From patchwork Fri Nov 3 16:30:00 2023 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: =?utf-8?b?TcSDZMSDbGluIElvbmVsIFBhdHJhyJljdQ==?= X-Patchwork-Id: 55891 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id 7B6A427BBE9; Fri, 3 Nov 2023 16:31:56 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-2.7 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,SPF_HELO_PASS,URIBL_BLOCKED autolearn=unavailable autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 85B9B27BBE2 for ; Fri, 3 Nov 2023 16:31:55 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1qyx4z-0007Vz-56; Fri, 03 Nov 2023 12:31:29 -0400 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 1qyx4x-0007VO-G5 for guix-patches@gnu.org; Fri, 03 Nov 2023 12:31:27 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1qyx4x-0003sc-7p for guix-patches@gnu.org; Fri, 03 Nov 2023 12:31:27 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1qyx5W-00021N-9z; Fri, 03 Nov 2023 12:32:02 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#66921] [PATCH 1/5] gnu: Add r-evd. References: <2c190d93-8086-4dc0-b492-1ea17c9874e1@mdc-berlin.de> In-Reply-To: <2c190d93-8086-4dc0-b492-1ea17c9874e1@mdc-berlin.de> Resent-From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Original-Sender: "Debbugs-submit" Resent-CC: rekado@elephly.net, guix-patches@gnu.org Resent-Date: Fri, 03 Nov 2023 16:32:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 66921 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: <66921@debbugs.gnu.org> Cc: Ricardo Wurmus X-Debbugs-Original-Xcc: Ricardo Wurmus Received: via spool by 66921-submit@debbugs.gnu.org id=B66921.16990291167748 (code B ref 66921); Fri, 03 Nov 2023 16:32:02 +0000 Received: (at 66921) by debbugs.gnu.org; 3 Nov 2023 16:31:56 +0000 Received: from localhost ([127.0.0.1]:59620 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qyx5L-00020a-Rz for submit@debbugs.gnu.org; Fri, 03 Nov 2023 12:31:55 -0400 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]:35677) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qyx5G-000207-Mt for 66921@debbugs.gnu.org; Fri, 03 Nov 2023 12:31:50 -0400 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=1699029064; x=1700843465; bh=5pMg5XfrXWTqvCb L1cLxZrM0Ekv4TO46Q07WDa2UE1M=; b=BBnoAjXF4kuFh5KDDiW2lZ50QGCbVgO 1T10BIGIhrXkduqZN848lGGUv7mHHn571yFPQBEB8KcaxM8Cyf6102UEN3UzrbrI LW7VVgkwidEiQbZkUnvAvztghsGGEySv0nesOtCfgkNMseyGbbtN/ArJKN1QbezG ctgrxQJpRT7E= Received: from SW-IT-P-EX2.mdc-berlin.net (mgw2.mdc-berlin.de [141.80.113.60]) by a2062.mx.srv.dfn.de (Postfix) with ESMTPS id 71B76A0174 for <66921@debbugs.gnu.org>; Fri, 3 Nov 2023 17:31:04 +0100 (CET) Received: from Guix-Ubuntu18.04 (141.80.113.106) by SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.1.2507.34; Fri, 3 Nov 2023 17:31:03 +0100 From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Date: Fri, 3 Nov 2023 17:30:00 +0100 Message-ID: <295ae4566681826b406dea240db641124f1d60a0.1699029004.git.madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.41.0 MIME-Version: 1.0 X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX1.mdc-berlin.net (141.80.113.54) To SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27976.000 X-TM-AS-Result: No-10--8.361400-5.000000 X-TMASE-MatchedRID: 2wfub8HDRfP/R1NSMc2qCTiEPRj9j9rvwTlc9CcHMZerwqxtE531VIPc XuILVCbaRRa406V/YwyBUGewL2YXt8Z8zsjIitoJnVTWWiNp+v/kwFzTzcgzhKY5ZGw7wyeH866 N6THx1SGA4m0EjhcyjYek6stLzp1eWi8Qip68NgfdCok3ibXlQT5//buCv56OlwV2iaAfSWcURS