From patchwork Mon Dec 12 14:27:01 2022 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Ricardo Wurmus X-Patchwork-Id: 45212 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 4969127BBEB; Mon, 12 Dec 2022 14:30:09 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-3.7 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_MSPIKE_H2,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 76F5027BBE9 for ; Mon, 12 Dec 2022 14:30:08 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1p4jms-0005b3-TJ; Mon, 12 Dec 2022 09:28:10 -0500 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 1p4jmm-0005TQ-EB for guix-patches@gnu.org; Mon, 12 Dec 2022 09:28:08 -0500 Received: from debbugs.gnu.org ([209.51.188.43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1p4jmm-0006Cq-5x for guix-patches@gnu.org; Mon, 12 Dec 2022 09:28:04 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1p4jmm-0007Uo-0x for guix-patches@gnu.org; Mon, 12 Dec 2022 09:28:04 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#60009] [PATCH 03/18] gnu: python-biopython: Update to 1.80. Resent-From: Ricardo Wurmus Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Mon, 12 Dec 2022 14:28:03 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 60009 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: To: 60009@debbugs.gnu.org Cc: Ricardo Wurmus Received: via spool by 60009-submit@debbugs.gnu.org id=B60009.167085525528667 (code B ref 60009); Mon, 12 Dec 2022 14:28:03 +0000 Received: (at 60009) by debbugs.gnu.org; 12 Dec 2022 14:27:35 +0000 Received: from localhost ([127.0.0.1]:53266 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p4jmJ-0007SJ-3r for submit@debbugs.gnu.org; Mon, 12 Dec 2022 09:27:35 -0500 Received: from sender4-of-o50.zoho.com ([136.143.188.50]:21050) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p4jmF-0007S4-5W for 60009@debbugs.gnu.org; Mon, 12 Dec 2022 09:27:31 -0500 ARC-Seal: i=1; a=rsa-sha256; t=1670855248; cv=none; d=zohomail.com; s=zohoarc; b=Qp/gLt56jAveMef7zkxstKBiWzjqkt+6vcUtvF4eff6VIU2iHC67a5Y20VjphByDKzmfig4LXYmPtOp02qKjcQA6bjSxq5c68cU1gCS6/45n0Imm4JSvAWfXa0D5PfqLoWshU8+LkX6dIuIgzOkTPryRwGzFe1HWidL5qL0ijTI= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zohomail.com; s=zohoarc; t=1670855248; h=Content-Transfer-Encoding:Cc:Date:From:In-Reply-To:MIME-Version:Message-ID:References:Subject:To; bh=is25P2xY+0AxoIz6qVGUWoyIjlQbpDXmeSm9/qHfEjc=; b=GDv7agSJggbV64lo8cegGXk9kdm9OeecfxqvLSldZ+qM3IKhJNF3pX4HUJLZvKI3kI4LxtLJGkVNIdjaUPVBLPqgSk0mqFWOQP4e7ohWTeNaagDeqNH3KCf/0qWDL1ZJHUaT36PH29ZxsgrI6v173ARKqhfAUJrwQjR+C5Nxpqg= ARC-Authentication-Results: i=1; mx.zohomail.com; dkim=pass header.i=elephly.net; spf=pass smtp.mailfrom=rekado@elephly.net; dmarc=pass header.from= DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; t=1670855248; s=zoho; d=elephly.net; i=rekado@elephly.net; h=From:From:To:To:Cc:Cc:Subject:Subject:Date:Date:Message-Id:Message-Id:In-Reply-To:References:MIME-Version:Content-Transfer-Encoding:Reply-To; bh=is25P2xY+0AxoIz6qVGUWoyIjlQbpDXmeSm9/qHfEjc=; b=GyHKX0gacXgdufKXeBCAB/4Sf379E//B4P2O+MBX7K4y+aBxe8IaxiH1XrRm2M3z O9rQH6LJAW8Nq4sxWLqRFcEpkBJb09bhybWdhLVF6Sxiwor+6hL0oGtcQjuK9EMB3gy B2+W2c24FgJmmYTIYr2cKoslJr/tV4S7k3ym6PFY= Received: from localhost (48-111-142-46.pool.kielnet.net [46.142.111.48]) by mx.zohomail.com with SMTPS id 1670855247087244.5819688862564; Mon, 12 Dec 2022 06:27:27 -0800 (PST) From: Ricardo Wurmus Date: Mon, 12 Dec 2022 15:27:01 +0100 Message-Id: <20221212142716.9460-3-rekado@elephly.net> X-Mailer: git-send-email 2.36.1 In-Reply-To: <20221212142716.9460-1-rekado@elephly.net> References: <87h6y03dkr.fsf@elephly.net> <20221212142716.9460-1-rekado@elephly.net> MIME-Version: 1.0 X-ZohoMailClient: External 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 * gnu/packages/bioinformatics.scm (python-biopython): Update to 1.80. [build-system]: Use pyproject-build-system. [arguments]: Remove trailing #T from build phase. --- gnu/packages/bioinformatics.scm | 10 +++++----- 1 file changed, 5 insertions(+), 5 deletions(-) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 207f3c3d28..52abe152ee 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -1237,21 +1237,21 @@ (define-public perl-bio-db-hts (define-public python-biopython (package (name "python-biopython") - (version "1.76") + (version "1.80") (source (origin (method url-fetch) ;; use PyPi rather than biopython.org to ease updating (uri (pypi-uri "biopython" version)) (sha256 (base32 - "0wlch9xpa0fpgjzyxi6jsfca6iakaq9a05927xg8vqnmvaccnwrq")))) - (build-system python-build-system) + "0hqf3jsxn2sphcx81fx7x3i69sarpjsi70fzw98f8rw7z2d5x02j")))) + (build-system pyproject-build-system) (arguments - `(#:phases + '(#:phases (modify-phases %standard-phases (add-before 'check 'set-home ;; Some tests require a home directory to be set. - (lambda _ (setenv "HOME" "/tmp") #t))))) + (lambda _ (setenv "HOME" "/tmp")))))) (propagated-inputs (list python-numpy)) (home-page "https://biopython.org/")