From unknown Tue Jun 17 20:18:57 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#59870 <59870@debbugs.gnu.org> To: bug#59870 <59870@debbugs.gnu.org> Subject: Status: [PATCH] gnu: Add r-animalcules, r-plotroc, r-gridsvg, r-gunifrac, r-dirmult, r-modeest, r-fbasics, r-timeseries, r-gss, r-stable, r-rmutil, r-statip. Reply-To: bug#59870 <59870@debbugs.gnu.org> Date: Wed, 18 Jun 2025 03:18:57 +0000 retitle 59870 [PATCH] gnu: Add r-animalcules, r-plotroc, r-gridsvg, r-gunif= rac, r-dirmult, r-modeest, r-fbasics, r-timeseries, r-gss, r-stable, r-rmut= il, r-statip. reassign 59870 guix-patches submitter 59870 "MadalinIonel.Patrascu@mdc-berlin.de" severity 59870 normal tag 59870 patch thanks From debbugs-submit-bounces@debbugs.gnu.org Wed Dec 07 00:16:00 2022 Received: (at submit) by debbugs.gnu.org; 7 Dec 2022 05:16:00 +0000 Received: from localhost ([127.0.0.1]:47481 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mml-00079s-0B for submit@debbugs.gnu.org; Wed, 07 Dec 2022 00:15:59 -0500 Received: from lists.gnu.org ([209.51.188.17]:33420) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mmg-00079m-GM for submit@debbugs.gnu.org; Wed, 07 Dec 2022 00:15:58 -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 1p2mmB-0005ca-Sc for guix-patches@gnu.org; Wed, 07 Dec 2022 00:15:52 -0500 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1p2mm8-0006KP-OZ for guix-patches@gnu.org; Wed, 07 Dec 2022 00:15:22 -0500 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= mime-version:content-type:content-type:content-language :accept-language:message-id:date:date:subject:subject:from:from :received:received; s=mdc; t=1670390101; x=1672204502; bh=Hcny4Q ezZ7eQvjcdrK+2VqL4UnDQ5/mJwfK+n06A020=; b=gg3pirz5S1l1JIz4NL1ufW JR5OlvRoF/MWQGXXaMPc2teWjYaer7us9phIy1YqpOz++eqpJzWHR/NT8V8pE18N PKbdE17utirhopfGYyjwr4wx3tvbe2KyCh23KbRPr0PPSobsK7BRYD2T2xOHbMhK NyT6an+WOua+2YXmhGbEw= 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 id 9F18730057B for ; Wed, 7 Dec 2022 06:15:01 +0100 (CET) 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 15.1.2507.16; Wed, 7 Dec 2022 06:15:01 +0100 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 15.01.2507.016; Wed, 7 Dec 2022 06:15:01 +0100 From: "MadalinIonel.Patrascu@mdc-berlin.de" To: "guix-patches@gnu.org" Subject: [PATCH] gnu: Add r-animalcules, r-plotroc, r-gridsvg, r-gunifrac, r-dirmult, r-modeest, r-fbasics, r-timeseries, r-gss, r-stable, r-rmutil, r-statip. Thread-Topic: [PATCH] gnu: Add r-animalcules, r-plotroc, r-gridsvg, r-gunifrac, r-dirmult, r-modeest, r-fbasics, r-timeseries, r-gss, r-stable, r-rmutil, r-statip. Thread-Index: AQHZCfrJO13tx4AiI0ewz0VVtfEhOA== Date: Wed, 7 Dec 2022 05:15:00 +0000 Message-ID: <8e198ab0c3044a9fbf8488431475f0e7@mdc-berlin.de> Accept-Language: en-US, de-DE Content-Language: en-US X-MS-Has-Attach: X-MS-TNEF-Correlator: x-originating-ip: [141.80.113.51] x-tm-as-product-ver: SMEX-14.0.0.3092-9.0.1002-27308.005 x-tm-as-result: No-10--10.704600-5.000000 x-tmase-matchedrid: SzbEz7SZt2ufkHSWeTTytMG0UNgaZpYqGsvgUMYAn4UWzPTbxO7R+tIS YzBUt2RaXVsEWVqYqaivJcrLMYkA70UuXkWTSi/R30kDaWZBE1RU4sxFq6igEUqa6TyhyXvPW4Z nuvI7TMpFFrjTpX9jDPLhex7UcnSIOa9S1kbnyvQR3SGennXG6yUnLzk1+IxzK+4RiR5eeEVx/B RtuudYCDJ9dfKldBF0myiLZetSf8l9j2GwzTE3vX6pZDLwULsy9tqhOBAEk3QPQ6e0MDYYf3554 NspepzGdqB0EotPzCq4UQx46ba0tA== x-tm-as-user-approved-sender: Yes x-tm-as-user-blocked-sender: No x-tmase-result: 10--10.704600-5.000000 x-tmase-version: SMEX-14.0.0.3092-9.0.1002-27308.005 x-tm-snts-smtp: E95D6EA852A468176D4C8836D65602F8C87C21A66B63E0D21BAB29F4A5AF6B762002:F Content-Type: multipart/alternative; boundary="_000_8e198ab0c3044a9fbf8488431475f0e7mdcberlinde_" MIME-Version: 1.0 Received-SPF: pass client-ip=194.95.238.172; envelope-from=MadalinIonel.Patrascu@mdc-berlin.de; helo=c2062.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, HTML_MESSAGE=0.001, 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-Spam-Score: -1.4 (-) X-Debbugs-Envelope-To: submit 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: -2.4 (--) --_000_8e198ab0c3044a9fbf8488431475f0e7mdcberlinde_ Content-Type: text/plain; charset="iso-8859-1" Content-Transfer-Encoding: quoted-printable * gnu/packages/bioconductor.scm (r-animalcules): New variable. * gnu/packages/cran.scm (r-plotroc, r-gridsvg, r-gunifrac, r-dirmult, r-mod= eest, r-fbasics, r-timeseries, r-gss, r-stable, r-rmutil, r-statip): New variable= s. --_000_8e198ab0c3044a9fbf8488431475f0e7mdcberlinde_ Content-Type: text/html; charset="iso-8859-1" Content-Transfer-Encoding: quoted-printable

    
* gnu/packages/bioconductor.scm (r-animalcules): New variable.
* gnu/packages/cran.scm (r-plotroc, r-gridsvg, r-gunifrac, r-dirmult, = r-modeest,
r-fbasics, r-timeseries, r-gss, r-stable, r-rmutil, r-statip): New var= iables.