Scn+QSXmVV1G+Ck2l7+gtHj7OwNO2BSJy8ngwKGQzrr1TrkQA6GSgUmIDWxjhbzBSDGJUaGvVuQ ov8MKK+TK7ELxaLNgE= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--8.361400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27976.000 X-TM-SNTS-SMTP: 017E2166C28323CD4563770B28C3ACC1B941D8BDF529C40BFED35F4DE185D6F72000:F X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org X-getmail-retrieved-from-mailbox: Patches * gnu/packages/cran.scm (r-evd): New variable. Change-Id: I1f3b2ee5829807f6f76cf87b4df43ae8005688bc --- gnu/packages/cran.scm | 22 ++++++++++++++++++++++ 1 file changed, 22 insertions(+) base-commit: a0a377fdd6c873aeb6340afeddcd23b4ead7657d diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index f2a035555b..b8ae1fad14 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -7112,6 +7112,28 @@ (define-public r-etrunct which should be seen for details.") (license license:expat))) +(define-public r-evd + (package + (name "r-evd") + (version "2.3-6.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "evd" version)) + (sha256 + (base32 "0wc95hfj0gwkyghipdrhwd3s6q2agh9x2wy6y7dr6mjw7wnmjb36")))) + (properties `((upstream-name . "evd"))) + (build-system r-build-system) + (home-page "https://cran.r-project.org/package=evd") + (synopsis "Functions for extreme value distributions") + (description + "This package extends simulation, distribution, quantile and density +functions to univariate and multivariate parametric extreme value distributions, +and provides fitting functions which calculate maximum likelihood estimates for +univariate and bivariate maxima models, and for univariate and bivariate +threshold models.") + (license license:gpl3))) + (define-public r-excelr (package (name "r-excelr") From patchwork Fri Nov 3 16:30:01 2023 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Patchwork-Submitter: =?utf-8?b?TcSDZMSDbGluIElvbmVsIFBhdHJhyJljdQ==?= X-Patchwork-Id: 55892 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id 8807F27BBE9; Fri, 3 Nov 2023 16:31:59 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-2.7 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,SPF_HELO_PASS,URIBL_BLOCKED autolearn=unavailable autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 60B0A27BBE2 for ; Fri, 3 Nov 2023 16:31:58 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1qyx50-0007WH-CJ; Fri, 03 Nov 2023 12:31:30 -0400 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 1qyx4x-0007VN-Fw for guix-patches@gnu.org; Fri, 03 Nov 2023 12:31:27 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1qyx4x-0003sb-7X for guix-patches@gnu.org; Fri, 03 Nov 2023 12:31:27 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1qyx5W-00021U-N2; Fri, 03 Nov 2023 12:32:02 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#66921] [PATCH 2/5] gnu: Add r-truncdist. Resent-From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Original-Sender: "Debbugs-submit" Resent-CC: rekado@elephly.net, guix-patches@gnu.org Resent-Date: Fri, 03 Nov 2023 16:32:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 66921 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: <66921@debbugs.gnu.org> Cc: Ricardo Wurmus X-Debbugs-Original-Xcc: Ricardo Wurmus Received: via spool by 66921-submit@debbugs.gnu.org id=B66921.16990291207760 (code B ref 66921); Fri, 03 Nov 2023 16:32:02 +0000 Received: (at 66921) by debbugs.gnu.org; 3 Nov 2023 16:32:00 +0000 Received: from localhost ([127.0.0.1]:59622 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qyx5Q-00020v-0l