From unknown Sat Jun 14 03:46:52 2025 Content-Disposition: inline Content-Transfer-Encoding: quoted-printable MIME-Version: 1.0 X-Mailer: MIME-tools 5.509 (Entity 5.509) Content-Type: text/plain; charset=utf-8 From: bug#54767 <54767@debbugs.gnu.org> To: bug#54767 <54767@debbugs.gnu.org> Subject: Status: [PATCH] gnu: hwloc-1: Update to 1.11.13 and add upstream patch to fix a test Reply-To: bug#54767 <54767@debbugs.gnu.org> Date: Sat, 14 Jun 2025 10:46:52 +0000 retitle 54767 [PATCH] gnu: hwloc-1: Update to 1.11.13 and add upstream patc= h to fix a test reassign 54767 guix-patches submitter 54767 Philippe SWARTVAGHER severity 54767 normal tag 54767 patch thanks From debbugs-submit-bounces@debbugs.gnu.org Thu Apr 07 11:31:03 2022 Received: (at submit) by debbugs.gnu.org; 7 Apr 2022 15:31:03 +0000 Received: from localhost ([127.0.0.1]:33155 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1ncU68-0008QZ-9N for submit@debbugs.gnu.org; Thu, 07 Apr 2022 11:31:03 -0400 Received: from lists.gnu.org ([209.51.188.17]:45164) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1ncU66-0008QR-H3 for submit@debbugs.gnu.org; Thu, 07 Apr 2022 11:30:59 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:52198) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1ncU66-0005g1-B4 for guix-patches@gnu.org; Thu, 07 Apr 2022 11:30:58 -0400 Received: from mail3-relais-sop.national.inria.fr ([192.134.164.104]:24101) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1ncU63-0004Vz-BR for guix-patches@gnu.org; Thu, 07 Apr 2022 11:30:57 -0400 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=inria.fr; s=dc; h=from:to:cc:subject:date:message-id:mime-version: content-transfer-encoding; bh=EuVhTtKkZ/YY3GNOpAmmRn5Ir4Arq8udTeGkJlU8CR8=; b=XCP+NmK5Tsfhv4VJ2tj7+aIFCvYRH+aI+aKDmOUphaQuxeIagY4Qcw+P fk79J2dgc5s4vaF7rZ/0OFMh3q3WD/YXrjS9KLH3yOhk/a3xEGgHzhebs TGOViyp7k6G9WqlOhJC7zrjjX2vxytOn5QCCPT+1m9aRrAYhLPxPL4IBJ E=; Authentication-Results: mail3-relais-sop.national.inria.fr; dkim=none (message not signed) header.i=none; spf=SoftFail smtp.mailfrom=philippe.swartvagher@inria.fr; dmarc=fail (p=none dis=none) d=inria.fr X-IronPort-AV: E=Sophos;i="5.90,242,1643670000"; d="scan'208";a="10888764" Received: from unknown (HELO PHSW.bordeaux.inria.fr) ([193.50.110.193]) by mail3-relais-sop.national.inria.fr with ESMTP/TLS/ECDHE-RSA-AES256-GCM-SHA384; 07 Apr 2022 17:30:51 +0200 From: Philippe SWARTVAGHER To: guix-patches@gnu.org Subject: [PATCH] gnu: hwloc-1: Update to 1.11.13 and add upstream patch to fix a test Date: Thu, 7 Apr 2022 17:30:02 +0200 Message-Id: <20220407153002.885065-1-philippe.swartvagher@inria.fr> X-Mailer: git-send-email 2.30.2 MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit Received-SPF: pass client-ip=192.134.164.104; envelope-from=philippe.swartvagher@inria.fr; helo=mail3-relais-sop.national.inria.fr X-Spam_score_int: -43 X-Spam_score: -4.4 X-Spam_bar: ---- X-Spam_report: (-4.4 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, RCVD_IN_DNSWL_MED=-2.3, RCVD_IN_MSPIKE_H3=0.001, RCVD_IN_MSPIKE_WL=0.001, SPF_HELO_NONE=0.001, SPF_PASS=-0.001, T_SCC_BODY_TEXT_LINE=-0.01 autolearn=ham autolearn_force=no X-Spam_action: no action X-Spam-Score: -1.3 (-) X-Debbugs-Envelope-To: submit Cc: Philippe SWARTVAGHER X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -2.3 (--) gnu/packages/mpi.scm (hwloc-1): * Update