From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: from mp11.migadu.com ([2001:41d0:2:4a6f::]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) by ms5.migadu.com with LMTPS id EBnqCmzbxmMZHgAAbAwnHQ (envelope-from ) for ; Tue, 17 Jan 2023 18:31:24 +0100 Received: from aspmx1.migadu.com ([2001:41d0:2:4a6f::]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits)) by mp11.migadu.com with LMTPS id 6N7YCmzbxmN5cgEA9RJhRA (envelope-from ) for ; Tue, 17 Jan 2023 18:31:24 +0100 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 B92FD2B3FA for ; Tue, 17 Jan 2023 18:31:23 +0100 (CET) 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 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-bounces+larch=yhetil.org@gnu.org X-Migadu-Country: US X-Migadu-Flow: FLOW_IN ARC-Authentication-Results: i=1; aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=gmail.com header.s=20210112 header.b=qt+X9Z+6; 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"; dmarc=fail reason="SPF not aligned (relaxed)" header.from=gmail.com (policy=none) ARC-Seal: i=1; s=key1; d=yhetil.org; t=1673976683; a=rsa-sha256; cv=none; b=gFUWpzE52BDCYWb+lvsagOts/S+EMHCpDezGOdyvxDGQK5Vc2lUqI9djbdfNe/JKx20qzN OEwDayeYDHz7r7ydIbvF1fjQR2B7Ol8l6+189yMl9W6369byAxzBgq26SOEkJQ3VYM/v1K As16s6NkacvuNkghIei1AsCr4g3Jmjx7rdNhDcFHNdlIpZC1NniVUgvoVKEGZmQ4p5RgBU ZxQnGGZz0L069oxx+vsrLrJDCf7L8PaeJYQM7svVUTCi2mNHivd39LW4zAiyP5eBCUKkZg BbTbT30xFWJgXaZ4CNebD26XSDw6oRowDBZ5HwlaAzq6OpUSjpYWFoyS4HlRlQ== ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=yhetil.org; s=key1; t=1673976683; h=from:from:sender:sender:reply-to:subject:subject:date:date: message-id:message-id:to:to:cc: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=lVLm3ddftblMTbpRAtwmVsQp3PzpYgcJYRPggL1e4Zc=; b=TJq1WlAHxLP4+HK6MG9XLN8Ga1kVLCp9lb3ARt5/x1O2UVqPjtpR8UK2bzse08EsO2zKeM zuopmrBigy2aNKPY6gYBFjRTgmgaxiQM6bbE5ty53ji1r2ABvPPq5cbmP1fXHvPUkdh27O keiY68M/dQQH2Cv6lbWy2AwHzOfu+M/5zw4fwgzk5B+snR4pAjobAJO+p+FJDvGmpEkJWu W41dzOmr+0OyjdIOoPmqP74A8lorBZbd9rb3x46+B21896a3DZkhrhTBBk7O0fPL8a5h6c p5wQX+1KhwnYt8EAI3qTluPMaQKRVPLL25+WryPDOmftG657BmGfFOvUIv3Pcg== Authentication-Results: aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=gmail.com header.s=20210112 header.b=qt+X9Z+6; 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"; dmarc=fail reason="SPF not aligned (relaxed)" header.from=gmail.com (policy=none) X-Migadu-Spam-Score: -1.53 X-Spam-Score: -1.53 X-Migadu-Queue-Id: B92FD2B3FA X-Migadu-Scanner: scn1.migadu.com X-TUID: Z/DDC4jO/DAA * 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") -- 2.38.1