From owner-freebsd-ports-bugs@freebsd.org Sat Nov 3 12:34:36 2018 Return-Path: Delivered-To: freebsd-ports-bugs@mailman.ysv.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2610:1c1:1:606c::19:1]) by mailman.ysv.freebsd.org (Postfix) with ESMTP id 52F4D10FCB66 for ; Sat, 3 Nov 2018 12:34:36 +0000 (UTC) (envelope-from bugzilla-noreply@freebsd.org) Received: from mailman.ysv.freebsd.org (mailman.ysv.freebsd.org [IPv6:2001:1900:2254:206a::50:5]) by mx1.freebsd.org (Postfix) with ESMTP id 11B3E80A04 for ; Sat, 3 Nov 2018 12:34:36 +0000 (UTC) (envelope-from bugzilla-noreply@freebsd.org) Received: by mailman.ysv.freebsd.org (Postfix) id C78CF10FCB62; Sat, 3 Nov 2018 12:34:35 +0000 (UTC) Delivered-To: ports-bugs@mailman.ysv.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2610:1c1:1:606c::19:1]) by mailman.ysv.freebsd.org (Postfix) with ESMTP id B651110FCB61 for ; Sat, 3 Nov 2018 12:34:35 +0000 (UTC) (envelope-from bugzilla-noreply@freebsd.org) Received: from mxrelay.ysv.freebsd.org (mxrelay.ysv.freebsd.org [IPv6:2001:1900:2254:206a::19:3]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) (Client CN "mxrelay.ysv.freebsd.org", Issuer "Let's Encrypt Authority X3" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 58F43809FE for ; Sat, 3 Nov 2018 12:34:35 +0000 (UTC) (envelope-from bugzilla-noreply@freebsd.org) Received: from kenobi.freebsd.org (kenobi.freebsd.org [IPv6:2001:1900:2254:206a::16:76]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (Client did not present a certificate) by mxrelay.ysv.freebsd.org (Postfix) with ESMTPS id 894A363FB for ; Sat, 3 Nov 2018 12:34:34 +0000 (UTC) (envelope-from bugzilla-noreply@freebsd.org) Received: from kenobi.freebsd.org ([127.0.1.118]) by kenobi.freebsd.org (8.15.2/8.15.2) with ESMTP id wA3CYYgg043440 for ; Sat, 3 Nov 2018 12:34:34 GMT (envelope-from bugzilla-noreply@freebsd.org) Received: (from www@localhost) by kenobi.freebsd.org (8.15.2/8.15.2/Submit) id wA3CYYEm043436 for ports-bugs@FreeBSD.org; Sat, 3 Nov 2018 12:34:34 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 232929] biology/bowtie fails to build with GCC 8 Date: Sat, 03 Nov 2018 12:34:33 +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 Some People X-Bugzilla-Who: gerald@FreeBSD.org 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 op_sys bug_status bug_severity priority component assigned_to reporter blocked flagtypes.name 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 MIME-Version: 1.0 X-BeenThere: freebsd-ports-bugs@freebsd.org X-Mailman-Version: 2.1.29 Precedence: list List-Id: Ports bug reports List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Sat, 03 Nov 2018 12:34:36 -0000 https://bugs.freebsd.org/bugzilla/show_bug.cgi?id=3D232929 Bug ID: 232929 Summary: biology/bowtie fails to build with GCC 8 Product: Ports & Packages Version: Latest Hardware: Any OS: Any Status: New Severity: Affects Some People Priority: --- Component: Individual Port(s) Assignee: jwb@freebsd.org Reporter: gerald@FreeBSD.org Blocks: 231590 Flags: maintainer-feedback?(jwb@freebsd.org) Assignee: jwb@freebsd.org biology/bowtie has the following bit # FIXME: bowtie-align intermittently dumps core when compiled with clang # GCC 4.2 does not provide good performance USE_GCC=3D yes alas it now fails to build with GCC 8, blocking the update of the default version of GCC. Cf. http://package22.nyi.freebsd.org/data/112amd64-default-PR231590/2018-10-29_= 06h48m05s/logs/errors/bowtie-1.1.2_6.log ebwt.h: In member function 'uint32_t* Ebwt::isa() const': ebwt.h:863:44: error: cannot convert 'TIndexOffU* const' {aka 'long unsigned int* const'} to 'uint32_t*' {aka 'unsigned int*'} in return uint32_t* isa() const { return _isa; } /* check */ ^~~~ How about retiring this port in favor of biology/bowtie2 ? Referenced Bugs: https://bugs.freebsd.org/bugzilla/show_bug.cgi?id=3D231590 [Bug 231590] [exp-run] Update GCC_DEFAULT from 7 to 8 --=20 You are receiving this mail because: You are the assignee for the bug.=