to 1.11.13 * Add upstream patch not in the release to fix one test on BTRFS filesystems * Use the target of the redirection in the source URL, as advised by `guix lint` * Apply `guix style` --- gnu/packages/mpi.scm | 72 +++++++++---------- gnu/packages/patches/hwloc-1-test-btrfs.patch | 55 ++++++++++++++ 2 files changed, 87 insertions(+), 40 deletions(-) create mode 100644 gnu/packages/patches/hwloc-1-test-btrfs.patch diff --git a/gnu/packages/mpi.scm b/gnu/packages/mpi.scm index 94c32684fb..b0ec1b17ca 100644 --- a/gnu/packages/mpi.scm +++ b/gnu/packages/mpi.scm @@ -57,41 +57,37 @@ (define-public hwloc-1 ;; to migrate to 2.0. (package (name "hwloc") - (version "1.11.12") + (version "1.11.13") (source (origin (method url-fetch) - (uri (string-append "https://www.open-mpi.org/software/hwloc/v" - (version-major+minor version) - "/downloads/hwloc-" version ".tar.bz2")) + (uri (string-append + "https://download.open-mpi.org/release/hwloc/v" + (version-major+minor version) "/hwloc-" version ".tar.bz2")) (sha256 (base32 - "0za1b9lvrm3rhn0lrxja5f64r0aq1qs4m0pxn1ji2mbi8ndppyyx")))) - + "1j69p8a1pjpbpwn4w7l4dfxmaxxqikchjzqw1ncw05zmcmvlnjd4")) + (patches (search-patches "hwloc-1-test-btrfs.patch")))) (properties - ;; Tell the 'generic-html' updater to monitor this URL for updates. - `((release-monitoring-url - . "https://www-lb.open-mpi.org/software/hwloc/current"))) - + ;; Tell the 'generic-html' updater to monitor this URL for updates. + `((release-monitoring-url #{.}# + "https://www-lb.open-mpi.org/software/hwloc/current"))) (build-system gnu-build-system) - (outputs '("out" ;'lstopo' & co., depends on Cairo, libx11, etc. - "lib" ;small closure - "doc" ;400+ section 3 man pages + (outputs '("out" ;'lstopo' & co., depends on Cairo, libx11, etc. + "lib" ;small closure + "doc" ;400+ section 3 man pages "debug")) - (inputs - `(("libx11" ,libx11) - ("cairo" ,cairo) - ("ncurses" ,ncurses) - ("expat" ,expat) - ,@(if (not (string-prefix? "armhf" - (or (%current-target-system) - (%current-system)))) - `(("numactl" ,numactl)) - '()))) + (inputs `(("libx11" ,libx11) ("cairo" ,cairo) + ("ncurses" ,ncurses) + ("expat" ,expat) + ,@(if (not (string-prefix? "armhf" + (or (%current-target-system) + (%current-system)))) + `(("numactl" ,numactl)) + '()))) (propagated-inputs - ;; hwloc.pc lists it in 'Requires.private'. - (list libpciaccess)) - (native-inputs - (list pkg-config)) + ;; hwloc.pc lists it in 'Requires.private'. + (list libpciaccess)) + (native-inputs (list pkg-config)) (arguments `(#:configure-flags '("--localstatedir=/var") #:phases @@ -101,32 +97,28 @@ (define-public hwloc-1 ;; Arrange to skip 'tests/linux-libnuma', which fails on some ;; machines: . (substitute* "tests/linux-libnuma.c" - (("numa_available\\(\\)") - "-1")) - #t)) + (("numa_available\\(\\)") "-1")) #t)) (add-after 'install 'refine-libnuma ;; Give -L arguments for libraries to avoid propagation (lambda* (#:key inputs outputs #:allow-other-keys) - (let ((out (assoc-ref outputs "lib")) - (numa (assoc-ref inputs "numactl"))) - (substitute* (map (lambda (f) (string-append out "/" f)) + (let ((out (assoc-ref outputs "lib")) (numa (assoc-ref inputs + "numactl"))) + (substitute* (map (lambda (f) + (string-append out "/" f)) '("lib/pkgconfig/hwloc.pc" "lib/libhwloc.la")) - (("-lnuma" lib) - (string-append "-L" numa "/lib " lib)))))) + (("-lnuma" lib) (string-append "-L" numa "/lib " lib)))))) (add-after 'install 'avoid-circular-references (lambda* (#:key outputs #:allow-other-keys) (let ((lib (assoc-ref outputs "lib"))) ;; Suppress the 'prefix=' and 'exec_prefix=' lines so that the ;; "lib" output doesn't refer to "out". (substitute* (string-append lib "/lib/pkgconfig/hwloc.pc") - (("^.