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Resent-From: Marius Bakke Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Mon, 17 Oct 2022 20:13:05 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 58587 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 58587@debbugs.gnu.org Received: via spool by 58587-submit@debbugs.gnu.org id=B58587.166603754528245 (code B ref 58587); Mon, 17 Oct 2022 20:13:05 +0000 Received: (at 58587) by debbugs.gnu.org; 17 Oct 2022 20:12:25 +0000 Received: from localhost ([127.0.0.1]:50135 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1okWTI-0007LO-Th for submit@debbugs.gnu.org; Mon, 17 Oct 2022 16:12:25 -0400 Received: from eggs.gnu.org ([209.51.188.92]:49518) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1okWTF-0007KS-9O for 58587@debbugs.gnu.org; Mon, 17 Oct 2022 16:12:22 -0400 Received: from fencepost.gnu.org ([2001:470:142:3::e]:51252) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1okWT8-0002DR-Ja for 58587@debbugs.gnu.org; Mon, 17 Oct 2022 16:12:14 -0400 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=gnu.org; s=fencepost-gnu-org; h=MIME-Version:References:In-Reply-To:Date:Subject:To: From; bh=GJEyjFVjDOSDLaNg7FYY8NKuh0hVe3tcRl8rQQG5NtQ=; b=L3sg34qs4y8ba07LgNmB Ng0pDE2+0mBD7TVVsXyqnYYtRkRgeb1AEfCzVWi/s9cCAkSlRGif4HPYq99giJDO8+lq1EQ+TKk0Z bTPXttgZhh2xQGpvZzziHw8eUrWABESSIJTQI9gd9P6BHVUbq4GKtkj1odJwhphtmHCsLG03j7l+M oZpyGJT+sYZUmtS6fEubrySk2U2gtA8rfC7XpAKHfqlnYaRbwe4PE3jBMJslEXW7rebCu0cmYCBEw G1NFf6VlyXSuIXAvG9CwVmMA0Ko64kx30BftbkN9KVrkwIM/tAXW1ZaoZsNGhg2Um9IIfK4oKL/00 muAGSXj/1TwsOw==; Received: from [84.211.203.64] (port=33092 helo=localhost) by fencepost.gnu.org with esmtpsa (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1okWT7-00050Q-OU for 58587@debbugs.gnu.org; Mon, 17 Oct 2022 16:12:14 -0400 From: Marius Bakke Date: Mon, 17 Oct 2022 22:11:53 +0200 Message-Id: <20221017201201.4808-6-marius@gnu.org> X-Mailer: git-send-email 2.38.0 In-Reply-To: <20221017201201.4808-1-marius@gnu.org> References: <20221017200624.4076-1-marius@gnu.org> <20221017201201.4808-1-marius@gnu.org> MIME-Version: 1.0 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-Country: US ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=yhetil.org; s=key1; t=1666037625; h=from:from:sender:sender:reply-to:subject:subject:date:date: message-id:message-id:to:to:cc:mime-version:mime-version: 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=GJEyjFVjDOSDLaNg7FYY8NKuh0hVe3tcRl8rQQG5NtQ=; b=XD9vvzfXC9ABWQhWqfnVL5o7y/+uOmr1wSrv/VT9jZQH+E+Yg2zXR+ALqSbZMjNygQCWOo rbC7t4vTIOHEWptFKdJixm65dkxkQzh53PjcMdxIS3bibnoab8UBom2+cHIhQyxh+J+meD GItsH56fqjYYWGNMe4OgYe3DdlQVtaTcxUV8Od511XgSMqRU9l6FBj6sndzIQpo5piCCxm GQLE/FT4YjPJ6YS+Mvxb3qvnX1zeDhXpzclIHOtd1gSQXd8ryxRMqITbAp5mov8j6gFi/E y6KCJMBHbT9MTH+RFGiTf+DKrEN7o4mLRicJm1b8tWBu0W4XrbM0OJBL1UZlFQ== ARC-Seal: i=1; s=key1; d=yhetil.org; t=1666037625; a=rsa-sha256; cv=none; b=I2bUiZeJb4whERq+iakHKKIrOFUzcHa91cti0TuCVd7HcxO0+9P0epzX+johhX333/sTGh efmEqo29o/i76ePgkYbueHnVa8slrBc7KmlgAUFFmyjIgq/m5HCFnkarwHlTlXrsgMlUCN w8HXfPSgNYDVonpxU8cOlkLSrlbPj3GsFaE+tLFBId4mMpOamSEjqBj8XSuwbORp7Z5QHL cdUXl3LoLMgud7QCMOcQvX3I7XT61kW5ddADiFCmXc6/sRDRYzWvFcTz9cQ9RttjKAUnxB sO8zWJG6vQbQ3QjT1XTQCe5ROltnMzg9o3c6YH1spZoIS9AiKLv4sadcohCTtw== ARC-Authentication-Results: i=1; aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=gnu.org header.s=fencepost-gnu-org header.b=L3sg34qs; dmarc=pass (policy=none) header.from=gnu.org; 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: -1.72 Authentication-Results: aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=gnu.org header.s=fencepost-gnu-org header.b=L3sg34qs; dmarc=pass (policy=none) header.from=gnu.org; 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: 062218B34 X-Spam-Score: -1.72 X-Migadu-Scanner: scn0.migadu.com X-TUID: asoZ/BUFj7rh * gnu/packages/bioinformatics.scm (flair)[build-system]: Switch to PYPROJECT-BUILD-SYSTEM. [arguments]: Remove #:phases. [native-inputs]: Remove. --- gnu/packages/bioinformatics.scm | 23 +++-------------------- 1 file changed, 3 insertions(+), 20 deletions(-) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index f2de09aa32..3588f4e3fd 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -56,6 +56,7 @@ (define-module (gnu packages bioinformatics) #:use-module (guix build-system meson) #:use-module (guix build-system ocaml) #:use-module (guix build-system perl) + #:use-module (guix build-system pyproject) #:use-module (guix build-system python) #:use-module (guix build-system qt) #:use-module (guix build-system r) @@ -16928,33 +16929,15 @@ (define-public flair (sha256 (base32 "106swb2q7l20ki58fca1hg95q5f79bgp9gjb0clr2243ycrzyxf8")))) - (build-system python-build-system) + (build-system pyproject-build-system) (arguments - (list - #:tests? #false ;there are none - #:phases - #~(modify-phases %standard-phases - ;; TODO: implement as a feature of python-build-system (PEP-621, - ;; PEP-631, PEP-660) - (replace 'build - (lambda _ - (setenv "SETUPTOOLS_SCM_PRETEND_VERSION" #$version) - ;; ZIP does not support timestamps before 1980. - (setenv "SOURCE_DATE_EPOCH" "315532800") - (invoke "python" "-m" "build" "--wheel" "--no-isolation" "."))) - (replace 'install - (lambda _ - (apply invoke "pip" "--no-cache-dir" "--no-input" - "install" "--no-deps" "--prefix" #$output - (find-files "dist" "\\.whl$"))))))) + (list #:tests? #false)) ;there are none (propagated-inputs (list python-mappy python-ncls python-pybedtools python-pysam python-tqdm)) - (native-inputs - (list python-pypa-build python-setuptools)) (home-page "https://flair.readthedocs.io/en/latest/") (synopsis "Full-length alternative isoform analysis of RNA") (description "This package implements FLAIR (Full-Length Alternative -- 2.38.0