From nobody Tue Oct 15 15:12:57 2024 X-Original-To: ports-bugs@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 4XSczZ3k6sz5YZBG for ; Tue, 15 Oct 2024 15:12:58 +0000 (UTC) (envelope-from bugzilla-noreply@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 "R11" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 4XSczZ2WFFz4G51 for ; Tue, 15 Oct 2024 15:12:58 +0000 (UTC) (envelope-from bugzilla-noreply@freebsd.org) ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1729005178; 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=JupHOTeQqRKmFB/YAQaiRI0ea3ZKGCcSU+hEo75yFPE=; b=IgKf7MB0PHVWWpwVAiCrI/RHP669S06fZb4Z2wb4sEZDhTKUepl1sCYWIxhZrxkssjtnFU OWTu7eTSmBH1RwsAa7zlN0mlDVUiDBKb+0LP4X/M4XgBKZ0yI2k1sFSy2xmWjBlyq3eKmr nbDV/t0pXNMcDyQmwGZG3G7B0LbNWVOJrKskPDM4uiF7XSVDDIlrh+b4NAarYQSRkKmYl8 Q7fBNkR7sFBPKmPcAsC7nd2EP7dCbtSzCaIr54Gx3ir0iz5s9vTVLA+TflhzqcLHM3VhgS LASPvurAqnA8XuOjRVEc4wWOda1LrWufqUqsTO7cTIQ+dtiyncL1/WtVTgW8Cw== ARC-Authentication-Results: i=1; mx1.freebsd.org; none ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1729005178; a=rsa-sha256; cv=none; b=MG7q7EVpAzuxX+/YDJ2mkR5zXhFm6CO+LANmojzuoTskr7SatzB/K/bBFtN2Qmzu4euUXr eMv2KhUDV4Ircc8ut0qz+hqr987yw9AS3hmz6qiEczHxwNCtS5uNxJwqE/npldRcm0sRku bAStIki6sAeYRjC4Exf9zacSGXyx0vwGeEk0ND4UxO+8IoPzB+WhM4hUTVG3/CMCCWlu5f EshVeMGBET3XlAuTnnmwNtbnavrWS3Afky45YrlvM2q60LTTTaCeiIIHE+IAVMfyD9DIAD ZWzbw9CffsuDiDNDbRzBTf3bKACR9ynRGkW7RfyqlbKdIr0VqlRWz5uzuVs2cg== Received: from kenobi.freebsd.org (kenobi.freebsd.org [IPv6:2610:1c1:1:606c::50:1d]) (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 4XSczZ25vCzRVG for ; Tue, 15 Oct 2024 15:12:58 +0000 (UTC) (envelope-from bugzilla-noreply@freebsd.org) Received: from kenobi.freebsd.org ([127.0.1.5]) by kenobi.freebsd.org (8.15.2/8.15.2) with ESMTP id 49FFCwXY013585 for ; Tue, 15 Oct 2024 15:12:58 GMT (envelope-from bugzilla-noreply@freebsd.org) Received: (from www@localhost) by kenobi.freebsd.org (8.15.2/8.15.2/Submit) id 49FFCw4s013584 for ports-bugs@FreeBSD.org; Tue, 15 Oct 2024 15:12:58 GMT (envelope-from bugzilla-noreply@freebsd.org) X-Authentication-Warning: kenobi.freebsd.org: www set sender to bugzilla-noreply@freebsd.org using -f From: bugzilla-noreply@freebsd.org To: ports-bugs@FreeBSD.org Subject: [Bug 282111] biology/hmmer: update to 3.4 Date: Tue, 15 Oct 2024 15:12:57 +0000 X-Bugzilla-Reason: AssignedTo X-Bugzilla-Type: new X-Bugzilla-Watch-Reason: None X-Bugzilla-Product: Ports & Packages X-Bugzilla-Component: Individual Port(s) X-Bugzilla-Version: Latest X-Bugzilla-Keywords: X-Bugzilla-Severity: Affects Only Me X-Bugzilla-Who: fuz@FreeBSD.org X-Bugzilla-Status: New X-Bugzilla-Resolution: X-Bugzilla-Priority: --- X-Bugzilla-Assigned-To: ports-bugs@FreeBSD.org X-Bugzilla-Flags: maintainer-feedback? X-Bugzilla-Changed-Fields: bug_id short_desc product version rep_platform bug_file_loc op_sys bug_status bug_severity priority component assigned_to reporter cc flagtypes.name attachments.created Message-ID: Content-Type: text/plain; charset="UTF-8" Content-Transfer-Encoding: quoted-printable X-Bugzilla-URL: https://bugs.freebsd.org/bugzilla/ Auto-Submitted: auto-generated List-Id: Ports bug reports List-Archive: https://lists.freebsd.org/archives/freebsd-ports-bugs List-Help: List-Post: List-Subscribe: List-Unsubscribe: X-BeenThere: freebsd-ports-bugs@freebsd.org Sender: owner-freebsd-ports-bugs@FreeBSD.org MIME-Version: 1.0 https://bugs.freebsd.org/bugzilla/show_bug.cgi?id=3D282111 Bug ID: 282111 Summary: biology/hmmer: update to 3.4 Product: Ports & Packages Version: Latest Hardware: Any URL: http://cryptogenomicon.org/hmmer-3-4-release.html OS: Any Status: New Severity: Affects Only Me Priority: --- Component: Individual Port(s) Assignee: ports-bugs@FreeBSD.org Reporter: fuz@FreeBSD.org CC: mzaki@e-mail.ne.jp Flags: maintainer-feedback?(mzaki@e-mail.ne.jp) CC: mzaki@e-mail.ne.jp Attachment #254264 maintainer-approval?(mzaki@e-mail.ne.jp) Flags: Created attachment 254264 --> https://bugs.freebsd.org/bugzilla/attachment.cgi?id=3D254264&action= =3Dedit biology/hmmer: update to 3.4 Attached patch updates the port to 3.4. Port builds fine on armv7, aarch64, i386, and amd64. Support for aarch64/armv7 is new. The test suite passes on armv7, aarch64. On i386, unit test hmmpgmd_shard_= ga fails: exercise 299 [ hmmpgmd_shard_ga] ... FAILED [command failed] On amd64, two unit tests fail: exercise 297 [ hmmpgmd_ga] ... FAILED [crash!] exercise 299 [ hmmpgmd_shard_ga] ... FAILED [command failed] Dear maintainer, please review and if applicable approve of the patch by setting the "maintainer-approval" flag to + on the patch file. --=20 You are receiving this mail because: You are the assignee for the bug.=