for submit@debbugs.gnu.org; Fri, 03 Nov 2023 12:32:00 -0400 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]:41529) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qyx5G-000208-Mr for 66921@debbugs.gnu.org; Fri, 03 Nov 2023 12:31:50 -0400 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= content-transfer-encoding:content-type:content-type:mime-version :references:in-reply-to:x-mailer:message-id:date:date:subject :subject:from:from:received; s=mdc; t=1699029065; x=1700843466; bh=z3LB7DTmwzW2RMbxwubXEL6gEiCqL9GOvF1pwPjKPKQ=; b=VX9DsnwhNhd6 G/30YXDB6Y5d7MBcESzjYr4UhJUL/Dl/XqmIfLJF6NpnZ/PJ6iveAAZwld8YLRnL piMU3S0TKr45L/C2tpYmjWII+1/hQI+K/HSRUzhAwsJmxurhm14wuF/ly7TeG3Gb v6LpQNkIRVuhL4ZGRwgOASnIGQSve2I= Received: from SW-IT-P-EX2.mdc-berlin.net (mgw2.mdc-berlin.de [141.80.113.60]) by a2062.mx.srv.dfn.de (Postfix) with ESMTPS id F348AA0184 for <66921@debbugs.gnu.org>; Fri, 3 Nov 2023 17:31:04 +0100 (CET) Received: from Guix-Ubuntu18.04 (141.80.113.106) by SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.1.2507.34; Fri, 3 Nov 2023 17:31:04 +0100 From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Date: Fri, 3 Nov 2023 17:30:01 +0100 Message-ID: <40689c5253a6f5caa435b3aaf6844d892c35a70d.1699029004.git.madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.41.0 In-Reply-To: <295ae4566681826b406dea240db641124f1d60a0.1699029004.git.madalinionel.patrascu@mdc-berlin.de> References: <295ae4566681826b406dea240db641124f1d60a0.1699029004.git.madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX1.mdc-berlin.net (141.80.113.54) To SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27976.000 X-TM-AS-Result: No-10-1.035700-5.000000 X-TMASE-MatchedRID: SzbEz7SZt2v/R1NSMc2qCTiEPRj9j9rvwTlc9CcHMZerwqxtE531VNnf JrUSEbFDN/cuMNJ8XfbuNT8xdcEnQwE+dA3RWUSvwLYk+NSxc5r4qCLIu0mtIP+aPQT1cxlGqbs +nJ/tFJHuEVrRP29I1v3YyLBPS3oVKnaxwk/RTBr1A8E3bi1JHM9SJbNoRDCLAhn751acftuYDT IhMw3OOX0tCKdnhB581kTfEkyaZdz6C0ePs7A07ba607moR85RK98MU2NIjcbYNH6PETb1HOaCB g/BzYjDCzbX9e2Tn5av7Vfb3BdqokGkic4gE/eFbOhivCzdl7IXZrMVAe1t4jiNfIGWyXmvdAnz xkc/wOO+Yl/q6i1mnv1mO1iYLJDqT4cbBIKMuHq+68HqACCvKA== X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10-1.035700-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27976.000 X-TM-SNTS-SMTP: DCB1A0646C3FCAC0D477637254B7E80769CB3ED2BF790E181B60DF8FFDE46D022000:F X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org X-getmail-retrieved-from-mailbox: Patches * gnu/packages/cran.scm (r-truncdist): New variable. Change-Id: Icb9f06a36e5ee5a58828dc2f496b71a850a911b9 --- gnu/packages/cran.scm | 24 ++++++++++++++++++++++++ 1 file changed, 24 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index b8ae1fad14..d7334963ec 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -8856,6 +8856,30 @@ (define-public r-truncnorm functions, as well as a random generation function.") (license license:gpl2))) +(define-public r-truncdist + (package + (name "r-truncdist") + (version "1.0-2") + (source + (origin + (method url-fetch) + (uri (cran-uri "truncdist" version)) + (sha256 + (base32 "02ihw4ixhadwr3sqm6r264i8vpcaz8pn69vkzabd8fwqvn5vcj5q")))) + (properties `((upstream-name . "truncdist"))) + (build-system r-build-system) + (propagated-inputs (list r-evd)) + (home-page "https://cran.r-project.org/package=truncdist") + (synopsis "Truncated random variables") + (description + "This package provides a collection of tools to evaluate probability density +functions, cumulative distribution