*prefix=.*$") - "")) - #t))) + (("^.*prefix=.*$") "")) #t))) (add-after 'install 'move-man3-pages (lambda* (#:key outputs #:allow-other-keys) ;; Move section 3 man pages to the "doc" output. - (let ((out (assoc-ref outputs "out")) - (doc (assoc-ref outputs "doc"))) + (let ((out (assoc-ref outputs "out")) (doc (assoc-ref outputs + "doc"))) (copy-recursively (string-append out "/share/man/man3") (string-append doc "/share/man/man3")) (delete-file-recursively (string-append out "/share/man/man3")) diff --git a/gnu/packages/patches/hwloc-1-test-btrfs.patch b/gnu/packages/patches/hwloc-1-test-btrfs.patch new file mode 100644 index 0000000000..32f2919abc --- /dev/null +++ b/gnu/packages/patches/hwloc-1-test-btrfs.patch @@ -0,0 +1,55 @@ +From 093316a897a2eb4972a7a3a5888f40975d03f6bf Mon Sep 17 00:00:00 2001 +From: Brice Goglin +Date: Tue, 5 Apr 2022 17:39:50 +0200 +Subject: [PATCH] linux: (partial) fix the discovery of hugepages on btrfs + fsroot + +btrfs always returns 1 in directory stat.st_nlink. +It breaks make check in tests/linux/ because the hugepages discovery +uses st_nlink to allocate the memory page_types array. + +Always allocate at least 3 page_types slots +(enough for all known cases, 1 for normal, 2 for huge pages) + +(partially cherry-picked from commit 7f351cec9bfe54a031f35ad16c9cfb99784d76dc) + +We don't reallocate later if needed as in 2.x commit 7f351cec9bfe54a031f35ad16c9cfb99784d76dc +because v1.11 doesn't deserve a complete fix. Just commit the minimal change +so that tests/linux/2i386-2t-hugepagesizecount with HWLOC_PAGESIZE_DEBUG=4096 +doesn't crash in btrfs anymore (test-topology.sh fails during make check if /tmp is in btrfs). + +Thanks to Philippe Swartvagher for the report. + +Signed-off-by: Brice Goglin +--- + src/topology-linux.c | 11 +++++++++-- + 1 file changed, 9 insertions(+), 2 deletions(-) + +diff --git a/src/topology-linux.c b/src/topology-linux.c +index 58c275fea..269eca7f5 100644 +--- a/src/topology-linux.c ++++ b/src/topology-linux.c +@@ -1,6 +1,6 @@ + /* + * Copyright © 2009 CNRS +- * Copyright © 2009-2019 Inria. All rights reserved. ++ * Copyright © 2009-2022 Inria. All rights reserved. + * Copyright © 2009-2013, 2015 Université Bordeaux + * Copyright © 2009-2014 Cisco Systems, Inc. All rights reserved. + * Copyright © 2015 Intel, Inc. All rights reserved. +@@ -2329,7 +2329,14 @@ hwloc_get_procfs_meminfo_info(struct hwloc_topology *topology, + + err = hwloc_stat("/sys/kernel/mm/hugepages", &st, data->root_fd); + if (!err) { +- types = 1 + st.st_nlink-2; ++ types = 1 /* normal non-huge size */ + st.st_nlink - 2 /* ignore . and .. */; ++ if (types < 3) ++ /* some buggy filesystems (e.g. btrfs when reading from fsroot) ++ * return wrong st_nlink for directories (always 1 for btrfs). ++ * use 3 as a sane default (default page + 2 huge sizes). ++ * hwloc_parse_hugepages_info() will extend it if needed. ++ */ ++ types = 3; + has_sysfs_hugepages = 1; + } + base-commit: 7409f246e2b0be9a2b3b6ae246385f3f197e5fbb -- 2.30.2 From