From nobody Sun Jan 19 15:09:57 2025 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 4YbcMn4RGbz5lM1h for ; Sun, 19 Jan 2025 15:09:57 +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 4YbcMn42ZLz3bPr for ; Sun, 19 Jan 2025 15:09:57 +0000 (UTC) (envelope-from bugzilla-noreply@freebsd.org) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1737299397; 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=AQ55U2wq2dNiYhqzoO9c7fNyqVx6pep5ebdFGiXJO7k=; b=Gp9D/vP1va2t+8eBKYDARk5HDDLFATj2Mj2MCtsnszxNHLRtbA6BYTp1NAIm5qtF4VMTQj NDaBQtkLXqWyC2lskhOFav1BCaZ7cA57SaT6AI5EYK23rm8ve4m1eF0e56DlROoiNtoYfQ S4zNeJiDsgys1mWf5Zwa3iYTJQeaL8tWd1xgCy4w/+UGBJKT3JtI4ZLsFi4DtPqpCMW9uP qLMkFqb1Ut+6rUP58009UCEVC/kP9QbkZ1QnKQTRY2j+rTDxjVePBPiH7+DmAu3HvbaUot bMlNhba3bZIys3+6HDVl6CEZF/zNIWOk9NI3yJJrgSv7ZkbJaB365Eb8FLoMOg== ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1737299397; 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=AQ55U2wq2dNiYhqzoO9c7fNyqVx6pep5ebdFGiXJO7k=; b=WoRR6mGqBTwVeVHUkIDv9qr0YxLlJSOOYgNNa94NQw2ZRD2ADwOmhawVIr8MAYTaKg2wmF xOew6iVhpybpR49fuDqbqIZ8Y/dYsNXOf0ZHAAHOSGkT5XXZon6D3+WlBmIk09QnbPZSMA YBYSDzVXZ+tTYaPNDTjbYx9JwAulOAM+m+/AdGMGfSFBN3DqCTwA4+weJuKkqasUUyNM2c aeTGbpkFSPikfNUiBqjuZfeTLIS2G3JMBsSYiA1b02Ts9SICX0lQl2aYgjEKzcddNgcmeJ 6pC+AOyRTJwoPgmoxEg9j2nK8XznKywFnxlvqoRfARFSa/A8gZXqgYTVQ767og== ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1737299397; a=rsa-sha256; cv=none; b=YU1SqLt3ZIwRSM6H6ztVYCjU2I9ldUeicw407tzESwYC6az6lx8iDG/AN/LAveTqvcPa4T IYh36fXjmX2g2Huz0YAwpi9WWa61hyI64RDnvoA1BYburdg68u7gtgbqkiPF8Mq30D/sOJ axhI5dzTy/igJYI5ZzlvF8usYC7kbanaxm2LKxyIvD/5tK9KwztJ8ceu6c/njyznvR9/bg 3C/C+fal0syOzWLQuoI+msGmk5or4MT0kd4EvUYN/6+QweMr5jvz3sOclAIKU7AXV1D7U3 VWt3X28N5TIAICeBGtbMTVSTDJUu4W16PPooYCZE2W/AmIzeCKZi2pznC396OQ== ARC-Authentication-Results: i=1; mx1.freebsd.org; none 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 4YbcMn3VLxzvGd for ; Sun, 19 Jan 2025 15:09:57 +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 50JF9ve7052375 for ; Sun, 19 Jan 2025 15:09:57 GMT (envelope-from bugzilla-noreply@freebsd.org) Received: (from www@localhost) by kenobi.freebsd.org (8.15.2/8.15.2/Submit) id 50JF9v6Y052374 for ports-bugs@FreeBSD.org; Sun, 19 Jan 2025 15:09:57 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: =?UTF-8?B?W0J1ZyAyODQxNjVdIGJpb2xvZ3kvbW1zZXFzMjogdXBkYXRlIDE2?= =?UTF-8?B?LTc0N2M2IOKGkiAxNy1iODA0Zg==?= Date: Sun, 19 Jan 2025 15:09:57 +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: alster@vinterdalen.se X-Bugzilla-Status: New X-Bugzilla-Resolution: X-Bugzilla-Priority: --- X-Bugzilla-Assigned-To: jwb@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-Transfer-Encoding: quoted-printable Content-Type: text/plain; charset="UTF-8" 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=3D284165 Bug ID: 284165 Summary: biology/mmseqs2: update 16-747c6 =E2=86=92 17-b804f Product: Ports & Packages Version: Latest Hardware: Any URL: https://github.com/soedinglab/MMseqs2/releases OS: Any Status: New Severity: Affects Only Me Priority: --- Component: Individual Port(s) Assignee: jwb@freebsd.org Reporter: alster@vinterdalen.se CC: jwb@freebsd.org Flags: maintainer-feedback?(jwb@freebsd.org) Assignee: jwb@freebsd.org Attachment #256808 maintainer-approval?(jwb@freebsd.org) Flags: CC: jwb@freebsd.org Created attachment 256808 --> https://bugs.freebsd.org/bugzilla/attachment.cgi?id=3D256808&action= =3Dedit [PATCH] biology/mmseqs2: update 16-747c6 =E2=86=92 17-b804f MMseqs2 Release 17-b804f Latest MMseqs2 Release 17 is mostly a bug fix release. Highlights include usability improvements in MMseqs2-GPU and fix for a common crash in the prefilter that was affecting many clustering runs. New Features and Enhancements result2profile can print frequencies in TSV format (c2c3ad9) add a new masking mode --mask-n-repeat (c2c3ad9) Improve GPU clients in server mode to wait for databasess to be loaded (e095774) GPU server now takes CUDA_VISIBLE_DEVICES into account. (b804fbe) Reduced glibc requirements for precompiled MMseqs2-GPU binaries to 2.17 (i.e. CentOS 7; db8ad2d) Bug Fixes Segmentation fault in easy-cluster starting in #916 (dc7f8ad) GPU version generated corrupted sequence outputs #912 (e3b16fa) Sequences starting with * could break Sequence mapping #927 (492297b) Indexes without k-mer index are masked now (4766f92) Invalid taxids check in majoritylca does not abort the whole process (8d17137) Merged taxID larger than any taxid in nodes.dmp could corrupt memory #9= 31 (fd37b37) Developer Notes Export NATIVE_ARCH in cmake (17cd5c0) --=20 You are receiving this mail because: You are the assignee for the bug.=