functions, quantile functions and random +numbers for truncated random variables. These functions are provided to also +compute the expected value and variance. @acronym{Q-Q, quantile–quantile} plots +can be produced. All the probability functions in the stats, stats4 and evd +packages are automatically available for truncation.") + (license license:gpl2+))) + (define-public r-rsolnp (package (name "r-rsolnp") From patchwork Fri Nov 3 16:30:02 2023 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: =?utf-8?b?TcSDZMSDbGluIElvbmVsIFBhdHJhyJljdQ==?= X-Patchwork-Id: 55894 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id 239AD27BBE2; Fri, 3 Nov 2023 16:32:54 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-2.7 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id A1DD927BBEA for ; Fri, 3 Nov 2023 16:32:51 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1qyx67-00084m-P3; Fri, 03 Nov 2023 12:32:39 -0400 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 1qyx5y-00082d-EJ for guix-patches@gnu.org; Fri, 03 Nov 2023 12:32:30 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1qyx5v-0003zv-EJ for guix-patches@gnu.org; Fri, 03 Nov 2023 12:32:27 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1qyx6U-00023W-RF; Fri, 03 Nov 2023 12:33:02 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#66921] [PATCH 3/5] gnu: Add r-evmix. Resent-From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Original-Sender: "Debbugs-submit" Resent-CC: rekado@elephly.net, guix-patches@gnu.org Resent-Date: Fri, 03 Nov 2023 16:33:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 66921 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: <66921@debbugs.gnu.org> Cc: Ricardo Wurmus X-Debbugs-Original-Xcc: Ricardo Wurmus Received: via spool by 66921-submit@debbugs.gnu.org id=B66921.16990291327827 (code B ref 66921); Fri, 03 Nov 2023 16:33:02 +0000 Received: (at 66921) by debbugs.gnu.org; 3 Nov 2023 16:32:12 +0000 Received: from localhost ([127.0.0.1]:59632 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qyx5c-000222-8T for submit@debbugs.gnu.org; Fri, 03 Nov 2023 12:32:12 -0400 Received: from b2062.mx.srv.dfn.de ([194.95.234.172]:33653) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qyx5K-00020G-CC for 66921@debbugs.gnu.org; Fri, 03 Nov 2023 12:31:55 -0400 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=1699029067; x=1700843468; bh=QnmMNLDFP8FB7Hm1hnyG0FjwVt/8yoDsR8ZEx41c138=; b=aeGbyLKKQasQ eY9TAfH3hMx/DVnbghhvez0l256JOTZaeOFeizZ6zkPSKywzcShAnsMWYOyuGOJY rK1VMc4XCR/x+UGcxKrXlXPgk2dNWaFC06+HMid8N892UsgcmMMGizfEvM3vsN4V PAtVT0zxzyqkB6MEv/9wZSAKYQS4Ias= Received: from SW-IT-P-EX2.mdc-berlin.net (mgw2.mdc-berlin.de [141.80.113.60]) by b2062.mx.srv.dfn.de (Postfix) with ESMTPS id C84B31601B5 for <66921@debbugs.gnu.org>; Fri, 3 Nov 2023 17:31:07 +0100 (CET) Received: from Guix-Ubuntu18.04 (141.80.113.106) by SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.1.2507.34; Fri, 3 Nov 2023 17:31:05 +0100 From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Date: Fri, 3 Nov 2023 17:30:02 +0100 Message-ID: <1decef87f8fc7d344825970f0b5f51ad0e820d71.1699029004.git.madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.41.0 In-Reply-To: <295ae4566681826b406dea240db641124f1d60a0.1699029004.git.madalinionel.patrascu@mdc-berlin.de> References: <295ae4566681826b406dea240db641124f1d60a0.1699029004.git.madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX1.mdc-berlin.net (141.80.113.54) To SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27976.000 X-TM-AS-Result: No-10--7.892200-5.000000 X-TMASE-MatchedRID: GQw6Xh/XS6X/R1NSMc2qCTiEPRj9j9rvwTlc9CcHMZerwqxtE531VIPc XuILVCbaRRa406V/YwyBUGewL2YXt8Z8zsjIitoJ71Wx2uUbPLcO8pJojG7qSu88qtLWjN6Yqbs +nJ/tFJHlYbpH18QMCy4krlw9EMr9RFXsL2iM5nXZJrfdkZdZ1vSzAdIVxUnoNBBNXB5b9Mwv0l rIE3H9DsX4oKkYTfsImyiLZetSf8lBgw5G4NYCZN9pjzubZ2rHwrbXMGDYqV+J8YJgRrgXF13Eb CU7b34GYryyS1wNxnNsBjXdWSKf6uBIOtE7GK/i X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--7.892200-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27976.000 X-TM-SNTS-SMTP: 08EF2A835954EABCA5283E14A07FE1006D2AF47E1F25722B4671F6ABBE81EC562000:F X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org X-getmail-retrieved-from-mailbox: Patches * gnu/packages/cran.scm (r-evmix): New variable. Change-Id: I93152dee218e9cef85dd66e17231f1728f0ffb52 --- gnu/packages/cran.scm | 29 +++++++++++++++++++++++++++++ 1 file changed, 29 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index d7334963ec..bc3158eea6 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -7134,6 +7134,35 @@ (define-public r-evd threshold models.") (license license:gpl3))) +(define-public r-evmix + (package + (name "r-evmix") + (version "2.12") + (source + (origin + (method url-fetch) + (uri (cran-uri "evmix" version)) + (sha256 + (base32 "02rabc9snci00s1x7h0svfr66lmw1wjcdg0149wc52mnccsdaivf")))) + (properties `((upstream-name . "evmix"))) + (build-system r-build-system) + (propagated-inputs + (list r-gsl + r-mass + r-sparsem)) + (home-page "http://www.math.canterbury.ac.nz/~c.scarrott/evmix.shtml") + (synopsis + "Extreme value threshold estimation and uncertainty quantification") + (description + "This package provides the usual distribution functions, maximum likelihood +inference and model diagnostics for univariate stationary extreme value mixture +models. Also, there are provided kernel density estimation including various +boundary corrected kernel density estimation methods and a wide choice of kernels, +with cross-validation likelihood based bandwidth estimator. Reasonable +consistency with the base functions in the evd package is provided, so that users +can safely interchange most code.") + (license license:gpl3))) + (define-public r-excelr (package (name "r-excelr") From patchwork Fri Nov 3 16:30:03 2023 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: =?utf-8?b?TcSDZMSDbGluIElvbmVsIFBhdHJhyJljdQ==?= X-Patchwork-Id: 55895 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id 0A60527BBEA; Fri, 3 Nov 2023 16:33:04 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-2.7 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 0AF7927BBE2 for ; Fri, 3 Nov 2023 16:33:00 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1qyx6A-00085O-9g; Fri, 03 Nov 2023 12:32:42 -0400 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 1qyx5u-000813-PF for guix-patches@gnu.org; Fri, 03 Nov 2023 12:32:30 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1qyx5u-0003zo-DH for guix-patches@gnu.org; Fri, 03 Nov 2023 12:32:26 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1qyx6U-00023D-00; Fri, 03 Nov 2023 12:33:02 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#66921] [PATCH 4/5] gnu: Add r-powertcr. Resent-From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Original-Sender: "Debbugs-submit" Resent-CC: rekado@elephly.net, guix-patches@gnu.org Resent-Date: Fri, 03 Nov 2023 16:33:01 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 