--_000_8e198ab0c3044a9fbf8488431475f0e7mdcberlinde_-- From debbugs-submit-bounces@debbugs.gnu.org Wed Dec 07 00:19:10 2022 Received: (at 59870) by debbugs.gnu.org; 7 Dec 2022 05:19:10 +0000 Received: from localhost ([127.0.0.1]:47502 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpq-0007Cf-8y for submit@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:10 -0500 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:38585) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpm-0007Bw-UP for 59870@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:08 -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=1670390340; x=1672204741; bh=SfM7PSoJYTZ3pT5wj73TcaP5CMR9pfw8RQ9ADjBQ1Lc=; b=V48HDJb5av1L r1JCrSre2WqDgrTyXbJjtdq220Z4MX048ojurH3MHJb75d1PH2Ql9ltIa65mbBO1 qHCQC2GR3glrYOWoIClaHyrFfh92ch6u0RJKPeqK6YQuMynDB2BBBEEHCafssgrp hQ1vG3zhVLn3I3vwyqu302QU9bJ8VeE= 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 id C51B43006B3 for <59870@debbugs.gnu.org>; Wed, 7 Dec 2022 06:19:00 +0100 (CET) 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 15.1.2507.16; Wed, 7 Dec 2022 06:18:59 +0100 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: <59870@debbugs.gnu.org> Subject: [PATCH 02/12] gnu: Add r-rmutil. Date: Wed, 7 Dec 2022 06:18:27 +0100 Message-ID: <20221207051837.10970-2-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 In-Reply-To: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> References: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Debbugs-Cc: rekado@elephly.net Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-AS-Result: No-10--9.009400-5.000000 X-TMASE-MatchedRID: 2wfub8HDRfP/R1NSMc2qCU7nLUqYrlslFIuBIWrdOePfUZT83lbkEKoH YSP2RcO0RRa406V/YwyBUGewL2YXt8Z8zsjIitoJnVTWWiNp+v8O8pJojG7qSl42zm1Zi+MJMtN dYjcQmi97MSP7SLpuGNCzuPNnb6tM3SWdjqTh/wrdCok3ibXlQeuLFZZYlisfHxPMjOKY7A+u65 UDD0aDgsRB0bsfrpPI8edcQ1uyNCKLaw5NgA+TJafj0rdaFRF1kPA94BFuSLsfw9FrgGBo2X4p6 LX+yx1f X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--9.009400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-SNTS-SMTP: FC1270899B530FB78F6C602090A3FFEB6E5B69309EA73C1EAD30338F80E2BF4E2002:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 59870 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-rmutil): New variable. --- gnu/packages/cran.scm | 22 ++++++++++++++++++++++ 1 file changed, 22 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index d23265ad07..792fcf1a7d 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -16231,6 +16231,28 @@ (define-public r-rmpfr Precision Floating-Point Reliable} (MPFR) library.") (license license:gpl2+))) +(define-public r-rmutil + (package + (name "r-rmutil") + (version "1.1.10") + (source (origin + (method url-fetch) + (uri (cran-uri "rmutil" version)) + (sha256 + (base32 + "1yd5gkg4jg3rvqrfl8c5r07lcr37n1p9h1a7b6s45iswd77dg7w1")))) + (properties `((upstream-name . "rmutil"))) + (build-system r-build-system) + (native-inputs (list gfortran)) + (home-page "https://www.commanster.eu/rcode.html") + (synopsis + "Utilities for nonlinear regression and repeated measurements models") + (description + "This package provides a toolkit of functions for nonlinear regression and +repeated measurements. It was designated to be imported by other packages such +as @code{gnlm}, @code{stable}, @code{growth}, @code{repeated}, and @code{event}.") + (license license:gpl2+))) + (define-public r-assertive-base (package (name "r-assertive-base") -- 2.38.1 From debbugs-submit-bounces@debbugs.gnu.org Wed Dec 07 00:19:11 2022 Received: (at 59870) by debbugs.gnu.org; 7 Dec 2022 05:19:11 +0000 Received: from localhost ([127.0.0.1]:47504 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpq-0007Ci-LX for submit@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:11 -0500 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:45745) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpn-0007CF-KE for 59870@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:08 -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=1670390341; x=1672204742; bh=KjLHn+EqQY0sNzkF5PoS2o0INQYjV4cg22oCEQBCZDs=; b=g8kYm2pcxinp EwgnJ9LrA0SoZEguSbvMb7mZx9KLrtww7HzYWjpcqg7nGMt1S4cXzN2G3DWDGl0V KCxIOHL3leMBVsmllWCrySIYY1MTyeHQIZq5BNjXakLnkI0mzl/kUggdFXK2atT9 FXHgA56KM6e8dh0ZyfR7KQFOKZfF7yg= 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 id 903023006CE for <59870@debbugs.gnu.org>; Wed, 7 Dec 2022 06:19:01 +0100 (CET) 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 15.1.2507.16; Wed, 7 Dec 2022 06:18:59 +0100 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: <59870@debbugs.gnu.org> Subject: [PATCH 03/12] gnu: Add r-stable. Date: Wed, 7 Dec 2022 06:18:28 +0100 Message-ID: <20221207051837.10970-3-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 In-Reply-To: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> References: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Debbugs-Cc: rekado@elephly.net Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-AS-Result: No-10--1.487600-5.000000 X-TMASE-MatchedRID: I6rpFm0lrcP/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOjEIt+uIPPOEKo /65yrX6peDD58ltWiLmBUGewL2YXt8Z8zsjIitoJnVTWWiNp+v8O8pJojG7qSu88qtLWjN6Yqbs +nJ/tFJGUd1up11uf17MgIws2d9ra0N7DjAdxZNTi8zVgXoAltuJ5hXsnxp7jC24oEZ6SpSnAnt ugZEfcTyiM3WUt6LtFUw7l7uXTPDCQ50sbwoopJL07OaEsaRPWylbd6WMU9XdNVs4qhrzw+sWqj pYEWiAR/2hdRpOm/ClKaq0+Ozty8d7hsEFb1i4hWSgmpbFZnEI1kD2KtSTmq2Pbt5Stv2K5/Ox0 TU9Ci5I= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--1.487600-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-SNTS-SMTP: 8D76A3EDCD54246061B4A424649A5B931A7FB86F7D749D89B47854B601C95A8D2002:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 59870 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-stable): New variable. --- gnu/packages/cran.scm | 22 ++++++++++++++++++++++ 1 file changed, 22 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 792fcf1a7d..b773c6aeb9 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -6452,6 +6452,28 @@ (define-public r-corrplot ;; Any version of the GPL (license license:gpl2+))) +(define-public r-stable + (package + (name "r-stable") + (version "1.1.6") + (source (origin + (method url-fetch) + (uri (cran-uri "stable" version)) + (sha256 + (base32 + "194xsa291v5f0jya1c3aigbclg8cci427ffpb8brxamm6n57hf12")))) + (properties `((upstream-name . "stable"))) + (build-system r-build-system) + (propagated-inputs (list r-rmutil)) + (home-page "https://www.commanster.eu/rcode.html") + (synopsis + "Probability functions and regression models for stable distributions") + (description + "This package provides density, distribution, quantile and hazard functions +of a stable