGw+galSpT7Ofmd35u7nQGTetpuBy EfneIoi+eiD5L1IDF0x2R6xdDPNiIusEf81ZkZ/NPD0JmIGN/pnFdt4ZTtAcS56MRbAxuU 3mL9DM95V9ElKJBhV+7Kq30uWZQq7a0Uo9q6ou/ziAIzDv4Z3Q2dkdBo/QKRTfDbiMmS6N /wN4HHP15mrZR+BLiK3/u07RaAFCgsL3y6fcrncy8+2NIHjCxukPI8OTakRJwy1f+pgTJn k5P9zIkmtrgvIvMzQe1A8x6t1LxJm1gAU63ENporzpx30GHZfH3pnTb6QG9/oA== ARC-Authentication-Results: i=1; mx1.freebsd.org; none ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1675178377; a=rsa-sha256; cv=none; b=mgIL9qggUDlIOXfC+04fDTcUfVxyqMg+Em8DICVnsEGPphD+8bdVv1qtFHLOIti+JkHq1N ggmI35/msJ0I5NUtVWK7z613+1sCsFU+u3WY43qRz5U4eIIHrN9HrCGs/OYl/6IUeH+6ik QgJQyhZlwgLn0llanxTge8LLG6B1L2G/53EULhaZmDeyucc1/MsCJzqlQgin6TVEx+1AsU MoUAMJ1XP9epvVSRlpofPhDnY4OkbQ38JGzyLEOiRM0TRRoxD2jxChfY2wchdta5G8K6+v Rhxux+Yfn2t0VIDF2NpiqGgrWQgo7Ergc+exHVM1+uzEQC22z2E5djnYPguitQ== 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 4P5pcn07ppzt29; Tue, 31 Jan 2023 15:19:37 +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 30VFJaM1011939; Tue, 31 Jan 2023 15:19:36 GMT (envelope-from git@gitrepo.freebsd.org) Received: (from git@localhost) by gitrepo.freebsd.org (8.16.1/8.16.1/Submit) id 30VFJacJ011938; Tue, 31 Jan 2023 15:19:36 GMT (envelope-from git) Date: Tue, 31 Jan 2023 15:19:36 GMT Message-Id: <202301311519.30VFJacJ011938@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: eb340a643efc - main - biology/wfa2-lib: Unbreak build on aarch64, probably others 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: eb340a643efc7a5d40858fb9abc059bb9face05c Auto-Submitted: auto-generated X-ThisMailContainsUnwantedMimeParts: N The branch main has been updated by jwb: URL: https://cgit.FreeBSD.org/ports/commit/?id=eb340a643efc7a5d40858fb9abc059bb9face05c commit eb340a643efc7a5d40858fb9abc059bb9face05c Author: Jason W. Bacon AuthorDate: 2023-01-31 15:17:52 +0000 Commit: Jason W. Bacon CommitDate: 2023-01-31 15:17:52 +0000 biology/wfa2-lib: Unbreak build on aarch64, probably others Patch out hard-coded -march=native, not supported by clang aarch64 Reported by: pkg-fallout --- biology/wfa2-lib/Makefile | 1 + biology/wfa2-lib/files/patch-CMakeLists.txt | 11 +++++++++++ 2 files changed, 12 insertions(+) diff --git a/biology/wfa2-lib/Makefile b/biology/wfa2-lib/Makefile index cb334b9bf0c3..2300f379ec6f 100644 --- a/biology/wfa2-lib/Makefile +++ b/biology/wfa2-lib/Makefile @@ -1,6 +1,7 @@ PORTNAME= wfa2-lib DISTVERSIONPREFIX= v DISTVERSION= 2.3.2 +PORTREVISION= 1 CATEGORIES= biology MAINTAINER= jwb@FreeBSD.org diff --git a/biology/wfa2-lib/files/patch-CMakeLists.txt b/biology/wfa2-lib/files/patch-CMakeLists.txt new file mode 100644 index 000000000000..8b71ad656f0a --- /dev/null +++ b/biology/wfa2-lib/files/patch-CMakeLists.txt @@ -0,0 +1,11 @@ +--- CMakeLists.txt.orig 2023-01-31 15:02:27 UTC ++++ CMakeLists.txt +@@ -55,7 +55,7 @@ if(NOT CMAKE_BUILD_TYPE) + endif() + + if (${CMAKE_BUILD_TYPE} MATCHES Release) +- set(OPTIMIZE_FLAGS "${OPTIMIZE_FLAGS} -march=native -D_FILE_OFFSET_BITS=64") ++ set(OPTIMIZE_FLAGS "${OPTIMIZE_FLAGS} -D_FILE_OFFSET_BITS=64") + endif() + + if ((${CMAKE_BUILD_TYPE} MATCHES Release) OR (${CMAKE_BUILD_TYPE} MATCHES RelWithDebInfo))