debbugs-submit-bounces@debbugs.gnu.org Thu Apr 07 14:28:31 2022 Received: (at 54767) by debbugs.gnu.org; 7 Apr 2022 18:28:31 +0000 Received: from localhost ([127.0.0.1]:33380 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1ncWrv-0001JN-7k for submit@debbugs.gnu.org; Thu, 07 Apr 2022 14:28:31 -0400 Received: from laurent.telenet-ops.be ([195.130.137.89]:39534) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1ncWrt-0001JE-Do for 54767@debbugs.gnu.org; Thu, 07 Apr 2022 14:28:29 -0400 Received: from [192.168.174.254] ([188.189.131.219]) by laurent.telenet-ops.be with bizsmtp id FuUT2700F4kACEs01uUUlP; Thu, 07 Apr 2022 20:28:28 +0200 Message-ID: Subject: Re: [bug#54767] [PATCH] gnu: hwloc-1: Update to 1.11.13 and add upstream patch to fix a test From: Maxime Devos To: Philippe SWARTVAGHER , 54767@debbugs.gnu.org Date: Thu, 07 Apr 2022 20:28:27 +0200 In-Reply-To: <20220407153002.885065-1-philippe.swartvagher@inria.fr> References: <20220407153002.885065-1-philippe.swartvagher@inria.fr> Content-Type: multipart/signed; micalg="pgp-sha512"; protocol="application/pgp-signature"; boundary="=-btQtnBCKFy8ZxkBmzHXk" User-Agent: Evolution 3.38.3-1 MIME-Version: 1.0 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=telenet.be; s=r22; t=1649356108; bh=4iDsSaStYf1+1SKvWXVNl5QxjG4RMtre6jmjrkaa0yU=; h=Subject:From:To:Date:In-Reply-To:References; b=OLXT/6iZfnKqUR1cdbKWovOGoMyApvmVdraj+GqhqD24MmlQ/72icamWOVsvryje7 AV4GgUCPU2XnwFlaVMfG9HdeiavNsldGgjYlt4RaY7D27aDgIsc2cVNPVDV+yIsnV/ rCO6Ab3rYRJ7uo2K/kFXo35fvw0iZL45LyprspARK0AQxjatP/TNkaAY2IfymmLoVT hez89fUEM8ZnVjj4+IWCDUD+Za+pv0AYbqYwDjuamsMPpDEzOBRLN5DofWqXWV0gK3 q83q2q4PWr3j68ERZwep8FEU5ReqMS0Jma07WgMc2S1ltAsY6HprXvANsyV92V1dvL Yg0wu0IxaZXcg== X-Spam-Score: -0.0 (/) X-Debbugs-Envelope-To: 54767 X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) --=-btQtnBCKFy8ZxkBmzHXk Content-Type: text/plain; charset="UTF-8" Content-Transfer-Encoding: quoted-printable Philippe SWARTVAGHER schreef op do 07-04-2022 om 17:30 [+0200]: > +=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0= =C2=A0=C2=A0=C2=A0 `((release-monitoring-url #{.}# Why the #{ }#? The . is not a symbol, it tells the Scheme reader the surrounding 'release-monitoring-url' and "https://" form a pair. Greetings, Maxime. --=-btQtnBCKFy8ZxkBmzHXk Content-Type: application/pgp-signature; name="signature.asc" Content-Description: This is a digitally signed message part Content-Transfer-Encoding: 7bit -----BEGIN PGP SIGNATURE----- iI0EABYKADUWIQTB8z7iDFKP233XAR9J4+4iGRcl7gUCYk8tSxccbWF4aW1lZGV2 b3NAdGVsZW5ldC5iZQAKCRBJ4+4iGRcl7rWMAP9FU1Z5V+UQVUrGBaffDm55msOb pL43WMgLgiqf8H2MjQD/WamPuA/WvSWJM/YYYVsI1AJC0Ep8sBIIo9VX6OrAyQw= =5PyG -----END PGP SIGNATURE----- --=-btQtnBCKFy8ZxkBmzHXk-- From debbugs-submit-bounces@debbugs.gnu.org Thu Apr 07 14:29:47 2022 Received: (at 54767) by debbugs.gnu.org; 7 Apr 2022 18:29:48 +0000 Received: from localhost ([127.0.0.1]:33390 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1ncWt9-0001Lg-OQ for submit@debbugs.gnu.org; Thu, 07 Apr 2022 14:29:47 -0400 Received: from albert.telenet-ops.be ([195.130.137.90]:60454) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1ncWt8-0001LY-A4 for 54767@debbugs.gnu.org; Thu, 07 Apr 2022 14:29:46 -0400 Received: from [192.168.174.254] ([188.189.131.219]) by albert.telenet-ops.be with bizsmtp id FuVk270054kACEs06uVkAT; 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dmarc=fail (p=none dis=none) d=inria.fr X-IronPort-AV: E=Sophos;i="5.90,252,1643670000"; d="scan'208";a="11222098" Received: from 91-160-117-201.subs.proxad.net (HELO ribbon) ([91.160.117.201]) by mail3-relais-sop.national.inria.fr with ESMTP/TLS/ECDHE-RSA-AES256-GCM-SHA384; 11 Apr 2022 22:36:35 +0200 From: =?utf-8?Q?Ludovic_Court=C3=A8s?