variate; generalized regression models for the parameters of a stable +distribution.") + (license license:gpl2+))) + (define-public r-statip (package (name "r-statip") -- 2.38.1 From debbugs-submit-bounces@debbugs.gnu.org Wed Dec 07 00:19:12 2022 Received: (at 59870) by debbugs.gnu.org; 7 Dec 2022 05:19:12 +0000 Received: from localhost ([127.0.0.1]:47506 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpr-0007Cu-Ov for submit@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:12 -0500 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:58985) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpp-0007CH-3e for 59870@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:09 -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=1670390343; x=1672204744; bh=W/D/nJ0mg1IEnAfzseuzdVyPJvPCCmj5NIGcHnNPqAc=; b=IXFrJP+l7Umf QXTiZpKsu3zQAmR55UBTSsx6fSoROdmtxoy0g54MCPyziNkC8+iqnxExyAClOP3K ogKBkkDyaOlXmzr/8Ntg1lEh49TQLQfPWKwVoU+XnQ6MdFmSrVYz2iDGmv2lHmSM Y2rDqlD6VnoRxDGu/FqaHqMFyMWvQiQ= 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 id 1463330071C for <59870@debbugs.gnu.org>; Wed, 7 Dec 2022 06:19:03 +0100 (CET) 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 15.1.2507.16; Wed, 7 Dec 2022 06:18:59 +0100 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: <59870@debbugs.gnu.org> Subject: [PATCH 07/12] gnu: Add r-modeest. Date: Wed, 7 Dec 2022 06:18:32 +0100 Message-ID: <20221207051837.10970-7-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 In-Reply-To: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> References: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Debbugs-Cc: rekado@elephly.net Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-AS-Result: No-10--6.239400-5.000000 X-TMASE-MatchedRID: toN6SH028bX/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOjEIt+uIPPOAbo TDS3zulAcjTcMkuJPYkZijt1cgK90C/33TWoSUH6zYK5U+QI3O4XjfR3d0weRiVIhha/jkqKmA0 yITMNzjl9LQinZ4QefCP/VFuTOXUTae6hIZpj4Mv3FLeZXNZS4KBkcgGnJ4WmfRUz2Viisqd331 Svp5PK4C6Q2DXaCcBaikHrBYbg/d5+3BndfXUhXQ== X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--6.239400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-SNTS-SMTP: 689311F0382B49DBE1D2806701E90CD53E4BA088205BBB4251A623149805D2182002:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 59870 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-modeest): New variable. --- gnu/packages/cran.scm | 25 +++++++++++++++++++++++++ 1 file changed, 25 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 6239a53d85..4e35435e46 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -31049,6 +31049,31 @@ (define-public r-modeldata model-related packages.") (license license:expat))) +(define-public r-modeest + (package + (name "r-modeest") + (version "2.4.0") + (source (origin + (method url-fetch) + (uri (cran-uri "modeest" version)) + (sha256 + (base32 + "087dw0013y4m7fcl06mxylh9lnp6acysl80d80r9srv4pw4r950s")))) + (properties `((upstream-name . "modeest"))) + (build-system r-build-system) + (propagated-inputs + (list r-fbasics + r-stable + r-stabledist + r-statip)) + (home-page "https://github.com/paulponcet/modeest") + (synopsis "Mode estimations for univariate data or distributions") + (description + "The package provides estimators of the mode of univariate unimodal (and +sometimes multimodal) data and values of the modes of usual probability +distributions.") + (license license:gpl3))) + (define-public r-conflicted (package (name "r-conflicted") -- 2.38.1 From debbugs-submit-bounces@debbugs.gnu.org Wed Dec 07 00:19:13 2022 Received: (at 59870) by debbugs.gnu.org; 7 Dec 2022 05:19:13 +0000 Received: from localhost ([127.0.0.1]:47508 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpt-0007D6-4c for submit@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:13 -0500 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:37853) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpo-0007CG-E8 for 59870@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:11 -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=1670390342; x=1672204743; bh=ATVsCkQdK4k4PPD/BAJmU9pseD7z4iF+LCIGio/Lhac=; b=Dn8Oi8sIOF6g CV17kNo8QHrUMUqEGpoaIM0A4HwoG9G5a4FwKt2gq1MH4l7BEVZBBzcipDUcU/AN x2LSR3A6+lJCw3V56Mhxqp9TajBze7CBq6oj4RxxQaJPsM+J1JGza3YGtwk9jlYQ ODFEJ1ayQfA6NFmOsRsb2sjJimvkkoI= 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 id 43785300716 for <59870@debbugs.gnu.org>; Wed, 7 Dec 2022 06:19:02 +0100 (CET) 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 15.1.2507.16; Wed, 7 Dec 2022 06:18:59 +0100 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: <59870@debbugs.gnu.org> Subject: [PATCH 04/12] gnu: Add r-gss. Date: Wed, 7 Dec 2022 06:18:29 +0100 Message-ID: <20221207051837.10970-4-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 In-Reply-To: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> References: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Debbugs-Cc: rekado@elephly.net Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-AS-Result: No-10--0.161400-5.000000 X-TMASE-MatchedRID: 54gb2yeIOXT/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOjEIt+uIPPOAbo TDS3zulAcjTcMkuJPYkZijt1cgK90C/33TWoSUH6031Nfxfj2zMXjfR3d0weRm1/OiWPM9c7n02 DFUvUOhnLcfQpD4e5wmHdNGuvvf8oo8WMkQWv6iV3LAytsQR4e42j49Ftap9Eymsk/wUE4hrpCn PgkxvrgNCWmlPPcMrAgxux95Njew4GzXwcZ0PcBZMehxopYBw6mDqBf3z7UilXd8k+Wbf4ggsW3 xrgE9vDYfb48H35z9jjbMXojSkk1rTnVnv1JP77sGTvZJmllrz/PhPL0kApH8kjm+elEcbI X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--0.161400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-SNTS-SMTP: 0EEAD9D948B66061A8643473C449A79AAAEDA4B0A17CC391034FDAABB1726A292002:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 59870 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-gss): 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 b773c6aeb9..bb163aa47a 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -7228,6 +7228,26 @@ (define-public r-ggjoy plots in @code{ggplot2}.") (license license:gpl2))) +(define-public r-gss + (package + (name "r-gss") + (version "2.2-3") + (source (origin + (method url-fetch) + (uri (cran-uri "gss" version)) + (sha256 + (base32 + "0jr45lkpcndg5nynjsfnxn1wwkh4gkhsgv4hlvw6jn2frw0n8c14")))) + (properties `((upstream-name . "gss"))) + (build-system r-build-system) + (native-inputs (list gfortran)) + (home-page "https://cran.r-project.org/package=gss") + (synopsis "General smoothing splines") + (description + "This package provides a comprehensive collection for structural multivariate +function estimation using smoothing splines.") + (license license:gpl2+))) + (define-public r-cli (package (name "r-cli") -- 2.38.1 From debbugs-submit-bounces@debbugs.gnu.org