From unknown Sat Jun 14 14:26:08 2025 Content-Disposition: inline Content-Transfer-Encoding: quoted-printable MIME-Version: 1.0 X-Mailer: MIME-tools 5.509 (Entity 5.509) Content-Type: text/plain; charset=utf-8 From: bug#51513 <51513@debbugs.gnu.org> To: bug#51513 <51513@debbugs.gnu.org> Subject: Status: Add r-xina and it's dependencies: r-stringdb and r-alluvial Reply-To: bug#51513 <51513@debbugs.gnu.org> Date: Sat, 14 Jun 2025 21:26:08 +0000 retitle 51513 Add r-xina and it's dependencies: r-stringdb and r-alluvial reassign 51513 guix-patches submitter 51513 "MadalinIonel.Patrascu@mdc-berlin.de" severity 51513 normal thanks From debbugs-submit-bounces@debbugs.gnu.org Sat Oct 30 11:52:32 2021 Received: (at submit) by debbugs.gnu.org; 30 Oct 2021 15:52:32 +0000 Received: from localhost ([127.0.0.1]:58210 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mgqei-0007xS-Ip for submit@debbugs.gnu.org; Sat, 30 Oct 2021 11:52:32 -0400 Received: from lists.gnu.org ([209.51.188.17]:56320) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mgqeS-0007wz-Eq for submit@debbugs.gnu.org; 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Sat, 30 Oct 2021 17:52:04 +0200 (CEST) Received: from SW-IT-P-EX1.mdc-berlin.net (mgw1.mdc-berlin.de [141.80.113.54]) by c2062.mx.srv.dfn.de (Postfix) with ESMTPS for ; Sat, 30 Oct 2021 17:52:04 +0200 (CEST) Received: from SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) by SW-IT-P-EX1.mdc-berlin.net (141.80.113.54) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.1.2308.15; Sat, 30 Oct 2021 17:52:04 +0200 Received: from SW-IT-P-EX4.mdc-berlin.net ([fe80::e55f:895f:3b41:ec6a]) by SW-IT-P-EX4.mdc-berlin.net ([fe80::e55f:895f:3b41:ec6a%2]) with mapi id 15.01.2308.015; Sat, 30 Oct 2021 17:52:04 +0200 From: "MadalinIonel.Patrascu@mdc-berlin.de" To: "guix-patches@gnu.org" Subject: Add r-xina and it's dependencies: r-stringdb and r-alluvial Thread-Topic: Add r-xina and it's dependencies: r-stringdb and r-alluvial Thread-Index: AQHXzaYV4nBFG5figEuI9vlVE/Wl1w== Date: Sat, 30 Oct 2021 15:52:04 +0000 Message-ID: <31f4f886465f473f9936beeaba8892ff@mdc-berlin.de> Accept-Language: en-US, de-DE Content-Language: en-US X-MS-Has-Attach: X-MS-TNEF-Correlator: x-originating-ip: [141.80.113.52] x-tm-as-product-ver: SMEX-14.0.0.3092-8.6.1018-26500.001 x-tm-as-result: No-10--7.553600-8.000000 x-tmase-matchedrid: gVo1o+4QhtI25XOhnouJ5RuurbgYp+HQXef5t6q8RcxFdhD9u4+PBJZd R8KtHW+EGJmxWFq4sSd3EdZZL32rNMRb3JaZ4jjzZBiPr4EU8TD1A+zugB2D5QpTK6zme5eongI gpj8eDcBbCjvvWZW+SUIIRRQc6cDWi1ZwLTMCLnhUCdqf14oPxc4y/IO1vgfoAYtnZ+2VyaJQXo x8Qq8GGQatSTXtoo3YZQrsHGEPSmKPF35SYq8cqgMSxgBB9WEIzySyOxN4JpEZEMgn21kQOEMMp rcbiest x-tm-as-user-approved-sender: Yes x-tm-as-user-blocked-sender: No x-tmase-result: 10--7.553600-8.000000 x-tmase-version: SMEX-14.0.0.3092-8.6.1018-26500.001 x-tm-snts-smtp: DE81EEB4F0EC6F17DBC35E3A0E611D4F4A2DDC80F6A859ED25944B51886A128B2000:F Content-Type: multipart/alternative; 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--_000_31f4f886465f473f9936beeaba8892ffmdcberlinde_-- From debbugs-submit-bounces@debbugs.gnu.org Sat Oct 30 11:55:37 2021 Received: (at 51513) by debbugs.gnu.org; 30 Oct 2021 15:55:37 +0000 Received: from localhost ([127.0.0.1]:58235 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mgqhk-00085A-Bz for submit@debbugs.gnu.org; Sat, 30 Oct 2021 11:55:37 -0400 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]:57107) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mgqhe-00084m-PM for 51513@debbugs.gnu.org; Sat, 30 Oct 2021 11:55:34 -0400 Received: from localhost (localhost [127.0.0.1]) by a2062.mx.srv.dfn.de (Postfix) with ESMTP id 7B959A0142; Sat, 30 Oct 2021 17:55:24 +0200 (CEST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= content-type:content-type:content-transfer-encoding:mime-version :x-mailer:message-id:date:date:subject:subject:from:from :received:received:received; s=mdc; t=1635609324; x=1637423725; bh=d3StqAh8UbRxalby0H/oCY3YNVuMMWLT0RtY36U83x4=; b=ifxQuho0dz8s C8JrK6z7r7xqH0yrtqbbFXuUr2z4fYfCBkbv/R3L06f5EeaTXEnqU3vqgAv6Xhqy prXcnE78mpV9LfqZJ9YrF+HxMhWpLqi5zGVR2BnDFN+lv8gPeSmFFP2KAv8w7Q+x xv2kotibXdqOjZdLg8EiSPX5TATKpMg= Received: from a2062.mx.srv.dfn.de ([127.0.0.1]) by localhost (mgw4-han.srv.dfn.de [127.0.0.1]) (amavisd-new, port 20134) with ESMTP id dt56hYHVHjAr; Sat, 30 Oct 2021 17:55:24 +0200 (CEST) Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by a2062.mx.srv.dfn.de (Postfix) with ESMTPS; Sat, 30 Oct 2021 17:55:24 +0200 (CEST) Received: from Guix-Ubuntu18.04 (141.80.113.106) 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 15.1.2308.15; Sat, 30 Oct 2021 17:55:23 +0200 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: <51513@debbugs.gnu.org> Subject: [PATCH 1/3] gnu: Add r-alluvial. Date: Sat, 30 Oct 2021 17:55:04 +0200 Message-ID: <20211030155506.28269-1-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.33.0 MIME-Version: 1.0 Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX3.mdc-berlin.net (141.80.113.61) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-8.6.1018-26500.001 X-TM-AS-Result: No-10--0.404200-8.000000 X-TMASE-MatchedRID: v2eT1hosn+AsaaYlMvaOHAPZZctd3P4BLOOFU9c9B/j7fZJfDdCIXISC l3uvYUiSC6+Zjvylmgt6n3hIvN5dLetbninbl/qrTT9ZveSPAxX4qCLIu0mtIPj/xqm3b+Mo4ie kOi8xclJvF8Nk3pHf5r1IHVpP7o/N2Uwl4gfKRdLBe89zsi5D0BDkv2q7d+VDlwV2iaAfSWcURS Scn+QSXt0H8LFZNFG7doMssNsUwYX6BcwPLz0+ikzfigQEKKKZnipJdGoFdhICYoUv9YqVhwucw J8+r7v5SRWONCVtVqsPgysbpZxsZTvNmIqDEQF58nyIEFzG+UTX7GF+64huyLjmNKuuvgamoYI1 erIuEsW+g2RZj2FKy60Cnu9RmLpv X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--0.404200-8.000000 X-TMASE-Version: SMEX-14.0.0.3092-8.6.1018-26500.001 X-TM-SNTS-SMTP: 673CD435EAA89B06F80F8237FAB3EC7DD6B244CF61051F12472D3CA3867150082000:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 51513 Cc: rekado@elephly.net, =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= 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: -3.3 (---) * gnu/packages/cran.scm (r-alluvial): New variable. --- gnu/packages/cran.scm | 20 ++++++++++++++++++++ 1 file changed, 20 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 792ea2a75b..0e79ea0ef2 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -7070,6 +7070,26 @@ (define-public r-algdesign and within plot factors interact.") (license license:gpl2+))) +(define-public r-alluvial +(package + (name "r-alluvial") + (version "0.1-2") + (source + (origin + (method url-fetch) + (uri (cran-uri "alluvial" version)) + (sha256 + (base32 "039frwrsxq1lb97s7vf2vbyyadimkigs628ymym06fxka53drdkp")))) + (properties `((upstream-name . "alluvial"))) + (build-system r-build-system) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page "https://github.com/mbojan/alluvial") + (synopsis "Creating parallel sets plots (Alluvial Diagrams)") + (description + "The package @code{r-alluvial} creates alluvial diagrams (also known as +parallel sets plots) for multivariate and time series-like data.") + (license license:expat))) + (define-public r-signal (package (name "r-signal") -- 2.33.0 From debbugs-submit-bounces@debbugs.gnu.org Sat Oct 30 11:55:45 2021 Received: (at 51513) by debbugs.gnu.org; 30 Oct 2021 15:55:45 +0000 Received: from localhost ([127.0.0.1]:58240 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mgqht-00085e-Am for submit@debbugs.gnu.org; Sat, 30 Oct 2021 11:55:45 -0400 Received: from b2062.mx.srv.dfn.de ([194.95.234.172]:50365) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mgqhr-00085J-RN for 51513@debbugs.gnu.org; Sat, 30 Oct 2021 11:55:44 -0400 Received: from localhost (localhost [127.0.0.1]) by b2062.mx.srv.dfn.de (Postfix) with ESMTP id 8A78216015F; Sat, 30 Oct 2021 17:55:37 +0200 (CEST) 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:received:received; s=mdc; t= 1635609337; x=1637423738; bh=3ljAQAtQpwNlBIcVBuONrpRsLM7CF9CNvRX KgjnZ70A=; b=dwApVRzTk5nTJGCf7q5ypuF6nAP9XJFl8WatFN/3j/1t4X/t7qg wd4t+YWaNA6oYSq0Vrg/4rapMinl+QS88f8oIxtYGUyKJJnwNq1SOP05jET6pCj0 IgjA9mOQjvVEvlFz2cxNBq2hhGZ+WdGXuVrnt86dNyhZIKqD4pSzmnXA= Received: from b2062.mx.srv.dfn.de ([127.0.0.1]) by localhost (mgw4-tub.srv.dfn.de [127.0.0.1]) (amavisd-new, port 20134) with ESMTP id kZjcBWOu8S1Z; Sat, 30 Oct 2021 17:55:37 +0200 (CEST) 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; Sat, 30 Oct 2021 17:55:37 +0200 (CEST) Received: from Guix-Ubuntu18.04 (141.80.113.106) 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 15.1.2308.15; Sat, 30 Oct 2021 17:55:36 +0200 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: <51513@debbugs.gnu.org> Subject: [PATCH 2/3] gnu: Add r-stringdb. Date: Sat, 30 Oct 2021 17:55:05 +0200 Message-ID: <20211030155506.28269-2-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.33.0 In-Reply-To: <20211030155506.28269-1-madalinionel.patrascu@mdc-berlin.de> References: <20211030155506.28269-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX3.mdc-berlin.net (141.80.113.61) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-8.6.1018-26500.001 X-TM-AS-Result: No-10--3.071300-8.000000 X-TMASE-MatchedRID: iZqcJIi7cAQsaaYlMvaOHAPZZctd3P4BNwe5zfGEu3r7fZJfDdCIXISC l3uvYUiSC6+Zjvylmgt6n3hIvN5dLetbninbl/qr34b00P59ZxlKhpFNiC3g3hHfiujuTbedxD3 3LnL++e46hh8gmT3PVhZi3foHKexSOWt3LpTk/GVOwmo0laDRbNJMQFCqw2r0cCpx4AmNeLdv2Z iuCbVzY25TfXRL8e4lQJVkw9PTCwiMbvtMrKaNZr09KAokwDFUGmvfI/BKJSxTvZg4AwMmOJ4CI KY/Hg3AGdQnQSTrKGPEQdG7H66TyN+E/XGDLHcM8tVOLURmWH/s/52aYm6b+hR55L69TR4dS1Ur mT/WvxEEcNRSx97ZcUxmy8d+XdgqU1smX/HioKcktL3TZ3RYZwYBFqQm66Qna4sJOPPPqqLapBr PywRGWvBBWAh1UbgUTloPhkiH7TGOEw7cMCn7Sw== X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--3.071300-8.000000 X-TMASE-Version: