From patchwork Mon Apr 14 17:07:56 2025 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: David Elsing X-Patchwork-Id: 2926 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id 9FA8627BC4B; Mon, 14 Apr 2025 18:09:25 +0100 (BST) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-6.4 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_DNSWL_BLOCKED, RCVD_IN_VALIDITY_CERTIFIED,RCVD_IN_VALIDITY_RPBL,RCVD_IN_VALIDITY_SAFE, SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 118EB27BC49 for ; Mon, 14 Apr 2025 18:09:24 +0100 (BST) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1u4NJ3-0000qE-I8; Mon, 14 Apr 2025 13:09:13 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1u4NIu-0000pX-N6 for guix-patches@gnu.org; Mon, 14 Apr 2025 13:09:06 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1u4NIu-0003gl-8T for guix-patches@gnu.org; Mon, 14 Apr 2025 13:09:04 -0400 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=debbugs.gnu.org; s=debbugs-gnu-org; h=MIME-Version:References:In-Reply-To:Date:From:To:Subject; bh=gtPsYkiPZw9i1+0fpaDuyBpqj+N1KtLgHBY0PB+lzXM=; b=lBirh6t3L+q8TcqxjzHXJyKZLNxbXdAnqHdZwr7O59jTJwqkUInLCMocu9K9tGPAZhHHuDbQAVCTNJ2EUFngZiZ6lrl9A6Ccd3yutzdgO44jLzpw0zvTPk7F1KQENge1kQo4f5XSMpJ0utQKdB1uFE2e2UMPkk8ZswHOjUOa7RL4NWz27aIfktAqWtV+W7yoXi5WaYl/Sm8lUseYRad0+vPhkQSpkcUI/ggllT57F6uQq1d71gJ5Xe3OOlMjqW/ZFQBgE11a2pHwhtAYiyWMhJO+wZlqRh0nvIJvNqPoUvWJxoEdgCy2yXtVvk/5DS9GSvq1hyIlkmUfP23/25j9iw==; Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1u4NIs-0007AO-Ei for guix-patches@gnu.org; Mon, 14 Apr 2025 13:09:02 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#77590] [PATCH v4 0/5] Update hdf5 to 1.14.6, fix wrappers and remove generated source files. Resent-From: David Elsing Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Mon, 14 Apr 2025 17:09:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 77590 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 77590@debbugs.gnu.org Cc: David Elsing , andreas@enge.fr Received: via spool by 77590-submit@debbugs.gnu.org id=B77590.174465051827509 (code B ref 77590); Mon, 14 Apr 2025 17:09:02 +0000 Received: (at 77590) by debbugs.gnu.org; 14 Apr 2025 17:08:38 +0000 Received: from localhost ([127.0.0.1]:48735 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1u4NIT-00079c-PW for submit@debbugs.gnu.org; Mon, 14 Apr 2025 13:08:38 -0400 Received: from mout01.posteo.de ([185.67.36.65]:39355) by debbugs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.84_2) (envelope-from ) id 1u4NIQ-00079I-40 for 77590@debbugs.gnu.org; Mon, 14 Apr 2025 13:08:35 -0400 Received: from submission (posteo.de [185.67.36.169]) by mout01.posteo.de (Postfix) with ESMTPS id CA87B240027 for <77590@debbugs.gnu.org>; Mon, 14 Apr 2025 19:08:24 +0200 (CEST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=posteo.net; s=2017; t=1744650505; bh=wGZj0gTSKbRHTeR2f/HYMmvou88lLIaPPO3ZMjtJX5g=; h=From:To:Cc:Subject:Date:Message-ID:MIME-Version: Content-Transfer-Encoding:From; b=Ilp5wMS6r3fuoFpQ+sjf648V+OzXGNUABvQGti7zFDZGZ/Jb7R/EToJKqT/ublTgp IPuZwLeu9vMPXYzotIoVSwoQqanMCEP78sL3LQBvFTOQGpEud5EKl0EWhsY/VTKx8y 36KISK7BFgvlTX6uK0XI8252hcHilkFahmzpXNqRW2+lL9dYj2s/2iTadHOhIafzCa 2V/9YB5lsOBHY0e6erAiXoQdabmAEBGH/B6c+yHa7PrHXxnms9yDHjrPadt97K5y9B gAhpHxMEUws5MyjW/P6eKgIL1ZBMSBNN7qwz1UOO7Yh4Jw7tYqUGBmqd5lE7jef3uJ xoGWHsxOvJ8Qw== Received: from customer (localhost [127.0.0.1]) by submission (posteo.de) with ESMTPSA id 4ZbtzC5CqTz6tyf; Mon, 14 Apr 2025 19:08:23 +0200 (CEST) From: David Elsing Date: Mon, 14 Apr 2025 17:07:56 +0000 Message-ID: In-Reply-To: References: MIME-Version: 1.0 X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org X-getmail-retrieved-from-mailbox: Patches I fixed the build of the reported new failures (hdf5-parallel-openmpi, insight-toolkit (all versions), itk-snap, netcdf-fortran and satdump) for x86_64-linux. For satdump, the issue was that because now the hdf5 installation is detected, an optional plugin is built, which has an incomplete RUNPATH. Also, I set the correct "-DHDF5_ENABLE_THREADSAFE=ON" flag and added some missing inputs. David Elsing (5): gnu: hdf5: Update to 1.14.6. gnu: hdf-java: Update to 1.14.6 and rename to hdf5-java. gnu: netcdf: Fix test. gnu: netcdf-fortran: Add missing inputs. gnu: satdump: Fix RUNPATH for a plugin. gnu/local.mk | 1 + gnu/packages/maths.scm | 314 ++++++++++++------ .../patches/hdf5-config-dependencies.patch | 31 ++ gnu/packages/radio.scm | 17 +- 4 files changed, 254 insertions(+), 109 deletions(-) create mode 100644 gnu/packages/patches/hdf5-config-dependencies.patch