Wed Dec 07 00:19:18 2022 Received: (at 59870) by debbugs.gnu.org; 7 Dec 2022 05:19:18 +0000 Received: from localhost ([127.0.0.1]:47517 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpy-0007Du-Gh for submit@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:18 -0500 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:37651) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpm-0007Bv-53 for 59870@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:13 -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 :x-mailer:message-id:date:date:subject:subject:from:from :received; s=mdc; t=1670390339; x=1672204740; bh=xwZtdCWIMWMIpRc 59Oqv4tdQBrIzBGtNYfvw4nFZvwQ=; b=jpBcLn8MiEYCYWPz5MaCLvudXSQQr7l T3FJ6VDRojHdo1V88heXIrL9JcU4lwelNhAmKkFJ8fyXMvj2J13ABm7BjWkOcp3/ k8CjK/ZMsHUqyxsfZzphserxt1FIIkwliSlvhLC2P6XWVfuCbnAHbGM1ATvAFiPD 8gkhtGwV2+RA= 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 id B0E273006A9 for <59870@debbugs.gnu.org>; Wed, 7 Dec 2022 06:18:59 +0100 (CET) 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 15.1.2507.16; Wed, 7 Dec 2022 06:18:58 +0100 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: <59870@debbugs.gnu.org> Subject: [PATCH 01/12] gnu: Add r-statip. Date: Wed, 7 Dec 2022 06:18:26 +0100 Message-ID: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 MIME-Version: 1.0 X-Debbugs-Cc: rekado@elephly.net Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-AS-Result: No-10--8.080600-5.000000 X-TMASE-MatchedRID: 4RK2gbhxGJP/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOjEIt+uIPPOEKo /65yrX6peDD58ltWiLmBUGewL2YXt8Z8zsjIitoJnVTWWiNp+v8XjfR3d0weRm1/OiWPM9c7r0h RYOhqtKMXjQchKpIrqsign5HsLTCTw+spnTDuewNvTnqYKYXTRuuLFZZYlisfHxPMjOKY7A9qHX ONfTwSQsRB0bsfrpPIXzYxeQR1DvtRmtBeZHy9SRTqxTCCjZBh4yH///ocVhlj0HM3KgXIPeZrF VofeSNA X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--8.080600-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-SNTS-SMTP: C24FEB299030CA1836B21491BD1F26B690BF80A193ECD542B3C1B1358B7C415A2002:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 59870 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-statip): New variable. --- gnu/packages/cran.scm | 35 +++++++++++++++++++++++++++++++++++ 1 file changed, 35 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 5c5258d6e0..d23265ad07 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -6452,6 +6452,41 @@ (define-public r-corrplot ;; Any version of the GPL (license license:gpl2+))) +(define-public r-statip + (package + (name "r-statip") + (version "0.2.3") + (source (origin + (method url-fetch) + (uri (cran-uri "statip" version)) + (sha256 + (base32 + "0kymc3ds1nx0h11ffmm3vmqr1w34gd0k788vf72x2v45h8c1ma2n")))) + (properties `((upstream-name . "statip"))) + (build-system r-build-system) + (propagated-inputs + (list r-clue + r-rpart)) + (home-page "https://github.com/paulponcet/statip") + (synopsis + "Statistical functions for probability distributions and regression") + (description + "This package provides a collection of miscellaneous statistical functions for: +@itemize +@item probability distributions: @code{dbern()}, @code{pbern()}, @code{qbern()}, +@code{rbern()} for the Bernoulli distribution, and @code{distr2name()}, @code{ +name2distr()} for distribution names; +@item probability density estimation: @code{densityfun()}; +@item most frequent value estimation: @code{mfv()}, @code{mfv1()}; +@item other statistical measures of location: @code{cv()} (coefficient of +variation), @code{midhinge()}, @code{midrange()}, @code{trimean()}; +@item construction of histograms: @code{histo()}, @code{find_breaks()}; +@item calculation of the Hellinger distance: @code{hellinger()}; +@item use of classical kernels: @code{kernelfun()}, @code{kernel_properties()}; +@item univariate piecewise-constant regression: @code{picor()}. +@end itemize") + (license license:gpl3))) + (define-public r-stringdist (package (name "r-stringdist") base-commit: b2a848d23d37f31496e1ff664f1dcf6abcdcc388 -- 2.38.1 From debbugs-submit-bounces@debbugs.gnu.org Wed Dec 07 00:19:19 2022 Received: (at 59870) by debbugs.gnu.org; 7 Dec 2022 05:19:19 +0000 Received: from localhost ([127.0.0.1]:47519 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpy-0007E0-Sz for submit@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:19 -0500 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:39951) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpu-0007CO-0t for 59870@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:14 -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=1670390343; x=1672204744; bh=wYbEipAluyOGmVecpYNQ82Q1X1M7agO9n7fEdGSp7tc=; b=BKPAWvgj9ukm WKDtIg4kPVPrIwj1A6tLZahAJ51BKfR4e3+63ermjZ0oi7Lrt8pXhBecPXnNQ7cW QtA3om2bNtCe5EWM63Z9iKgEmcdT8wVq27meMgdwsxLloE4++VOWlUL4rWSlhYVn qmJBCc7241tlHzgLBDe7i/ueKg3U9tM= 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 id B99F430073C for <59870@debbugs.gnu.org>; Wed, 7 Dec 2022 06:19:03 +0100 (CET) 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 15.1.2507.16; Wed, 7 Dec 2022 06:18:59 +0100 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: <59870@debbugs.gnu.org> Subject: [PATCH 05/12] gnu: Add r-timeseries. Date: Wed, 7 Dec 2022 06:18:30 +0100 Message-ID: <20221207051837.10970-5-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 In-Reply-To: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> References: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Debbugs-Cc: rekado@elephly.net Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-AS-Result: No-10-1.873300-5.000000 X-TMASE-MatchedRID: I6rpFm0lrcP/R1NSMc2qCU7nLUqYrlslFIuBIWrdOePfUZT83lbkEOS9 slBM8vbuRRa406V/YwyBUGewL2YXt8Z8zsjIitoJnVTWWiNp+v9ZD5CwN3C0B4EUy3rEjn6x2Lg EVfggSlhgiwS7hdc2+2m8QSig8uOCULz7LbSkB2Srm7DrUlmNkIAy6p60ZV62yA7duzCw6dLdB/ CxWTRRu3aDLLDbFMGFejrl//3wGecUSiwMc3UmHG/0GFHEYlodTCx+lYLZR5q6pVI+v8YImmqtP aNyu62NoFh3pFVLEBfyTk+5c78ZDHnSHkWC6fvWx6Xh3Vy4y2+O91s7FwLn8xC2a7GIAOqG8ody TXpQo3UZHwBcdw5+Mg== X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10-1.873300-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-SNTS-SMTP: 3020E443F0705A77A60ADF9D755A18FCCB016AEDB2ADA0B271C337E4FC50BE2E2002:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 59870 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-timeseries): New variable. --- gnu/packages/cran.scm | 22 ++++++++++++++++++++++ 1 file changed, 22 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index bb163aa47a..36c1d72a66 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -7357,6 +7357,28 @@ (define-public r-processx timeout. It can also poll several processes at once.") (license license:expat))) +(define-public