SMEX-14.0.0.3092-8.6.1018-26500.001 X-TM-SNTS-SMTP: 53806B7BD0C8B3B53428007695667916F57838367375650B0FF0B4316CFC9F3B2000:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 51513 Cc: rekado@elephly.net, =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= 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: -3.3 (---) * gnu/packages/bioconductor.scm (r-stringdb): New variable. --- gnu/packages/bioconductor.scm | 33 +++++++++++++++++++++++++++++++++ 1 file changed, 33 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 90a0e1f288..f82427f831 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -4337,6 +4337,39 @@ (define-public r-slingshot graph construction.") (license license:artistic2.0))) +(define-public r-stringdb + (package + (name "r-stringdb") + (version "2.6.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "STRINGdb" version)) + (sha256 + (base32 "1hvb73anhbf1g82nn5m11s783z6ihvlavf7p30w29qggxggnl6lm")))) + (properties `((upstream-name . "STRINGdb"))) + (build-system r-build-system) + (propagated-inputs + `(("r-gplots" ,r-gplots) + ("r-hash" ,r-hash) + ("r-igraph" ,r-igraph) + ("r-plotrix" ,r-plotrix) + ("r-plyr" ,r-plyr) + ("r-png" ,r-png) + ("r-rcolorbrewer" ,r-rcolorbrewer) + ("r-rcurl" ,r-rcurl) + ("r-sqldf" ,r-sqldf))) + (home-page "https://git.bioconductor.org/packages/STRINGdb") + (synopsis "Searching tool for the retrieval of interacting proteins database") + (description + "The @code{STRINGdb} package provides a R interface to the STRING +protein-protein interactions database. STRING (https://www.string-db.org) is a +database of known and predicted protein-protein interactions. The interactions +include direct (physical) and indirect (functional) associations. Each +interaction is associated with a combined confidence score that integrates the +various evidences.") + (license license:gpl2))) + (define-public r-structuralvariantannotation (package (name "r-structuralvariantannotation") -- 2.33.0 From debbugs-submit-bounces@debbugs.gnu.org Sat Oct 30 11:55:49 2021 Received: (at 51513) by debbugs.gnu.org; 30 Oct 2021 15:55:50 +0000 Received: from localhost ([127.0.0.1]:58243 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mgqhx-00085y-KP for submit@debbugs.gnu.org; Sat, 30 Oct 2021 11:55:49 -0400 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:55881) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mgqhv-00085T-BE for 51513@debbugs.gnu.org; Sat, 30 Oct 2021 11:55:47 -0400 Received: from localhost (localhost [127.0.0.1]) by c2062.mx.srv.dfn.de (Postfix) with ESMTP id 9DAE53000FE; Sat, 30 Oct 2021 17:55:41 +0200 (CEST) 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:received:received; s=mdc; t= 1635609341; x=1637423742; bh=kRKHD/RFu2vioRhUFWKdfOVlpKlo5W59t1V TGnrTtHQ=; b=nwWVr5gfD1r3KQmMZTR9gzN+iMwWuyi1rRbtN07a1Er7cWam1Rz NC+kh+Cr79eVlBQea8wkZOEpevIetDUEBiI008rtt8IUul++q/GjyrKL7oZ4bdfu DXvQgKGAs/65XGeG8ZBiRKGLB1+2hLy88D0A0ZY4XDcFnZM1jSlk+V8k= Received: from c2062.mx.srv.dfn.de ([127.0.0.1]) by localhost (mgw4-erl.srv.dfn.de [127.0.0.1]) (amavisd-new, port 20134) with ESMTP id 4s598y_FdpzC; Sat, 30 Oct 2021 17:55:41 +0200 (CEST) Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by