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[88.136.94.86]) by smtp.gmail.com with ESMTPSA id 13sm8425554wrz.38.2021.10.26.14.28.00 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 26 Oct 2021 14:28:00 -0700 (PDT) From: Nicolas Vallet To: guix-patches@gnu.org Subject: [PATCH] gnu: Add r-phyloseq Date: Tue, 26 Oct 2021 23:27:52 +0200 Message-Id: <20211026212752.21242-1-nls.vallet@gmail.com> X-Mailer: git-send-email 2.25.1 MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit Received-SPF: pass client-ip=2a00:1450:4864:20::42f; envelope-from=nls.vallet@gmail.com; helo=mail-wr1-x42f.google.com X-Spam_score_int: 10 X-Spam_score: 1.0 X-Spam_bar: + X-Spam_report: (1.0 / 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, FREEMAIL_FROM=0.001, FUZZY_WALLET=3.099, RCVD_IN_DNSWL_NONE=-0.0001, SPF_HELO_NONE=0.001, SPF_PASS=-0.001 autolearn=no autolearn_force=no X-Spam_action: no action X-Spam-Score: -0.3 (/) X-Debbugs-Envelope-To: submit X-Mailman-Approved-At: Tue, 26 Oct 2021 17:37:30 -0400 Cc: Nicolas Vallet X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.3 (-) From: Nicolas Vallet * gnu/packages/cran.scm (r-phyloseq): New variable --- gnu/packages/bioconductor.scm | 40 +++++++++++++++++++++++++++++++++++ 1 file changed, 40 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 90a0e1f288..8dc875de69 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -11,6 +11,7 @@ ;;; Copyright © 2020 Jakub Kądziołka ;;; Copyright © 2021 Hong Li ;;; Copyright © 2021 Tim Howes +;;; Copyright © 2021 Nicolas Vallet ;;; ;;; This file is part of GNU Guix. ;;; @@ -14813,3 +14814,42 @@ and other associated metadata. De novo transcriptomes can be linked to the appropriate sources with linkedTxomes and shared for computational reproducibility.") (license license:gpl2))) + + +(define-public r-phyloseq + (package + (name "r-phyloseq") + (version "1.36.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "phyloseq" version)) + (sha256 + (base32 "192gv00xfnv9ljkgb0iw8sqzsay4f3vllyyc1slzsn15713fc4pi")))) + (properties `((upstream-name . "phyloseq"))) + (build-system r-build-system) + (propagated-inputs + `(("r-ade4" ,r-ade4) + ("r-ape" ,r-ape) + ("r-biobase" ,r-biobase) + ("r-biocgenerics" ,r-biocgenerics) + ("r-biomformat" ,r-biomformat) + ("r-biostrings" ,r-biostrings) + ("r-cluster" ,r-cluster) + ("r-data-table" ,r-data-table) + ("r-foreach" ,r-foreach) + ("r-ggplot2" ,r-ggplot2) + ("r-igraph" ,r-igraph) + ("r-multtest" ,r-multtest) + ("r-plyr" ,r-plyr) + ("r-reshape2" ,r-reshape2) + ("r-scales" ,r-scales) + ("r-vegan" ,r-vegan))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page "https://github.com/joey711/phyloseq") + (synopsis "Handling and analysis of high-throughput microbiome census data") + (description + "Phyloseq provides a set of classes and +tools to facilitate the import, storage, analysis, +and graphical display of microbiome census data.") + (license license:agpl3+))) base-commit: c6adc0947396daa6d85ab08837f9cbc86f4d8722 -- 2.25.1 From debbugs-submit-bounces@debbugs.gnu.org Wed Dec 01 03:35:09 2021 Received: (at 51422-done) by debbugs.gnu.org; 1 Dec 2021 08:35:10 +0000 Received: from localhost ([127.0.0.1]:43175 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1msL53-0008BB-Pg for submit@debbugs.gnu.org; Wed, 01 Dec 2021 03:35:09 -0500 Received: from sender4-of-o51.zoho.com ([136.143.188.51]:21159) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1msL51-0008B2-Vf for 51422-done@debbugs.gnu.org; Wed, 01 Dec 2021 03:35:08 -0500 ARC-Seal: i=1; a=rsa-sha256; t=1638347706; cv=none; d=zohomail.com; s=zohoarc; b=L5sokOOzKLosayVVFjAcVN8OzUDMdZYyOc+qdJW7ew8vfo+Enxl32tQrK6f/avNnT5DhJUBBIhq1W+o2h6dEadkdqOQWeQ4vRMrN8gxY3pfs3reK7/ZqGTWnMXv262zAfS1FY1cT2qo5+rB7V0SpFpUeVUxzrP+eUKWouxc22AY= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zohomail.com; s=zohoarc; t=1638347706; h=Content-Type:Content-Transfer-Encoding:Date:From:MIME-Version:Message-ID:Subject:To; bh=zvxtosw6zgXt9/+yVpjr2TEEHhgtzmF3sWY5ioxMXDM=; b=moKjNRaYMyvDqorjHOgWzDhTYtb/VnRcZ/J0vMvblR5xmbwXpp6ZBeLqbe8qa+gxs19RHDHc06PyvRtp3egxKtBYw7zlUU0dYa80aKHSQTBHX2RC8bMoKjERgBOnpxRa0UgV1GbWAas6OaLNwDRw5crhhhUZfpDPJGf+BuxVhUw= 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=1638347706; s=zoho; d=elephly.net; i=rekado@elephly.net; h=From:To:Subject:Date:Message-ID:MIME-Version:Content-Type:Content-Transfer-Encoding; bh=zvxtosw6zgXt9/+yVpjr2TEEHhgtzmF3sWY5ioxMXDM=; b=EGZdpIxnag6SqGwn4wDbngsMqQKf+zHY4IwNm3EhvE4EX3RqmsVry2WCjV4LgP8F gbApaPeG062MQA40/dliPBBNueRWzZ64hszwnBaL3j/1CtqHW8tfxcgR5suzX2jImOy FXgUFkyC5pReo/CTB1X+gmwjB8jZlwIoNpMs+YCk= Received: from localhost (p54ad4afc.dip0.t-ipconnect.de [84.173.74.252]) by mx.zohomail.com with SMTPS id 1638347703269520.941110123332; Wed, 1 Dec 2021 00:35:03 -0800 (PST) User-agent: mu4e 1.6.10; emacs 28.0.50 From: Ricardo Wurmus To: 51422-done@debbugs.gnu.org Subject: [PATCH] gnu: Add r-phyloseq Date: Wed, 01 Dec 2021 09:34:05 +0100 X-URL: https://elephly.net X-PGP-Key: https://elephly.net/rekado.pubkey X-PGP-Fingerprint: BCA6 89B6 3655 3801 C3C6 2150 197A 5888 235F ACAC Message-ID: <87wnkosoy4.fsf@elephly.net> MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8; format=flowed Content-Transfer-Encoding: quoted-printable X-ZohoMailClient: External X-Spam-Score: -0.0 (/) X-Debbugs-Envelope-To: 51422-done X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) Hi, thank you for the patch! I applied it to the =E2=80=9Cmaster=E2=80=9D bran= ch with=20 trivial changes. I also upgraded it to 1.38.0. My apologies for the delay! --=20 Ricardo From unknown Sun Jun 22 17:14:55 2025 Received: (at fakecontrol) by fakecontrolmessage; To: internal_control@debbugs.gnu.org From: Debbugs Internal Request Subject: Internal Control Message-Id: bug archived. Date: Wed, 29 Dec 2021 12:24:05 +0000 User-Agent: Fakemail v42.6.9 # This is a fake control message. # # The action: # bug archived. thanks # This fakemail brought to you by your local debbugs # administrator