From patchwork Thu Mar 31 07:28:46 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: Arun Isaac X-Patchwork-Id: 38242 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 EF23A27BBEB; Thu, 31 Mar 2022 08:31:07 +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 A602427BBE9 for ; Thu, 31 Mar 2022 08:31:07 +0100 (BST) Received: from localhost ([::1]:55008 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1nZpGs-0007G5-N6 for patchwork@mira.cbaines.net; Thu, 31 Mar 2022 03:31:06 -0400 Received: from eggs.gnu.org ([209.51.188.92]:46788) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1nZpFs-0006kO-8D for guix-patches@gnu.org; Thu, 31 Mar 2022 03:30:04 -0400 Received: from debbugs.gnu.org ([209.51.188.43]:43750) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1nZpFr-00069B-UI for guix-patches@gnu.org; Thu, 31 Mar 2022 03:30:03 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1nZpFr-0004TU-Qz for guix-patches@gnu.org; Thu, 31 Mar 2022 03:30:03 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#54635] [PATCH v2 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: Thu, 31 Mar 2022 07:30:03 +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: Efraim Flashner , Maxime Devos Cc: 54635@debbugs.gnu.org, Arun Isaac Received: via spool by 54635-submit@debbugs.gnu.org id=B54635.164871175317086 (code B ref 54635); Thu, 31 Mar 2022 07:30:03 +0000 Received: (at 54635) by debbugs.gnu.org; 31 Mar 2022 07:29:13 +0000 Received: from localhost ([127.0.0.1]:37642 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nZpF3-0004RQ-5x for submit@debbugs.gnu.org; Thu, 31 Mar 2022 03:29:13 -0400 Received: from mugam.systemreboot.net ([139.59.75.54]:51820) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1nZpEw-0004Qe-DI for 54635@debbugs.gnu.org; Thu, 31 Mar 2022 03:29:09 -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=CbNvm1aWNQdexYMnf68JxgaUe4 zYW36IPVW+gvP/ysd005pGK7HtrCro6oqbwo7OGcHqUIoRjHm8X0XqCEHS0AvnqYUTgPVK51Qi86W cFrLmdSAlMtenJCSAIO5aQjHEWUWTdav7c4IruhQdd8i3QvtqnTkOLD11f8Os6e//xG2us0Ygxi9L I4tgx9M8QTWmTymdO387Re/EKEfYDN/vhWqwn0ADtJqlS3k6rlQBuRfVb4VWsjMGxg9kSo8PRPjV1 jC5sHdCJ5hcWZrgcmcFkhJO7WsRX6THI2xNOUoBsyiVrrg3a6oJv2LCQsyhrlcGU7YamdX3s8THrA Dih0G6Zw==; Received: from [192.168.2.1] (port=47376 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 1nZpEh-000V88-Nt; Thu, 31 Mar 2022 12:58:51 +0530 From: Arun Isaac Date: Thu, 31 Mar 2022 12:58:46 +0530 Message-Id: <20220331072849.22417-2-arunisaac@systemreboot.net> X-Mailer: git-send-email 2.34.0 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" 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))