From nobody Sun Nov 05 23:37:35 2023 X-Original-To: toolchain@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 4SNrW43cpGz503KV for ; Sun, 5 Nov 2023 23:37:36 +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 "R3" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 4SNrW350Y9z3JrJ for ; Sun, 5 Nov 2023 23:37:35 +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=1699227455; 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: in-reply-to:in-reply-to:references:references; bh=vheSYcvQQv2E9PZHd4NAUiwqdeor2ctrQIfyTni+GsI=; b=mluXUiu52A9jsMi+TQtL18hLRme2cOOzqvvCZ4klbAGWVqUqw+WQRV5bC2BvmWHHZg1PvV vkfYj4GfgX8t/E1XGAjEG97SLc1cQWGmFMy74AZwWeMhvFqNSqKB5E/0QNfmZPSxASTloP JCBO2yvKhuu+kAekj4WBIGXoNeE3bRmJECHgq9hI5N9tDsl0ijBwxtoTDMvXZz/QpmzI9F qemPPNvTQ+jSxypzuTcWW6Ggyu403SLzw6n8X2MqAKSkL7xqvENxJTw3RuYgSEwb3KAUKy f6TMIove1OMkWUKiG4fhrhJujBWmoWnk+XE2abelekA2eJnBj0e7IgneUpP8UQ== ARC-Authentication-Results: i=1; mx1.freebsd.org; none ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1699227455; a=rsa-sha256; cv=none; b=J8Tg8GZJHdldlcvRUgGSVGIK5I36OTu9HMtMdyik7KusAg1zN8D54z8b9APUO/rTjimdz5 ysB5YBE7le/tZBUox8eUHqquDupcKdlpJjWhZ88AecWEVc5C0tHyyJwo+E94d6GSE8gG7r Du6XNn/idJnAEkqe+RiYs3yI2UvApkk73am63CTCO6L2yTeljMF72f0yTCW0XwcH76M+5U esg2Qcn+Am+//tUXHpPJR0tidT5sVmGcMIZeDaDeRrWgv/4i5psHKJGzLDAot0oZDsXibh TYlXbaptKHlVg9FGSOt+5HUUzgxCQUDnKqZz7d4ArM/+bJhgJxNub/JzzrypGQ== 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 4SNrW346Fhzkys for ; Sun, 5 Nov 2023 23:37:35 +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 3A5NbZiR056509 for ; Sun, 5 Nov 2023 23:37:35 GMT (envelope-from bugzilla-noreply@freebsd.org) Received: (from www@localhost) by kenobi.freebsd.org (8.15.2/8.15.2/Submit) id 3A5NbZDx056508 for toolchain@FreeBSD.org; Sun, 5 Nov 2023 23:37:35 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: toolchain@FreeBSD.org Subject: [Bug 274703] clang-16.0.6 crashes on science/rdkit rdkit-2023.09.1 on 15.0-CURRENT amd64 Date: Sun, 05 Nov 2023 23:37:35 +0000 X-Bugzilla-Reason: AssignedTo X-Bugzilla-Type: changed X-Bugzilla-Watch-Reason: None X-Bugzilla-Product: Base System X-Bugzilla-Component: bin X-Bugzilla-Version: CURRENT X-Bugzilla-Keywords: X-Bugzilla-Severity: Affects Only Me X-Bugzilla-Who: marklmi26-fbsd@yahoo.com X-Bugzilla-Status: New X-Bugzilla-Resolution: X-Bugzilla-Priority: --- X-Bugzilla-Assigned-To: toolchain@FreeBSD.org X-Bugzilla-Flags: X-Bugzilla-Changed-Fields: Message-ID: In-Reply-To: References: 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: Maintenance of FreeBSD s integrated toolchain List-Archive: https://lists.freebsd.org/archives/freebsd-toolchain List-Help: List-Post: List-Subscribe: List-Unsubscribe: Sender: owner-freebsd-toolchain@freebsd.org X-BeenThere: freebsd-toolchain@freebsd.org MIME-Version: 1.0 https://bugs.freebsd.org/bugzilla/show_bug.cgi?id=3D274703 --- Comment #4 from Mark Millard --- (In reply to Mark Millard from comment #3) That is not the issue: /usr/bin/c++ is in use. I'll note that: [ 21% 166/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPOR= TS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/Ri= ngFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcnt -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -std=3Dgnu++17 -fPIC -pthread -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o -MF Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o.d -o Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/GraphMol= /Canon.cpp worked just fine in my build (amd64 context). This might suggest corrupted file system data at the time on the FreeBSD port -> package build server at the time or some other corruption at the time? Have the FreeBSD build servers been dealing with all the updates for recently known ZFS corruption problems? I note that the host is listed as: Host OSVERSION: 1500000 Jail OSVERSION: 1500002 This suggests that the actual kernel involved (Host) might not have all the updates. But it is also not clear what zpool features were or are enabled. --=20 You are receiving this mail because: You are the assignee for the bug.=