c2062.mx.srv.dfn.de (Postfix) with ESMTPS; Sat, 30 Oct 2021 17:55:41 +0200 (CEST) Received: from Guix-Ubuntu18.04 (141.80.113.106) 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 15.1.2308.15; Sat, 30 Oct 2021 17:55:40 +0200 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: <51513@debbugs.gnu.org> Subject: [PATCH 3/3] gnu: Add r-xina. Date: Sat, 30 Oct 2021 17:55:06 +0200 Message-ID: <20211030155506.28269-3-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.33.0 In-Reply-To: <20211030155506.28269-1-madalinionel.patrascu@mdc-berlin.de> References: <20211030155506.28269-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX3.mdc-berlin.net (141.80.113.61) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-8.6.1018-26500.001 X-TM-AS-Result: No-10--2.051700-8.000000 X-TMASE-MatchedRID: 0a+qS+HYqZUsaaYlMvaOHAPZZctd3P4BC//1TMV5chPIFck3f6fvyNN0 iv48FC5C7IvvzMgzLKZM7FV2jxGQluvd6Sh4AjN/nVTWWiNp+v/iTXBy70TaRHOaOgNxEZiuV3U Ws/brCBOp4L5MAnrh2A5Q7W8dBYFUjoR5DwlwBUdX7UpJhGB2Ym3wyFHQiRIJfcujmki2WQLFgy mj9DufconFJ5/U720jPKzpbpsDIY7/dJCaqb+IPN0KiTeJteVB64sVlliWKx8fE8yM4pjsDwtuK BGekqUpOlxBO2IcOBZw6NzqqA359tjB/Q6kjIicYHk8PLD2vOqdxsJWP1Y5ii0eWCYV6MytEC5J Je9+pPXFTmyhZfwo6Hn78542H/LROxqMmHhhomO3ShAi6P5JV4URV9DGzc3pkOCa3xB6S8HmZoJ 42/8sjNUZB2rCwOIS X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--2.051700-8.000000 X-TMASE-Version: SMEX-14.0.0.3092-8.6.1018-26500.001 X-TM-SNTS-SMTP: 6137070EA08315EDD2961CF1C2A998FD2D284246411F0CDAC0A98BCC6052A54C2000:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 51513 Cc: rekado@elephly.net, =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= 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: -3.3 (---) * gnu/packages/bioconductor.scm (r-xina): New variable. --- gnu/packages/bioconductor.scm | 36 +++++++++++++++++++++++++++++++++++ 1 file changed, 36 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index f82427f831..a232c3fe61 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -4660,6 +4660,42 @@ (define-public r-vsn and specific in detecting differential transcription.") (license license:artistic2.0))) +(define-public r-xina + (package + (name "r-xina") + (version "1.12.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "XINA" version)) + (sha256 + (base32 "14j1rn3p7i0rlqkbbg0a6pyhb97ifzvsbw6vfxw9pna7zv7rbhsp")))) + (properties `((upstream-name . "XINA"))) + (build-system r-build-system) + (propagated-inputs + `(("r-alluvial" ,r-alluvial) + ("r-ggplot2" ,r-ggplot2) + ("r-gridextra" ,r-gridextra) + ("r-igraph" ,r-igraph) + ("r-mclust" ,r-mclust) + ("r-plyr" ,r-plyr) + ("r-stringdb" ,r-stringdb))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page "https://git.bioconductor.org/packages/XINA") + (synopsis "Identifying proteins that exhibit similar patterns") + (description + "The aim of @code{XINA} is to determine which proteins exhibit similar +patterns within and across experimental conditions, since proteins with +co-abundance patterns may have common molecular functions. @code{XINA} imports +multiple datasets, tags dataset in silico, and combines the data for subsequent +subgrouping into multiple clusters. The result is a single output depicting +the variation across all