From patchwork Wed Mar 30 09:23:10 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: Arun Isaac X-Patchwork-Id: 38215 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 4733527BBE9; Wed, 30 Mar 2022 10:24:53 +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=-2.7 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,SPF_HELO_PASS,URIBL_BLOCKED autolearn=unavailable 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 1FE1F27BBEB for ; Wed, 30 Mar 2022 10:24:50 +0100 (BST) Received: from localhost ([::1]:57694 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1nZUZN-0007sB-8N for patchwork@mira.cbaines.net; Wed, 30 Mar 2022 05:24:49 -0400 Received: from eggs.gnu.org ([209.51.188.92]:56638) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1nZUYc-0007pK-7S for guix-patches@gnu.org; Wed, 30 Mar 2022 05:24:02 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:40608) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1nZUYb-0000So-UD for guix-patches@gnu.org; Wed, 30 Mar 2022 05:24:01 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1nZUYb-00013f-LC for guix-patches@gnu.org; Wed, 30 Mar 2022 05:24:01 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#54635] [PATCH 2/5] gnu: htslib: Add bzip2 and xz to inputs. Resent-From: Arun Isaac Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Wed, 30 Mar 2022 09:24:01 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 54635 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 54635@debbugs.gnu.org Cc: Arun Isaac , Efraim Flashner Received: via spool by 54635-submit@debbugs.gnu.org id=B54635.16486322003962 (code B ref 54635); Wed, 30 Mar 2022 09:24:01 +0000 Received: (at 54635) by debbugs.gnu.org; 30 Mar 2022 09:23:20 +0000 Received: from localhost ([127.0.0.1]:34494 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nZUXv-00011p-Tj for submit@debbugs.gnu.org; Wed, 30 Mar 2022 05:23:20 -0400 Received: from mugam.systemreboot.net ([139.59.75.54]:51800) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nZUXt-00011a-KN for 54635@debbugs.gnu.org; Wed, 30 Mar 2022 05:23:18 -0400 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=systemreboot.net; s=default; h=Content-Transfer-Encoding:Content-Type: MIME-Version:References:In-Reply-To:Message-Id:Date:Subject:Cc:To:From:Sender :Reply-To:Content-ID:Content-Description:Resent-Date:Resent-From: Resent-Sender:Resent-To:Resent-Cc:Resent-Message-ID:List-Id:List-Help: List-Unsubscribe:List-Subscribe:List-Post:List-Owner:List-Archive; bh=7vNXv7lUJiAVR/n2OTfZzpM62iwa6YV6yQWykxxu3s4=; b=e7L6oB/p82yrwnFkgBXe8iXkum ohElwS/tpMjHo9veEEx6B3Exzi26vY4P8rJT8Vhml/Uj8cpVh9z5S0ErXH9mTSKuzShDX6kKSDmcH TfXMcn4qqIssWvkPUILAYTl+KtBYC/FCaz7oaSR9HIoj+rLG4TYQtqrzs7Y1Op68/eq7Ft0IoYuL4 wq8/hapf4iiY3EIbAhDuQuBs5YPMX9WdpGFJtJDcb5zQ/l9FNrO7CyjbofZc/zU4pOfMGIR9XMim5 gIP15CA/98VX2gljjajgNlHBC3Q9DAg+E76FqShGlqr7RyuR6hZc93+xluJF/XHiJI6tFOoi9FW4X NvSlAohQ==; Received: from [192.168.2.1] (port=6582 helo=localhost.localdomain) by systemreboot.net with esmtpsa (TLS1.3) tls TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384 (Exim 4.95) (envelope-from ) id 1nZUXq-000T5d-QQ; Wed, 30 Mar 2022 14:53:14 +0530 From: Arun Isaac Date: Wed, 30 Mar 2022 14:53:10 +0530 Message-Id: <20220330092313.23584-2-arunisaac@systemreboot.net> X-Mailer: git-send-email 2.34.0 In-Reply-To: <20220330092313.23584-1-arunisaac@systemreboot.net> References: <20220330092313.23584-1-arunisaac@systemreboot.net> 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" X-getmail-retrieved-from-mailbox: Patches htslib links to libbz2 from bzip2 and liblzma from xz. Therefore, bzip2 and xz should be listed in inputs even though they are already present implicitly in native-inputs. Else, cross-compilation will fail. * gnu/packages/bioinformatics.scm (htslib)[inputs]: Add bzip2 and xz. --- gnu/packages/bioinformatics.scm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 4e1028b3ce..2f6f3efb66 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -8,7 +8,7 @@ ;;; Copyright © 2016, 2020, 2022 Marius Bakke ;;; Copyright © 2016, 2018 Raoul Bonnal ;;; Copyright © 2017, 2018 Tobias Geerinckx-Rice -;;; Copyright © 2017, 2021 Arun Isaac +;;; Copyright © 2017, 2021, 2022 Arun Isaac ;;; Copyright © 2018 Joshua Sierles, Nextjournal ;;; Copyright © 2018 Gábor Boskovits ;;; Copyright © 2018, 2019, 2020, 2021 Mădălin Ionel Patrașcu @@ -4788,7 +4788,7 @@ (define-public htslib "--enable-libcurl" "--enable-s3"))) (inputs - (list curl openssl)) + (list bzip2 curl openssl xz)) ;; This is referred to in the pkg-config file as a required library. (propagated-inputs (list zlib))