66921 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: <66921@debbugs.gnu.org> Cc: Ricardo Wurmus X-Debbugs-Original-Xcc: Ricardo Wurmus Received: via spool by 66921-submit@debbugs.gnu.org id=B66921.16990291247806 (code B ref 66921); Fri, 03 Nov 2023 16:33:01 +0000 Received: (at 66921) by debbugs.gnu.org; 3 Nov 2023 16:32:04 +0000 Received: from localhost ([127.0.0.1]:59624 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qyx5U-00021C-4w for submit@debbugs.gnu.org; Fri, 03 Nov 2023 12:32:04 -0400 Received: from b2062.mx.srv.dfn.de ([194.95.234.172]:53855) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qyx5I-00020B-VM for 66921@debbugs.gnu.org; Fri, 03 Nov 2023 12:31:55 -0400 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=1699029066; x=1700843467; bh=gdUmiQQFcR0pd91TjW+Tle9ClqbpnpDkhVFBhdYAOhM=; b=QOeDliLKWyZa J15eigkHHSkbmTtmJUrarnF0TUa0yAqc1IVjnGOq6YpQJfYS3r4bdxv8IrDdEmYR qoOCT+NbQmaPg9wfYX9wgtYx1ELlTUOUPElossrJwFWwLWaOmAaIioAKn8sRkhaK t+gHoSJ2WKTzUX8fyBFpnvMpxiRR7Jo= Received: from SW-IT-P-EX2.mdc-berlin.net (mgw2.mdc-berlin.de [141.80.113.60]) by b2062.mx.srv.dfn.de (Postfix) with ESMTPS id CBBBF16018F for <66921@debbugs.gnu.org>; Fri, 3 Nov 2023 17:31:06 +0100 (CET) Received: from Guix-Ubuntu18.04 (141.80.113.106) by SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.1.2507.34; Fri, 3 Nov 2023 17:31:05 +0100 From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Date: Fri, 3 Nov 2023 17:30:03 +0100 Message-ID: X-Mailer: git-send-email 2.41.0 In-Reply-To: <295ae4566681826b406dea240db641124f1d60a0.1699029004.git.madalinionel.patrascu@mdc-berlin.de> References: <295ae4566681826b406dea240db641124f1d60a0.1699029004.git.madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Originating-IP: [141.80.113.106] X-ClientProxiedBy: SW-IT-P-EX1.mdc-berlin.net (141.80.113.54) To SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27976.000 X-TM-AS-Result: No-10--3.746400-5.000000 X-TMASE-MatchedRID: I6rpFm0lrcP/R1NSMc2qCTiEPRj9j9rvwTlc9CcHMZerwqxtE531VKcl vg4wawq3/YUtGtrcVxDuNT8xdcEnQwE+dA3RWUSvwLYk+NSxc5r4qCLIu0mtIKDhz0SSpnsKqbs +nJ/tFJHlTY3OF9Or3M71OeGVCXrrrWL/xQJnm447lKkz03w06+uLFZZYlisfHxPMjOKY7A8Lbi gRnpKlKTpcQTtiHDgWHp83SSrb9t7RtL/Ar0VoXUmrjGqb+cby51AniBoB57B1HjHpZBsafoSPW SwN2c5lHtuJfJl2PYg0SnwbmxfNveBoNZ9/Z5Da3yJq1ESN+kMTydv0PB1DgLaNtJpvWmDRSPEW nCfndI5+GPkJmSZLIg== X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--3.746400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27976.000 X-TM-SNTS-SMTP: E1B0C60BD21179D3ED9E82B347241262E5960EAD3DCB5ACA93F90D2E004A0D0A2000:F X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org X-getmail-retrieved-from-mailbox: Patches * gnu/packages/bioconductor.scm (r-powertcr): New variable. Change-Id: I75fc30a7021d6199b768318da3afcfeaaafcf027 --- gnu/packages/bioconductor.scm | 31 +++++++++++++++++++++++++++++++ 1 file changed, 31 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index d79236ea26..b683868df5 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -9236,6 +9236,37 @@ (define-public r-piano set analyses.") (license license:gpl2+))) +(define-public r-powertcr + (package + (name "r-powertcr") + (version "1.22.