r-timeseries + (package + (name "r-timeseries") + (version "4021.105") + (source (origin + (method url-fetch) + (uri (cran-uri "timeSeries" version)) + (sha256 + (base32 + "1k6vihbs20m7zjrxh13y9mmsvnia3844c7j13p0b7m5i9fb6rqxz")))) + (properties `((upstream-name . "timeSeries"))) + (build-system r-build-system) + (propagated-inputs (list r-timedate)) + (home-page + "https://r-forge.r-project.org/scm/viewvc.php/pkg/timeSeries/?root=rmetrics") + (synopsis "Metrics for financial time series objects") + (description + "This package implements S4 classes and various tools for financial time series. +Basic functions such as scaling and sorting, subsetting, mathematical operations +and statistical functions are provided.") + (license license:gpl2+))) + (define-public r-tsp (package (name "r-tsp") -- 2.38.1 From debbugs-submit-bounces@debbugs.gnu.org Wed Dec 07 00:19:19 2022 Received: (at 59870) by debbugs.gnu.org; 7 Dec 2022 05:19:19 +0000 Received: from localhost ([127.0.0.1]:47521 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpz-0007E3-8R for submit@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:19 -0500 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:48801) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpu-0007CP-13 for 59870@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:14 -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=1670390344; x=1672204745; bh=w0LVLZo16y9IncXMdZwqGuU+S2lxGPqekJxnu3A++Bc=; b=HrhVGxm/VX3Q S828oNkdq42Jy0ZUnuHOF5hxzAXUC+xyaqJNGHSlbfXxBJNTnZaRWi/TrddYfzdN 1O9nvHDEGFF2pMIMq+2I8M7sUVmQdNQnR1/GIchryNyTAimvqDehWZFyq17NBWPw /qnMDLrgrPn6ZtSEAAxKZfWyDfI9t80= 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 id 6D33B300740 for <59870@debbugs.gnu.org>; Wed, 7 Dec 2022 06:19:04 +0100 (CET) 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 15.1.2507.16; Wed, 7 Dec 2022 06:18:59 +0100 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: <59870@debbugs.gnu.org> Subject: [PATCH 06/12] gnu: Add r-fbasics. Date: Wed, 7 Dec 2022 06:18:31 +0100 Message-ID: <20221207051837.10970-6-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 In-Reply-To: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> References: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Debbugs-Cc: rekado@elephly.net Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-AS-Result: No-10--0.116700-5.000000 X-TMASE-MatchedRID: 54gb2yeIOXT/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOjEIt+uIPPOAbo TDS3zulAcjTcMkuJPYkZijt1cgK90C/33TWoSUH6031Nfxfj2zMXjfR3d0weRqhr7HSkxpsOd7p d2DmSrK9enLYyFkZCqUDnF5Cs3dOA0N7DjAdxZNTi8zVgXoAltsIJ+4gwXrEtwrbXMGDYqV9FwN IqCPogbW1SVmcNg1UAVT9Uu7wlcoOsx/xrcuoVN7QqFK3Qbhw0OrOXuBQE+VpVSrY1/kkOmpnli CCxdLs8xq6pm8A0gVvX/tOcZihP9ChCDgyssE8uo3yYJV8x0OrMUVc0s17dsX/q4TD2v7K1 X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--0.116700-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-SNTS-SMTP: C15102B6F06D04E05C1F33407B0EFD4EB97959950940D7BD7CECE310E27AA4902002:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 59870 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-fbasics): New variable. --- gnu/packages/cran.scm | 30 ++++++++++++++++++++++++++++++ 1 file changed, 30 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 36c1d72a66..6239a53d85 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -8364,6 +8364,36 @@ (define-public r-extradistr multivariate distributions.") (license license:gpl2))) +(define-public r-fbasics + (package + (name "r-fbasics") + (version "4021.93") + (source (origin + (method url-fetch) + (uri (cran-uri "fBasics" version)) + (sha256 + (base32 + "1lmmdwzvqhggy6rr7yc9y5f8hxxgyzsgwm3ry0sz5ljbgfijl7g6")))) + (properties `((upstream-name . "fBasics"))) + (build-system r-build-system) + (propagated-inputs + (list r-gss + r-mass + r-spatial + r-stabledist + r-timedate + r-timeseries)) + (home-page + "https://r-forge.r-project.org/scm/viewvc.php/pkg/fBasics/?root=rmetrics") + (synopsis "Metrics for markets and basic statistics") + (description + "This package provides a collection of functions to explore and to investigate +basic properties of financial returns and related quantities. The covered fields +include techniques of explorative data analysis and the investigation of +distributional properties, including parameter estimation and hypothesis testing. +Even more, there are several utility functions for data handling and management.") + (license license:gpl2+))) + (define-public r-fractal (package (name "r-fractal") -- 2.38.1 From debbugs-submit-bounces@debbugs.gnu.org Wed Dec 07 00:19:20 2022 Received: (at 59870) by debbugs.gnu.org; 7 Dec 2022 05:19:20 +0000 Received: from localhost ([127.0.0.1]:47523 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpz-0007EA-Jx for submit@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:19 -0500 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:37877) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpu-0007CW-Cd for 59870@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:15 -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=1670390345; x=1672204746; bh=7SUFviRB/oUUcTndCGElj/acTZgMzGUwSzp4crxCT8k=; b=VgjTcP9dUMz8 GVwsjEBWFmayuavn/9NadZwWUbsvIGNiew07cVmP+jp/wr0AZFJTiHHFjx8bHoky 0ZTVCsyGncpTFXYyHhhFFDGHaiCXM9mjhcUvWcVj7HItmaP43vJC7xuaoxgIx06o WT6cTBW4walIyeLNUAA26qnrF91QuTk= 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 id 227E330077A for <59870@debbugs.gnu.org>; Wed, 7 Dec 2022 06:19:05 +0100 (CET) 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 15.1.2507.16; Wed, 7 Dec 2022 06:19:00 +0100 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: <59870@debbugs.gnu.org> Subject: [PATCH 08/12] gnu: Add r-dirmult. Date: Wed, 7 Dec 2022 06:18:33 +0100 Message-ID: <20221207051837.10970-8-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 In-Reply-To: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> References: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Debbugs-Cc: rekado@elephly.net Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-AS-Result: No-10--0.689400-5.000000 X-TMASE-MatchedRID: 4r2MyAYFTnf/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOjEIt+uIPPONi4 BFX4IEpYsU8ECLuhDYvuNT8xdcEnQwE+dA3RWUSvwLYk+NSxc5r4qCLIu0mtIMay5jJvrxqMUcu XqbI7kpqI0Ejneva935soi2XrUn/J8m+hzBStantdY+ZoWiLIm8K21zBg2Klflu/VKvCjKPWBl/ vWluxOLPYP5TT2Ocw4rnx/FPSTKE8/v9uN2Y4UUoZXWPPDi0U6xHHbopqvg0s2T1nsZUd9613g1 hA7A4O27H2pe2KV7qMoQg4MrLBPLqN8mCVfMdDqzFFXNLNe3bF/6uEw9r+ytQ== X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--0.689400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-SNTS-SMTP: 9CAA764F46AEB68BD8F9542EFA179723E40897ECD4676BD64A8C42F42D86ADE92002:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 