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Resent-From: Navid Afkhami Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Thu, 02 Feb 2023 16:01:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: report 61229 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 61229@debbugs.gnu.org X-Debbugs-Original-To: Received: via spool by submit@debbugs.gnu.org id=B.167535365026421 (code B ref -1); Thu, 02 Feb 2023 16:01:02 +0000 Received: (at submit) by debbugs.gnu.org; 2 Feb 2023 16:00:50 +0000 Received: from localhost ([127.0.0.1]:35550 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pNc13-0006s4-Si for submit@debbugs.gnu.org; Thu, 02 Feb 2023 11:00:50 -0500 Received: from lists.gnu.org ([209.51.188.17]:33484) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pNc12-0006rr-5P for submit@debbugs.gnu.org; Thu, 02 Feb 2023 11:00:48 -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 1pNc11-0004Eu-NV for guix-patches@gnu.org; Thu, 02 Feb 2023 11:00:47 -0500 Received: from b2062.mx.srv.dfn.de ([194.95.234.172]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1pNc0y-0001CZ-FO for guix-patches@gnu.org; Thu, 02 Feb 2023 11:00:47 -0500 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= content-type:content-type:content-transfer-encoding:mime-version :references:in-reply-to:x-mailer:message-id:date:date:subject :subject:from:from:received; s=mdc; t=1675353640; x=1677168041; bh=5M5kJhV6y7H+hteBNJWZ1vEp7iYfMNMyizTf8viYjlc=; b=aefyvNj1pj2J eDfphXU20UhxYEnhAvlURxFL65AY4HB+rbL6Eu3bwj3LdLveE98pSpe7idcFEPew 0JPKeKlQrGdqCUHvHIlFycNsNBtQa+WlpXD2nqO6QUChIptBtmpx5Szb99Qixgtt LPIZ1x/fLeuK2n0vhidn1Npj+iSVVyg= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by b2062.mx.srv.dfn.de (Postfix) with ESMTPS id 574D11604D0 for ; Thu, 2 Feb 2023 17:00:40 +0100 (CET) Received: from localhost.localdomain (10.84.128.47) by SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.1.2507.17; Thu, 2 Feb 2023 17:00:35 +0100 From: Navid Afkhami Date: Thu, 2 Feb 2023 17:00:23 +0100 Message-ID: <20230202160023.45975-2-navid.afkhami@mdc-berlin.de> X-Mailer: git-send-email 2.34.1 In-Reply-To: <20230202160023.45975-1-navid.afkhami@mdc-berlin.de> References: <20230202160023.45975-1-navid.afkhami@mdc-berlin.de> MIME-Version: 1.0 X-Originating-IP: [10.84.128.47] X-ClientProxiedBy: SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27424.000 X-TM-AS-Result: No-10--4.814400-5.000000 X-TMASE-MatchedRID: toN6SH028bV6fjezFKxXHArcxrzwsv5uwTlc9CcHMZerwqxtE531VICu qghmtWfXb1veicsGbWruNT8xdcEnQwE+dA3RWUSv/9mRo9wUk+WFzNNPDc6umOCbuVI7hVbLfEz RZ8UqjkrF+KCpGE37CJsoi2XrUn/Jn6KdMrRsL14qtq5d3cxkNRqXnrxrKCOXt65UhzoDutvgom dJ1Fga8Tt8/xnfxZuzquq0fsrhwY7iwNHeHzF5Ov9ENsQ2Cqm3hnTs6l8lrxvS6zpiqHFy9FgAB EzH44G0DUEkBTZ8vOLxlyTCXQR4xioA5PA4dQuxuYpJR2kheXd+3BndfXUhXQ== X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--4.814400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27424.000 X-TM-SNTS-SMTP: BD2CB0AD7D46C5C08A36F9E1723CE05F1CF8DC050EA1A0E5A6AB287BD1F36BF72002:F Received-SPF: pass client-ip=194.95.234.172; envelope-from=Navid.Afkhami@mdc-berlin.de; helo=b2062.mx.srv.dfn.de X-Spam_score_int: -43 X-Spam_score: -4.4 X-Spam_bar: ---- X-Spam_report: (-4.4 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, RCVD_IN_DNSWL_MED=-2.3, SPF_HELO_PASS=-0.001, SPF_PASS=-0.001 autolearn=ham autolearn_force=no X-Spam_action: no action 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-demuxem): New variable. --- gnu/packages/bioinformatics.scm | 29 +++++++++++++++++++++++++++++ 1 file changed, 29 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 6caf0e4cfa..406f8616c7 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -1090,6 +1090,35 @@ (define-public python-cmseq and sequence consensus.") (license license:expat))) +(define-public python-demuxem + (package + (name "python-demuxem") + (version "0.1.7") + (source (origin + (method url-fetch) + (uri (pypi-uri "demuxEM" version)) + (sha256 + (base32 + "1bhyxqjk44bmyd26m1smapf68wyf7252kk65i27k50dd3kswgnd6")))) + (build-system pyproject-build-system) + (propagated-inputs (list python-docopt + python-importlib-metadata + python-numpy + python-pandas + python-pegasusio + python-scikit-learn + python-scipy + python-seaborn)) + (native-inputs (list python-cython python-setuptools-scm)) + (home-page "https://github.com/lilab-bcb/demuxEM") + (synopsis + "This is a module on analyzing cell-hashing/nucleus-hashing data") + (description + "This is a module on analyzing cell-hashing/nucleus-hashing data. +It is the demultiplexing module of Pegasus, which is used by Cumulus +in demultiplexing step.") + (license license:bsd-3))) + (define-public python-hclust2 (package (name "python-hclust2")