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "powerTCR" version)) + (sha256 + (base32 "06fmphdq95pjbbvm8m8h1wajbp3vhl0zj7ddbzks9fy7ankp1n3i")))) + (properties `((upstream-name . "powerTCR"))) + (build-system r-build-system) + (propagated-inputs + (list r-cubature + r-doparallel + r-evmix + r-foreach + r-magrittr + r-purrr + r-truncdist + r-vegan + r-vgam)) + (native-inputs (list r-knitr)) + (home-page "https://bioconductor.org/packages/powerTCR") + (synopsis "Model-based comparative analysis of the TCR repertoire") + (description + "This package provides a model for the clone size distribution of the +@acronym{TCR, T-cell receptor} repertoire. Further, it permits comparative +analysis of TCR repertoire libraries based on theoretical model fits.") + (license license:artistic2.0))) + ;; This is a CRAN package, but it depends on a Bioconductor package: ;; r-aroma-light, r-dnacopy.. (define-public r-pscbs From patchwork Fri Nov 3 16:30:04 2023 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: =?utf-8?b?TcSDZMSDbGluIElvbmVsIFBhdHJhyJljdQ==?= X-Patchwork-Id: 55893 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id 2ABE227BBE9; Fri, 3 Nov 2023 16:32:53 +0000 (GMT) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-2.7 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,SPF_HELO_PASS,URIBL_BLOCKED autolearn=unavailable autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id 7573527BBE2 for ; Fri, 3 Nov 2023 16:32:51 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1qyx67-00083f-4G; Fri, 03 Nov 2023 12:32:39 -0400 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 1qyx5v-000816-K6 for guix-patches@gnu.org; Fri, 03 Nov 2023 12:32:30 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1qyx5u-0003zt-TU for guix-patches@gnu.org; Fri, 03 Nov 2023 12:32:27 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1qyx6U-00023L-EU; Fri, 03 Nov 2023 12:33:02 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#66921] [PATCH 5/5] gnu: Add r-screpertoire. 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Change-Id: Iaa876f787d5e39ca2888bf2082da3d7839224e15 --- gnu/packages/bioconductor.scm | 43 +++++++++++++++++++++++++++++++++++ 1 file changed, 43 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index b683868df5..8306b703de 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -10014,6 +10014,49 @@ (define-public r-scmap different experiment.") (license license:gpl3))) +(define-public r-screpertoire + (package + (name "r-screpertoire") + (version "1.12.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "scRepertoire" version)) + (sha256 + (base32 "1wgs8dv5zl82iciy86w5ws1gq8v2piklcifbw7gmbw60kijyr2l1")))) + (properties `((upstream-name . "scRepertoire"))) + (build-system r-build-system) + (propagated-inputs + (list r-doparallel + r-dplyr + r-ggalluvial + r-ggplot2 + r-ggraph + r-igraph + r-plyr + r-powertcr + r-reshape2 + r-rlang + r-seuratobject + r-singlecellexperiment + r-stringdist + r-stringr + r-summarizedexperiment + r-tidygraph + r-vegan)) + (native-inputs (list r-knitr)) + (home-page "https://bioconductor.org/packages/scRepertoire") + (synopsis "Toolkit for single-cell immune receptor profiling") + (description + "The scRepertoire package was built to process data derived from the 10x +Genomics Chromium Immune Profiling for both @acronym{TCR, T-cell receptor} and +@acronym{Ig, immunoglobulin} enrichment workflows and subsequently interacts with +the popular Seurat and SingleCellExperiment R packages. It also allows for +general analysis of single-cell clonotype information without the use of +expression information. The package functions as a wrapper for Startrac and +powerTCR R packages.") + (license license:gpl2))) + (define-public r-scry (package (name "r-scry")