59870 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-dirmult): New variable. --- gnu/packages/cran.scm | 19 +++++++++++++++++++ 1 file changed, 19 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 4e35435e46..415098aed3 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -399,6 +399,25 @@ (define-public r-dirichletreg (description "This package implements Dirichlet regression models.") (license license:gpl2+))) +(define-public r-dirmult + (package + (name "r-dirmult") + (version "0.1.3-5") + (source (origin + (method url-fetch) + (uri (cran-uri "dirmult" version)) + (sha256 + (base32 + "05whzhl81nyag7321hw98xa63r440s9bgj1764346yvm9bvzjqi4")))) + (properties `((upstream-name . "dirmult"))) + (build-system r-build-system) + (home-page "https://cran.r-project.org/package=dirmult") + (synopsis "Estimation in Dirichlet-Multinomial distribution") + (description + "This package estimates the parameters in Dirichlet-Multinomial and computes +log-likelihoods.") + (license license:gpl2+))) + (define-public r-dixontest (package (name "r-dixontest") -- 2.38.1 From debbugs-submit-bounces@debbugs.gnu.org Wed Dec 07 00:19:20 2022 Received: (at 59870) by debbugs.gnu.org; 7 Dec 2022 05:19:20 +0000 Received: from localhost ([127.0.0.1]:47525 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpz-0007EH-VP for submit@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:20 -0500 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:43903) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpu-0007Cd-Sl for 59870@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:15 -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=1670390346; x=1672204747; bh=HjOetRMGwmdzb5E5liXCcMdzJBJppx2DgY4b85kSZZI=; b=gbfQf0GmU6wU bzPQE3zhX0CDb0fOEFwzzM9HZlmGN8tHkVAogOBWlehvVs+o9j/fdAWMfts3wizs sq96Exyu7eV1ycQEw1pE2sA2VIvF9Zc7MXrSF15WLq+iJ+RCQ7NJ32Llu82DTedU T4WEHcuYUkguOyWBmOGsIMlbpRzk3rY= 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 id 92576300867 for <59870@debbugs.gnu.org>; Wed, 7 Dec 2022 06:19:06 +0100 (CET) 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 15.1.2507.16; Wed, 7 Dec 2022 06:19:00 +0100 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: <59870@debbugs.gnu.org> Subject: [PATCH 10/12] gnu: Add r-gridsvg. Date: Wed, 7 Dec 2022 06:18:35 +0100 Message-ID: <20221207051837.10970-10-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 In-Reply-To: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> References: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Debbugs-Cc: rekado@elephly.net Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-AS-Result: No-10--5.031100-5.000000 X-TMASE-MatchedRID: n8dyCgqCzuv/R1NSMc2qCU7nLUqYrlslFIuBIWrdOePfUZT83lbkEFr6 eNFmZ6OLPG/R1GUal1XuNT8xdcEnQwE+dA3RWUSvwLYk+NSxc5r4qCLIu0mtIP+aPQT1cxlGqbs +nJ/tFJG+kQFb9aK4lGUH7KkSxgp9EwrLJRWzqcxFwYcRXRYHEFF5adRR2Ej1TKLVP0BSBRu+0h gQRIjbvyOW7RQQirqNElOOOz3JPpijxYyRBa/qJXcsDK2xBHh7jaPj0W1qn0TKayT/BQTiGkSsC aCt2sGtkYO9l8LBu7a1FEzVWtrMejDKc1zXnddqlR1KZuzjGJI= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--5.031100-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-SNTS-SMTP: 84404E9B3C17E229E6CAB7B6E4BDE7C316BCAEAFFA74AD581EF15A69EE16CB752002:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 59870 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-gridsvg): New variable. --- gnu/packages/cran.scm | 24 ++++++++++++++++++++++++ 1 file changed, 24 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 646737ea31..b61ee1c2dc 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -16005,6 +16005,30 @@ (define-public r-tractor-base handling.") (license license:gpl2))) +(define-public r-gridsvg + (package + (name "r-gridsvg") + (version "1.7-4") + (source (origin + (method url-fetch) + (uri (cran-uri "gridSVG" version)) + (sha256 + (base32 + "1jspjn56yrkx98hhs98npzm0k0kwpv8x1hg40kphx5ikhvincxmr")))) + (properties `((upstream-name . "gridSVG"))) + (build-system r-build-system) + (propagated-inputs + (list r-jsonlite + r-xml)) + (home-page "https://cran.r-project.org/package=gridSVG") + (synopsis "Export grid gaphics as SVG") + (description + "This package provides functions to export graphics drawn with package grid +to SVG format. Extra functions provide access to SVG features that are not +available in standard R graphics, such as hyperlinks, animation, filters, masks, +clipping paths, and gradient and pattern fills.") + (license (list license:gpl2 license:gpl3)))) ;;is specified only GPL + (define-public r-grimport (package (name "r-grimport") -- 2.38.1 From debbugs-submit-bounces@debbugs.gnu.org Wed Dec 07 00:19:22 2022 Received: (at 59870) by debbugs.gnu.org; 7 Dec 2022 05:19:22 +0000 Received: from localhost ([127.0.0.1]:47527 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mq1-0007ET-Ir for submit@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:21 -0500 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:39401) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpu-0007CX-DI for 59870@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:15 -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=1670390345; x=1672204746; bh=zj7euM5vRHgSm0vUoIhSuuSA5ela1TDTmbPLYpgEEOM=; b=ZnMsx2i24hGi OHoHMd5pEBiLp312WU5rVa6h2G+/NzGd/Q8ZoIktYkLaG3Vfi+JZEv+TOH73wXa9 VN8uDwK1d/0UHfC9hNHxh8Ex2kPb/JuTglTJFah0nWjXT48Fpwh/GNMIAmiMxZ3E P1OkJI1n1gjtFI5I9ludhDzHGySEFfw= 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 id CAB7B3007A9 for <59870@debbugs.gnu.org>; Wed, 7 Dec 2022 06:19:05 +0100 (CET) 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 15.1.2507.16; Wed, 7 Dec 2022 06:19:00 +0100 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: <59870@debbugs.gnu.org> Subject: [PATCH 09/12] gnu: Add r-gunifrac. Date: Wed, 7 Dec 2022 06:18:34 +0100 Message-ID: <20221207051837.10970-9-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 In-Reply-To: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> References: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Debbugs-Cc: rekado@elephly.net Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-AS-Result: No-10--1.655400-5.000000 X-TMASE-MatchedRID: GQw6Xh/XS6X/R1NSMc2qCU7nLUqYrlslFIuBIWrdOePfUZT83lbkEIkv NBTh771pRRa406V/YwyBUGewL2YXt8Z8zsjIitoJnVTWWiNp+v/kwFzTzcgzhFjGZC+u+XgRqbs +nJ/tFJF8lvVVMz3+Hf+CEHfQvY8OxHGd06V1VMbjrrKx28A9XtG3Y6ijqBt3TPm/MsQarwMHyE fDs9bIX2HRhqxXn1h/ElOOOz3JPpijxYyRBa/qJcFwgTvxipFa9xS3mVzWUuAojN1lLei7Raw52 41lezYT74/8rJj3yBP6nobMBs9LOmg/Ekz0UeVTuq3PsgNpD5Xx3QAEnFDftNNE8n5DqWZqTRsK iSYyF2xnP5GcedXM/1koJqWxWZxCNZA9irUk5qtj27eUrb9iufzsdE1PQouS