From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: from mp10.migadu.com ([2001:41d0:2:bcc0::]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) by ms0.migadu.com with LMTPS id eL6bCsBYRWLDLAEAgWs5BA (envelope-from ) for ; Thu, 31 Mar 2022 09:31:12 +0200 Received: from aspmx1.migadu.com ([2001:41d0:2:bcc0::]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) by mp10.migadu.com with LMTPS id IAM5A8BYRWLuFwEAG6o9tA (envelope-from ) for ; Thu, 31 Mar 2022 09:31:12 +0200 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by aspmx1.migadu.com (Postfix) with ESMTPS id B76261010C for ; Thu, 31 Mar 2022 09:31:10 +0200 (CEST) Received: from localhost ([::1]:55008 helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1nZpGv-0007G5-UM for larch@yhetil.org; Thu, 31 Mar 2022 03:31:09 -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 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit 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+larch=yhetil.org@gnu.org Sender: "Guix-patches" X-Migadu-Flow: FLOW_IN X-Migadu-To: larch@yhetil.org X-Migadu-Country: US ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=yhetil.org; s=key1; t=1648711870; h=from:from:sender:sender:reply-to:subject:subject:date:date: message-id:message-id:to:to:cc:cc:mime-version:mime-version: content-type:content-type: content-transfer-encoding:content-transfer-encoding:resent-cc: resent-from:resent-sender:resent-message-id:in-reply-to:in-reply-to: references:references:list-id:list-help:list-unsubscribe: list-subscribe:list-post:dkim-signature; bh=7vNXv7lUJiAVR/n2OTfZzpM62iwa6YV6yQWykxxu3s4=; b=jDLbBxZIXykBX0bupxh9xRoo9Yhe/uu1MzMEgzPhdLhGrmac5v6SjbL1ol0xLufmhJrs4e Wez+D+0oh/gZtgsMjkjsD8f7+1V7TbgSyk5E2b91TAXAULOmn7ZJPAg4dnHAtKO6L/pNtQ lDPSjkyVUnYVVuvZKBuBJI6R6R/ydQ4oIIS5QtqCehNueb46iKUDCjnaCAbJai8UGV4JnI IrDykoHqFiNvh73PxdZNZ2dmDDPLVlvkBf2NX9iSlyQreg0w0hMiU+ayKr6bi7toRV9IFL +JohI+cw3VczJO2+wpRDvp0pkFIZwMc5GEFXOj3ABf3VtHy3sux46QPhEck9Dw== ARC-Seal: i=1; s=key1; d=yhetil.org; t=1648711870; a=rsa-sha256; cv=none; b=KnRrm8LoKXd3eEO/uOyj1n1J85sjUhwfhHpeJpa0I1zeq7oCyq99jwgnw9LkGNDlbthacz leLvALSoK4GcwEFzgcfvC0xIpts1hUDwMlyZ9qJ3M2K9GpEFfRQTO4+hLV2IupD64T4gAz dCSTtcPjmClqd/Ny9getXc1G4cKDSBFCoItxwNnQ4mAkF0RB+z47Zmw0JOIh8ZrHyMXc7f GQgt7e1L03eC313nWcjwy9ClBXpqsfFnKexQekY07vgqCAbfyoDnIwdXbKZwoFQ/moidwv Qr54FBOf375Hq1b8veatcoca78i6LhNHJ9u/bROxAJXd9MUIx6hr704M44AyPg== ARC-Authentication-Results: i=1; aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=systemreboot.net header.s=default header.b=CbNvm1aW; dmarc=fail reason="SPF not aligned (relaxed)" header.from=systemreboot.net (policy=none); spf=pass (aspmx1.migadu.com: domain of "guix-patches-bounces+larch=yhetil.org@gnu.org" designates 209.51.188.17 as permitted sender) smtp.mailfrom="guix-patches-bounces+larch=yhetil.org@gnu.org" X-Migadu-Spam-Score: 6.93 Authentication-Results: aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=systemreboot.net header.s=default header.b=CbNvm1aW; dmarc=fail reason="SPF not aligned (relaxed)" header.from=systemreboot.net (policy=none); spf=pass (aspmx1.migadu.com: domain of "guix-patches-bounces+larch=yhetil.org@gnu.org" designates 209.51.188.17 as permitted sender) smtp.mailfrom="guix-patches-bounces+larch=yhetil.org@gnu.org" X-Migadu-Queue-Id: B76261010C X-Spam-Score: 6.93 X-Migadu-Scanner: scn1.migadu.com X-TUID: SYGqKdPDp1w8 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)) -- 2.34.0