= To: Philippe SWARTVAGHER Subject: Re: bug#54767: [PATCH] gnu: hwloc-1: Update to 1.11.13 and add upstream patch to fix a test References: <20220407153002.885065-1-philippe.swartvagher@inria.fr> Date: Mon, 11 Apr 2022 22:36:34 +0200 In-Reply-To: <20220407153002.885065-1-philippe.swartvagher@inria.fr> (Philippe SWARTVAGHER's message of "Thu, 7 Apr 2022 17:30:02 +0200") Message-ID: <8735ijgxwt.fsf@gnu.org> User-Agent: Gnus/5.13 (Gnus v5.13) Emacs/27.2 (gnu/linux) MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: quoted-printable X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 54767 Cc: Maxime Devos , 54767@debbugs.gnu.org X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -3.3 (---) Hi, Philippe SWARTVAGHER skribis: > gnu/packages/mpi.scm (hwloc-1): > * Update to 1.11.13 > * Add upstream patch not in the release to fix one test on BTRFS filesyst= ems > * Use the target of the redirection in the source URL, as advised by `gui= x lint` > * Apply `guix style` I ended up pushing a variant of this, minus the =E2=80=98guix style=E2=80= =99 reindent, also taking Maxime=E2=80=99s suggestions into account: 649556ea09 gnu: hwloc: Remove trailing #t. ac2d36559f gnu: hwloc@1: Use 'target-arm32?' in conditional. d81d8b1258 gnu: hwloc: Remove input labels. 37fa61364e gnu: hwloc@1: Update to 1.11.13. Thanks, Ludo=E2=80=99. From debbugs-submit-bounces@debbugs.gnu.org Mon Apr 11 16:37:03 2022 Received: (at control) by debbugs.gnu.org; 11 Apr 2022 20:37:03 +0000 Received: from localhost ([127.0.0.1]:45854 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1ne0mV-00023F-2F for submit@debbugs.gnu.org; Mon, 11 Apr 2022 16:37:03 -0400 Received: from mail3-relais-sop.national.inria.fr ([192.134.164.104]:19437) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1ne0mT-00022e-Vl for control@debbugs.gnu.org; Mon, 11 Apr 2022 16:37:02 -0400 Authentication-Results: mail3-relais-sop.national.inria.fr; dkim=none (message not signed) header.i=none; spf=SoftFail smtp.mailfrom=ludo@gnu.org; dmarc=fail (p=none dis=none) d=gnu.org X-IronPort-AV: E=Sophos;i="5.90,252,1643670000"; d="scan'208";a="11222131" Received: from 91-160-117-201.subs.proxad.net (HELO ribbon) ([91.160.117.201]) by mail3-relais-sop.national.inria.fr with ESMTP/TLS/ECDHE-RSA-AES256-GCM-SHA384; 11 Apr 2022 22:36:56 +0200 Date: Mon, 11 Apr 2022 22:36:55 +0200 Message-Id: <871qy3gxw8.fsf@gnu.org> To: control@debbugs.gnu.org From: =?utf-8?Q?Ludovic_Court=C3=A8s?= Subject: control message for bug #54767 MIME-version: 1.0 Content-type: text/plain; charset=utf-8 Content-Transfer-Encoding: 8bit X-Spam-Score: -1.3 (-) X-Debbugs-Envelope-To: control X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -2.3 (--) close 54767 quit From unknown Sat Jun 14 03:46:52 2025 Received: (at fakecontrol) by fakecontrolmessage; To: internal_control@debbugs.gnu.org From: Debbugs Internal Request Subject: Internal Control Message-Id: bug archived. 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