X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--1.655400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-SNTS-SMTP: C3E1EF2E438F2F37F42448E3C84251A95CCE06496CEB40A133028A8260F005792002:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 59870 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-gunifrac): New variable. --- gnu/packages/cran.scm | 44 +++++++++++++++++++++++++++++++++++++++++++ 1 file changed, 44 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 415098aed3..646737ea31 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -667,6 +667,50 @@ (define-public r-guix-install repositories, replacing the need for installation via @code{devtools}.") (license license:gpl3+))) +(define-public r-gunifrac + (package + (name "r-gunifrac") + (version "1.7") + (source (origin + (method url-fetch) + (uri (cran-uri "GUniFrac" version)) + (sha256 + (base32 + "13qb5fw9km6p5x8li9x3liqbh833wf2v73npj8jl3msplzfk82vp")))) + (properties `((upstream-name . "GUniFrac"))) + (build-system r-build-system) + (propagated-inputs + (list r-ape + r-dirmult + r-foreach + r-ggplot2 + r-ggrepel + r-mass + r-matrix + r-matrixstats + r-modeest + r-rcpp + r-rmutil + r-statmod + r-vegan)) + (native-inputs (list r-knitr)) + (home-page "https://cran.r-project.org/package=GUniFrac") + (synopsis + "Generalized UniFrac distances and methods for microbiome data analysis") + (description + "This package provides a suite of methods for powerful and robust microbiome +data analysis, including data normalization, data simulation, community-level +association testing and differential abundance analysis. It implements generalized +UniFrac distances, Geometric Mean of Pairwise Ratios (GMPR) normalization, +semiparametric data simulator, distance-based statistical methods, and feature- +based statistical methods. The distance-based statistical methods include three +extensions of PERMANOVA: (1) PERMANOVA using the Freedman-Lane permutation scheme, +(2) PERMANOVA omnibus test using multiple matrices, and (3) analytical approach +to approximating PERMANOVA p-value. Feature-based statistical methods include +linear model-based methods for differential abundance analysis of zero-inflated +high-dimensional compositional data.") + (license license:gpl3))) + (define-public r-ids (package (name "r-ids") -- 2.38.1 From debbugs-submit-bounces@debbugs.gnu.org Wed Dec 07 00:19:22 2022 Received: (at 59870) by debbugs.gnu.org; 7 Dec 2022 05:19:22 +0000 Received: from localhost ([127.0.0.1]:47529 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mq1-0007EV-V6 for submit@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:22 -0500 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:47555) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpu-0007Ce-TU for 59870@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:15 -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=1670390347; x=1672204748; bh=7VCB+SGdkC6H0XRCO26pd+Di4q1qVwujkzuTFaC20R4=; b=G6nH2n8KlgYE MEqObIswKjdktQjeiH6zuHS8woUAlXCypmtSK9ibWokttepdUqDEvbsxz/0OBdfL zQDgiPOmD3qonqOXoPRZ5oLKAUruN/pwFhguEZFs89/2UymGxYTV9+V+842k55Fg xBo1Dbga22A7F7GZhLq1OBDe8tRqACI= 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 id 43E2430091D for <59870@debbugs.gnu.org>; Wed, 7 Dec 2022 06:19:07 +0100 (CET) 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 15.1.2507.16; Wed, 7 Dec 2022 06:19:00 +0100 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: <59870@debbugs.gnu.org> Subject: [PATCH 11/12] gnu: Add r-plotroc. Date: Wed, 7 Dec 2022 06:18:36 +0100 Message-ID: <20221207051837.10970-11-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 In-Reply-To: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> References: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Debbugs-Cc: rekado@elephly.net Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-AS-Result: No-10--1.044400-5.000000 X-TMASE-MatchedRID: /+von0vPuFH/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOjEIt+uIPPOAbo TDS3zulAcjTcMkuJPYkZijt1cgK90C/33TWoSUH6MKPrF7dK57PTJ9mFZmKqMaY5ZGw7wyeHnUL NgN42j5OWUdTYM5bcqmHdNGuvvf8oo8WMkQWv6iXBcIE78YqRWvcUt5lc1lLgNedi3nDhxyP/it a+mP1RyIaFOzxH3U6EhjGsKTKwfrWdw+hDS1QwP2dR/9bL4U2q2We3mvn2j4v4pISRyw7xq00Kp rl4g/QMvGOp8yjknPVrfyealJIhCdm2xSyikSK/tOdWe/Uk/vuwZO9kmaWWvP8+E8vSQCkfySOb 56URxsg= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--1.044400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-SNTS-SMTP: 736D371804D21EC95818EC69E11948AA6EA80D7CF942D164666882BA5186978E2002:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 59870 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-plotroc): New variable. --- gnu/packages/cran.scm | 30 ++++++++++++++++++++++++++++++ 1 file changed, 30 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index b61ee1c2dc..87c22810d5 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -21844,6 +21844,36 @@ (define-public r-plot3d includes data sets from oceanography.") (license license:gpl3+))) +(define-public r-plotroc + (package + (name "r-plotroc") + (version "2.3.0") + (source (origin + (method url-fetch) + (uri (cran-uri "plotROC" version)) + (sha256 + (base32 + "0kaz9hrimi9gi7cf7flag9kc9yrg5fdyylqa5hn53x4dy8vhj37g")))) + (properties `((upstream-name . "plotROC"))) + (build-system r-build-system) + (propagated-inputs + (list r-ggplot2 + r-gridsvg + r-plyr + r-rlang + r-shiny)) + (native-inputs (list r-knitr)) + (home-page "https://sachsmc.github.io/plotROC/") + (synopsis "Generating useful receiver operating characteristic curve charts") + (description + "This package generates @acronym{ROC, receiver operating characteristic} +plots. Most ROC curve plots obscure the cutoff values and inhibit interpretation +and comparison of multiple curves. This attempts to address those shortcomings +by providing plotting and interactive tools. Functions are provided to generate +an interactive ROC curve plot for web use, and print versions. A Shiny application +implementing the functions is also included.") + (license license:expat))) + (define-public r-ggfortify (package (name "r-ggfortify") -- 2.38.1 From debbugs-submit-bounces@debbugs.gnu.org Wed Dec 07 00:19:22 2022 Received: (at 59870) by debbugs.gnu.org; 7 Dec 2022 05:19:22 +0000 Received: from localhost ([127.0.0.1]:47531 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mq2-0007Ec-BH for submit@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:22 -0500 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:36271) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p2mpx-0007Cy-2Z for 59870@debbugs.gnu.org; Wed, 07 Dec 2022 00:19:17 -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=1670390348; x=1672204749; bh=PfuLDbpTjdTyBtN7InKHWZwXtBi56fr6prv8AK+MlDk=; b=PsChHIPYQd5q Rrzw3OEX1oAx/Ukz3BPXexkga+L9sV3xJ/f8XZosgeqTifwwdTK+Bnine4LERFGT nkDFqWGsI85Ck6NtOhe0D53u3WiY9abKY6CkmqVOzu82t0oNxT3tVC9JNZjCr8wD m/2SnOJKjr+upEaZg5P8By810jObe+g= 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 id 15D9D300B28 for <59870@debbugs.gnu.org>; Wed, 7 Dec 2022 06:19:08 +0100 (CET) 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 15.1.2507.16; Wed, 7 Dec 2022 06:19:00 +0100 From: =?UTF-8?q?M=C4=83d=C4=83lin=20Ionel=20Patra=C8=99cu?