From patchwork Tue Jan 17 17:30:38 2023 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: Simon Tournier X-Patchwork-Id: 46229 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 4299527BBED; Tue, 17 Jan 2023 17:31:24 +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_ADSP_CUSTOM_MED, DKIM_INVALID,DKIM_SIGNED,FREEMAIL_FROM,MAILING_LIST_MULTI, RCVD_IN_MSPIKE_H2,SPF_HELO_PASS 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 98C3D27BBE9 for ; Tue, 17 Jan 2023 17:31:23 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1pHpnb-0003ra-TQ; Tue, 17 Jan 2023 12:31:03 -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 1pHpna-0003qB-4A for guix-patches@gnu.org; Tue, 17 Jan 2023 12:31:02 -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 1pHpnZ-0007qA-Oc for guix-patches@gnu.org; Tue, 17 Jan 2023 12:31:01 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1pHpnZ-0002Rg-KA for guix-patches@gnu.org; Tue, 17 Jan 2023 12:31:01 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#60885] [PATCH 1/4] gnu: Add python-vireosnp. References: <20230117172650.1849207-1-zimon.toutoune@gmail.com> In-Reply-To: <20230117172650.1849207-1-zimon.toutoune@gmail.com> Resent-From: Simon Tournier Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 17 Jan 2023 17:31:01 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 60885 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 60885@debbugs.gnu.org Cc: Simon Tournier Received: via spool by 60885-submit@debbugs.gnu.org id=B60885.16739766559361 (code B ref 60885); Tue, 17 Jan 2023 17:31:01 +0000 Received: (at 60885) by debbugs.gnu.org; 17 Jan 2023 17:30:55 +0000 Received: from localhost ([127.0.0.1]:38128 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pHpnT-0002Qu-DE for submit@debbugs.gnu.org; Tue, 17 Jan 2023 12:30:55 -0500 Received: from mail-wm1-f50.google.com ([209.85.128.50]:53221) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pHpnR-0002QS-IX for 60885@debbugs.gnu.org; Tue, 17 Jan 2023 12:30:53 -0500 Received: by mail-wm1-f50.google.com with SMTP id k16so2222210wms.2 for <60885@debbugs.gnu.org>; Tue, 17 Jan 2023 09:30:53 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20210112; h=content-transfer-encoding:mime-version:message-id:date:subject:cc :to:from:from:to:cc:subject:date:message-id:reply-to; bh=lVLm3ddftblMTbpRAtwmVsQp3PzpYgcJYRPggL1e4Zc=; b=qt+X9Z+67CM/1qEhD97ciG6wsYzWrJTVje+J8rNMSdVUAuB2X+qSU6UNhTOd8b1BsL 092FPgjNVQC1fqrVmcF9Mx/i92l8VDkT7W4vr0oj+nZCuX2iIs+6sLcuO1sFJN5Wd2TS bMv2vlYrVIPmZq2xeaxrVIkNgmeaVk2dxk1rgWdheNdkDtgxCz8vbiNj92lTBpZzfUb5 /RWd3Nwh4Ty0Wr3TtsZ30AXPYmnyp4sc1wsSlACnzVIwh8iFJMAcD+n8Rbjn/ND3dla5 KI74t+16CSZci9SGHPgGz1DGkQ/SWtMbtnNVr5FNPREDhPs5TntNa9gOMQRI4DTNO4sh sgtg== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20210112; h=content-transfer-encoding:mime-version:message-id:date:subject:cc :to:from:x-gm-message-state:from:to:cc:subject:date:message-id :reply-to; bh=lVLm3ddftblMTbpRAtwmVsQp3PzpYgcJYRPggL1e4Zc=; b=INXn3Pr3X0NZD1BUVcjNal5gLO5yJQvRClzYOv+ctxMNzTeNcMXmu5a5bONZ0E9p0v 4qKqxnbP5aoS09qpIeiONIr3kB1oR2vEYHzwfyj+lFiRc4VHJxgRRfkkVNgn2Sl5sl0E 8EQwvjqLWtq4ocfLfNkN7sWkRNYIqWsiTsePA4zLXFwwIHLaSAOpV24zSpqE1WV2Hnvs R+AP97Kvc/A4bTBRAmNDj10FLQBg1UibUEAK2KC6Nk4N1gjIaMX6O4YVQQgdOmYDLlSx vStp1JvddEMQWM1jjL33G5RDXjVUgpurRrm5XtegsXRZ4dYL6AVsIhzNO+uS8TzGyN0Y n3Gw== X-Gm-Message-State: AFqh2kpTrXXtHTmzEBA5fV4jC9Nr5p7dg1o+OZ+IVrO+eKNetd/52mxA I2ElIaLtg7Yb76oZMR488iD9IDDnQKs= X-Google-Smtp-Source: AMrXdXupNulyP7MHnAtILB5Zd8LdsoI3/BAc/DhAbr6WHDQ3egxwdOeKpRlBHDiALftY5Dn1Kb26rQ== X-Received: by 2002:a7b:c849:0:b0:3db:303:2724 with SMTP id c9-20020a7bc849000000b003db03032724mr983060wml.1.1673976647595; Tue, 17 Jan 2023 09:30:47 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id t12-20020a05600c198c00b003d9de0c39fasm47637107wmq.36.2023.01.17.09.30.47 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 17 Jan 2023 09:30:47 -0800 (PST) From: Simon Tournier Date: Tue, 17 Jan 2023 18:30:38 +0100 Message-Id: <20230117173041.1851206-1-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.38.1 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-bounces+patchwork=mira.cbaines.net@gnu.org X-getmail-retrieved-from-mailbox: Patches * gnu/packages/bioinformatics.scm (python-vireosnp): New variable. --- gnu/packages/bioinformatics.scm | 22 ++++++++++++++++++++++ 1 file changed, 22 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index e60dffc21e..5fc2d18690 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -17604,6 +17604,28 @@ (define-public r-kbet ;; Any version of the GPL (license license:gpl3+)))) +(define-public python-vireosnp + (package + (name "python-vireosnp") + (version "0.5.7") + (source (origin + (method url-fetch) + (uri (pypi-uri "vireoSNP" version)) + (sha256 + (base32 + "02ybhzivsxwnb1axlgbs63wni1j27xajnkl4jw1ps5vmsz2l4b0d")))) + (build-system python-build-system) + (propagated-inputs (list python-matplotlib python-numpy python-scipy)) + (home-page "https://github.com/huangyh09/vireoSNP") + (synopsis "Deconvolution based on SNP for multiplexed scRNA-seq data") + (description + "This package provides a deconvolution based on Single Nucleotide +Position (SNP) for multiplexed scRNA-seq data. The name vireo stand for +Variational Inference for Reconstructing Ensemble Origin by expressed SNPs in +multiplexed scRNA-seq data and follows the clone identification from +single-cell data named @url{https://github.com/PMBio/cardelino, cardelino}.") + (license license:asl2.0))) + (define-public ccwl (package (name "ccwl")