conditions. @code{XINA}, not only extracts +coabundance profiles within and across experiments, but also incorporates +protein-protein interaction databases and integrative resources such as +@dfn{Kyoto encyclopedia of genes and genomes} (KEGG) to infer interactors and +molecular functions, respectively, and produces intuitive graphical outputs.") + (license license:gpl3))) + (define-public r-xvector (package (name "r-xvector") -- 2.33.0 From debbugs-submit-bounces@debbugs.gnu.org Sat Nov 27 04:38:30 2021 Received: (at 51513-done) by debbugs.gnu.org; 27 Nov 2021 09:38:30 +0000 Received: from localhost ([127.0.0.1]:32933 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1mquAA-0003q1-LJ for submit@debbugs.gnu.org; Sat, 27 Nov 2021 04:38:30 -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 1mquA8-0003pr-5y for 51513-done@debbugs.gnu.org; Sat, 27 Nov 2021 04:38:28 -0500 ARC-Seal: i=1; a=rsa-sha256; t=1638005904; cv=none; d=zohomail.com; s=zohoarc; b=jr6EJvn0jzfFzrLzQr3tD8nlWwv7/Yq/2pVt7E3dxoAMXXemJ0Mgc/aBx/wcY9dQV+6dyQ4mXAq8id1b6Pdai2fLHYqTmcoybd15nTnxmIRSgXiQHYsNLnzP+weCRepU/tlp9Fd9UARQBJD8axx8wJCfYsLpcwJyQJycueJzqj0= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zohomail.com; s=zohoarc; t=1638005904; h=Content-Type:Cc:Date:From:In-Reply-To:MIME-Version:Message-ID:References:Subject:To; bh=7JiQnBOp8FKWrCP0/9JhSOxgbl9YOhI4xrTz/5gkqa4=; b=ZiR7Vm8y0HdvSb2Xp2s+aV1IL4rLDzL+LMhE+JmaiyWFodi5LVmUUGrVGgw/csbLpvQ0PzjTkxCxMbedRxW8ksmx9l10O0RpNNGeDfmdbgw//2cxwhYPNMhXeqTit5LeqqiWLCdiEdH84Cpg48NnftU0xQhnfw9EiPAKWZJDEPY= 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=1638005904; s=zoho; d=elephly.net; i=rekado@elephly.net; h=References:From:To:Cc:Subject:Date:In-reply-to:Message-ID:MIME-Version:Content-Type; bh=7JiQnBOp8FKWrCP0/9JhSOxgbl9YOhI4xrTz/5gkqa4=; b=MOGIUfLnqohObGabARaWGgA8IQ16jKfPREhe0InKQRBLzTLfkmEd2sa4q1fu1iWe ViGOORxSIQXN2V9x6ljueKJYmZx1rjO7F9PG7Wyg84djcmoU8e/DpxgsqZnn6Nt4cVq ZHSEAevv0ziTxlNbzg2957EheTDXWZ0yFWAjx+7c= Received: from localhost (p4fd5a75b.dip0.t-ipconnect.de [79.213.167.91]) by mx.zohomail.com with SMTPS id 1638005902186125.02899191433698; Sat, 27 Nov 2021 01:38:22 -0800 (PST) References: <20211030155506.28269-1-madalinionel.patrascu@mdc-berlin.de> User-agent: mu4e 1.6.10; emacs 28.0.50 From: Ricardo Wurmus To: =?utf-8?B?TcSDZMSDbGlu?= Ionel =?utf-8?Q?Patra=C8=99cu?= Subject: Re: [PATCH 1/3] gnu: Add r-alluvial. Date: Sat, 27 Nov 2021 10:35:34 +0100 In-reply-to: <20211030155506.28269-1-madalinionel.patrascu@mdc-berlin.de> 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: <87ee72os51.fsf@elephly.net> MIME-Version: 1.0 Content-Type: text/plain; format=flowed X-ZohoMailClient: External X-Spam-Score: -0.0 (/) X-Debbugs-Envelope-To: 51513-done Cc: 51513-done@debbugs.gnu.org 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 (-) Thanks for the patches! I applied them all with minor changes to indentation and description. -- Ricardo From unknown Sat Jun 14 14:26:08 2025 Received: (at fakecontrol) by fakecontrolmessage; To: internal_control@debbugs.gnu.org From: Debbugs Internal Request Subject: Internal Control Message-Id: bug archived. Date: Sat, 25 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