= To: <59870@debbugs.gnu.org> Subject: [PATCH 12/12] gnu: Add r-animalcules. Date: Wed, 7 Dec 2022 06:18:37 +0100 Message-ID: <20221207051837.10970-12-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 In-Reply-To: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> References: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Debbugs-Cc: rekado@elephly.net Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-AS-Result: No-10--1.725000-5.000000 X-TMASE-MatchedRID: 2wfub8HDRfP/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOjEIt+uIPPOAbo TDS3zulAcjTcMkuJPYm1DbTJ4zfWDgC/7jpOTiX0nVTWWiNp+v+8dD/nSmJH96Y5ZGw7wyeHErt lZcGFTg4SO+yGI9MqX/NrCTKGuaZaFzVT4QVLabIDcpIHX6zciH+Z1dLfvRuhU72YOAMDJjieAi CmPx4NwBnUJ0Ek6yhjxEHRux+uk8jfhP1xgyx3DMsSVmWQK0n3aN5Y9ORYSR2WrfLvdCue05n81 eQvZ3Ryu0zLh7y/RISa7ACR9Bs4j/xdilpX6a6+fZnYwiQfY0zm7eR1xGmsD9xSR7be7fnTFTs4 ljtt094P2K/+wkyxVzs7KL+6XFB4pSBl0hpeDh8= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--1.725000-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27308.005 X-TM-SNTS-SMTP: 8F5466B84994C50A8B4F0DE6061B1E520328C3B7946EEA535DFB7E0C77679C362002:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 59870 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-animalcules): New variable. --- gnu/packages/bioconductor.scm | 59 +++++++++++++++++++++++++++++++++++ 1 file changed, 59 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index c62c5970b8..fa5b38be86 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -2337,6 +2337,65 @@ (define-public r-ancombc these biases and construct statistically consistent estimators.") (license license:artistic2.0))) +(define-public r-animalcules + (package + (name "r-animalcules") + (version "1.14.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "animalcules" version)) + (sha256 + (base32 + "1alpsamrglgvzhcibkaf7m3gyiv61wbj1gvsq4lw6vjka100j9qr")))) + (properties `((upstream-name . "animalcules"))) + (build-system r-build-system) + (propagated-inputs + (list r-ape + r-assertthat + r-biomformat + r-caret + r-covr + r-deseq2 + r-dplyr + r-dt + r-forcats + r-ggplot2 + r-glmnet + r-gunifrac + r-lattice + r-limma + r-magrittr + r-matrix + r-multiassayexperiment + r-plotly + r-plotroc + r-rentrez + r-reshape2 + r-s4vectors + r-scales + r-shiny + r-shinyjs + r-summarizedexperiment + r-tibble + r-tsne + r-umap + r-vegan + r-xml)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/compbiomed/animalcules") + (synopsis "Interactive microbiome analysis toolkit") + (description + "@code{Animalcules} is an R package for utilizing up-to-date data analytics, +visualization methods, and machine learning models to provide users an easy-to-use +interactive microbiome analysis framework. It can be used as a standalone software +package or users can explore their data with the accompanying interactive R Shiny +application. Traditional microbiome analysis such as alpha/beta diversity and +differential abundance analysis are enhanced, while new methods like biomarker +identification are introduced by animalcules. Powerful interactive and dynamic +figures generated by animalcules enable users to understand their data better and +discover new insights.") + (license license:artistic2.0))) + (define-public r-aldex2 (package (name "r-aldex2") -- 2.38.1 From debbugs-submit-bounces@debbugs.gnu.org Mon Dec 12 11:45:35 2022 Received: (at 59870-done) by debbugs.gnu.org; 12 Dec 2022 16:45:35 +0000 Received: from localhost ([127.0.0.1]:54027 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p4lvq-0000hN-Rx for submit@debbugs.gnu.org; Mon, 12 Dec 2022 11:45:35 -0500 Received: from sender3-of-o59.zoho.com ([136.143.184.59]:21978) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p4lvo-0000hH-7P for 59870-done@debbugs.gnu.org; Mon, 12 Dec 2022 11:45:33 -0500 ARC-Seal: i=1; a=rsa-sha256; t=1670863529; cv=none; d=zohomail.com; s=zohoarc; b=fayCVroRkJ4WWwCKLHeI12JTnz8ExJX5S9fviFc4EDeUuSmMEH/CaNB9W7PIX0uF+4fSiS3UX8kbkRalNlaIvfyXTIuumSOSrilj493u8MFzRbczUxSZbSeDJwdcdxEc+p4nXYJUzO05Wr1D/ZzApsAtu/Yyha2S9Au9oCrKaw4= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zohomail.com; s=zohoarc; t=1670863529; h=Content-Type:Cc:Date:From:In-Reply-To:MIME-Version:Message-ID:References:Subject:To; bh=MNJJQwHJgU2Fy1vHtGmpDDKMUdVtKzBNVUAYm+xUNj8=; b=l94T0mBe/H7OlzuSZlEu5u4J6YqgK5r8UJGx/5u7n08JXRR7g3IBYi9XqPS0ALC9wuie8nvkRNGh2tjdgCcZl1iy31vLO2gG8tyZLTZFVv2NZQ6TiaTCF4hnEmMCtEbOdqbe35jtKARujmgl2X3qPjCvkOSMsv427QP/A/dS9K4= 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=1670863529; s=zoho; d=elephly.net; i=rekado@elephly.net; h=References:From:From:To:To:Cc:Cc:Subject:Subject:Date:Date:In-reply-to:Message-ID:MIME-Version:Content-Type:Message-Id:Reply-To; bh=MNJJQwHJgU2Fy1vHtGmpDDKMUdVtKzBNVUAYm+xUNj8=; b=W3fCSfjQQYJswVJB3zed6rAiHkhG7sGIgi9BtytaAmCrxI88RB6oOCELtAlP9dd0 1lKGY5BnydKbc+c6JLOt0x7qRiZRFw1nrX3f39daF2lEjhYyQVJKF6LJYcymiEcJ1mq pb1o5/x3R7CsAWTW3ax+fU7gWk67MhivGXFnPHw4= Received: from localhost (48-111-142-46.pool.kielnet.net [46.142.111.48]) by mx.zohomail.com with SMTPS id 1670863528407468.542392425102; Mon, 12 Dec 2022 08:45:28 -0800 (PST) References: <8e198ab0c3044a9fbf8488431475f0e7@mdc-berlin.de> <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de> User-agent: mu4e 1.8.11; emacs 28.2 From: Ricardo Wurmus To: =?utf-8?B?TcSDZMSDbGlu?= Ionel =?utf-8?Q?Patra=C8=99cu?= Subject: Re: [bug#59870] [PATCH 01/12] gnu: Add r-statip. Date: Mon, 12 Dec 2022 17:44:45 +0100 In-reply-to: <20221207051837.10970-1-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: <874ju03716.fsf@elephly.net> MIME-Version: 1.0 Content-Type: text/plain X-ZohoMailClient: External X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 59870-done Cc: 59870-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 (-) I applied this patch series with mostly minor changes, except for r-plotroc, which required more effort to replace the minified JavaScript. -- Ricardo From unknown Tue Jun 17 20:18:57 2025 Received: (at fakecontrol) by fakecontrolmessage; To: internal_control@debbugs.gnu.org From: Debbugs Internal Request Subject: Internal Control Message-Id: bug archived. 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