From debbugs-submit-bounces@debbugs.gnu.org Thu Nov 02 12:53:00 2023 Received: (at submit) by debbugs.gnu.org; 2 Nov 2023 16:53:00 +0000 Received: from localhost ([127.0.0.1]:55902 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qyawG-0000sC-7h for submit@debbugs.gnu.org; Thu, 02 Nov 2023 12:53:00 -0400 Received: from lists.gnu.org ([2001:470:142::17]:51156) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qyawD-0000rx-U3 for submit@debbugs.gnu.org; Thu, 02 Nov 2023 12:52:59 -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 1qyavZ-00081R-7r for guix-patches@gnu.org; Thu, 02 Nov 2023 12:52:17 -0400 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1qyavT-00010V-UL for guix-patches@gnu.org; Thu, 02 Nov 2023 12:52:16 -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=1698943913; x=1700758314; bh=6vdfRP3V6K5aLVZ VDLL+pEumJz5SJdnJFLVLN/xnGgw=; b=B/HPGUVjnKyB491lc2IP8RRk7MdVXSY GEA8Voc/PazksaOsVMY0VO6wxmMFBgE7qxQsDD2kcSTbl68lVytosBjMiuJkpuBw NBoKACAEIMSsdDVm323YbU2TGDAzcSujJhjdpSJ4rnxbmm3ihYoK/5LD2oRavdMg Kodpi2tn6rSc= 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 A94B5A017D for ; Thu, 2 Nov 2023 17:51:53 +0100 (CET) Received: from localhost (141.80.218.27) 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; Thu, 2 Nov 2023 17:51:53 +0100 From: "Afkhami, Navid" To: Subject: [PATCH 0/2] *** r-nestedcv and r-matrixtests *** Date: Thu, 2 Nov 2023 16:51:51 +0000 Message-ID: X-Mailer: git-send-email 2.34.1 MIME-Version: 1.0 Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.218.27] X-ClientProxiedBy: SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) To SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27974.001 X-TM-AS-Result: No-10--7.490700-5.000000 X-TMASE-MatchedRID: 9IrrHbNZyfrUgW47tPCHMMTiL+P6CoMgkYC3rjkUXRLozDhGeQC9EsnD ob0105aLkpCFGclEFCcSU447Pck+mKPFjJEFr+oldywMrbEEeHsV0D/96nhBQ90H8LFZNFG73Yq 8RVaZivUmfGQMsjuBT2WFeMjQP46uF0HKLoEWNnN55IA4pbXire7ImsJ+CG27 X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--7.490700-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27974.001 X-TM-SNTS-SMTP: 5850DEE24D50ED308B75D10E985C7FA3993BC6AEA236855BD07401B5B697075F2000:F Received-SPF: pass client-ip=194.95.232.172; envelope-from=Navid.Afkhami@mdc-berlin.de; helo=a2062.mx.srv.dfn.de X-Spam_score_int: -43 X-Spam_score: -4.4 X-Spam_bar: ---- X-Spam_report: (-4.4 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, RCVD_IN_DNSWL_MED=-2.3, SPF_HELO_PASS=-0.001, T_SCC_BODY_TEXT_LINE=-0.01, T_SPF_TEMPERROR=0.01 autolearn=ham autolearn_force=no X-Spam_action: no action X-Spam-Score: 0.9 (/) X-Debbugs-Envelope-To: submit Cc: "Afkhami, Navid" 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: -0.1 (/) *** The main package is r-nestedcv and r-matrixtests is the dependency. Thanks *** Afkhami, Navid (2): gnu: Add r-nestedcv. gnu: Add r-matrixtests. gnu/packages/cran.scm | 58 +++++++++++++++++++++++++++++++++++++++++++ 1 file changed, 58 insertions(+) base-commit: f5346094f0365a2c04ca00111ff06e17dac832e2 -- 2.41.0 From debbugs-submit-bounces@debbugs.gnu.org Thu Nov 02 13:14:49 2023 Received: (at 66899) by debbugs.gnu.org; 2 Nov 2023 17:14:49 +0000 Received: from localhost ([127.0.0.1]:55929 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qybHN-0001Qh-Cr for submit@debbugs.gnu.org; Thu, 02 Nov 2023 13:14:49 -0400 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]:49643) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qybHK-0001QM-JT for 66899@debbugs.gnu.org; Thu, 02 Nov 2023 13:14:48 -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=1698945244; x=1700759645; bh=OpvEv0OzZbYxLF/ kxAmBZF7czHQST1F9Zo8NP7oEVyk=; b=eANZub02goL14yaS3iXJ/DFLPlDQYbS gkG++B3rU9WmsEGdd0lna337vzpmjLgFBtudUd9Xish9vNLDzKZ9oXMP6Aky9PXv XRl8PvWw0k8fs5sFvDg47tWAny3xvthmdNRYDeQEiy86L8Ez3X3lT0bsPRmN8qmo DddcxB4OkWKw= Received: from SW-IT-P-EX2.mdc-berlin.net (mgw2.mdc-berlin.de [141.80.113.60]) by c2062.mx.srv.dfn.de (Postfix) with ESMTPS id 7D38E300139 for <66899@debbugs.gnu.org>; Thu, 2 Nov 2023 18:14:04 +0100 (CET) Received: from localhost (141.80.218.27) 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; Thu, 2 Nov 2023 18:14:03 +0100 From: "Afkhami, Navid" To: <66899@debbugs.gnu.org> Subject: [PATCH 1/2] gnu: Add r-nestedcv. Date: Thu, 2 Nov 2023 17:13:49 +0000 Message-ID: <783df83f420d6c5b18fabb338b42f9aa90d90528.1698945230.git.Navid.Afkhami@mdc-berlin.de> X-Mailer: git-send-email 2.34.1 MIME-Version: 1.0 Content-Transfer-Encoding: 8bit Content-Type: text/plain X-Originating-IP: [141.80.218.27] X-ClientProxiedBy: SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) To SW-IT-P-EX2.mdc-berlin.net (141.80.113.60) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27974.001 X-TM-AS-Result: No-10--7.719900-5.000000 X-TMASE-MatchedRID: kREspPIIG7T/R1NSMc2qCTiEPRj9j9rvwTlc9CcHMZerwqxtE531VNnf JrUSEbFDWuwqysGorHDuNT8xdcEnQwE+dA3RWUSvk8lIEwxRTqCFzNNPDc6umBHfiujuTbedbYu c3F8nUNu1/NE2jc9NGLU1xtWAl45cyDVAWKR8vS2/x8sBfQ/nQGvaomg0i4KN7lLGlTAoyS2b3s vkOXxdrgx/sJ74sgV2+INYXLerf0daLxCKnrw2B29OepgphdNGbv9wX5p41kxTvZg4AwMmOJ4CI KY/Hg3AGdQnQSTrKGPEQdG7H66TyF82MXkEdQ7710V2fpCIdYCx27i3Npviamo4LXx6bo8vu5ob oeWARxsNOSidPWjBxg== X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--7.719900-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27974.001 X-TM-SNTS-SMTP: 559AEDF0BB10D723A4D76A045D2F5A77409172C94DA9AD665C67F43115BBC0E22000:F X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 66899 Cc: "Afkhami, Navid" 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-nestedcv): New variable. Change-Id: Id998b4192565c220f8d238963ef61217aed12bd3 --- gnu/packages/cran.scm | 37 +++++++++++++++++++++++++++++++++++++ 1 file changed, 37 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index e82b027052..5aff1a2dd5 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -10007,6 +10007,43 @@ (define-public r-n2r @acronym{NSW, Navigable Small World} graphs.") (license license:asl2.0))) +(define-public r-nestedcv + (package + (name "r-nestedcv") + (version "0.7.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "nestedcv" version)) + (sha256 + (base32 "0jpg4il1niyizfq8kkk391x7anhp2s38mrfypa86skr08ca46zss")))) + (properties `((upstream-name . "nestedcv"))) + (build-system r-build-system) + (propagated-inputs (list r-caret + r-data-table + r-doparallel + r-foreach + r-ggplot2 + r-glmnet + r-matrixstats + r-matrixtests + r-proc + r-rfast + r-rlang)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/myles-lewis/nestedcv") + (synopsis "Nested cross-validation with 'glmnet' and 'caret'") + (description + "Nested cross-validation applied to the glmnet and caret packages. +With glmnet this includes cross-validation of elastic net alpha +parameter. A number of feature selection filter functions +(t-test, Wilcoxon test, ANOVA, Pearson/Spearman correlation, +random forest, ReliefF) for feature selection are provided and +can be embedded within the outer loop of the nested CV. Nested +CV can be also be performed with the caret package giving access +to the large number of prediction methods available in caret.") + (license license:expat))) + (define-public r-network (package (name "r-network") base-commit: f5346094f0365a2c04ca00111ff06e17dac832e2 -- 2.34.1 From debbugs-submit-bounces@debbugs.gnu.org Thu Nov 02 13:14:50 2023 Received: (at 66899) by debbugs.gnu.org; 2 Nov 2023 17:14:50 +0000 Received: from localhost ([127.0.0.1]:55931 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qybHN-0001Qj-NA for submit@debbugs.gnu.org; Thu, 02 Nov 2023 13:14:49 -0400 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]:34087) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qybHM-0001QP-I2 for 66899@debbugs.gnu.org; Thu, 02 Nov 2023 13:14:49 -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=1698945247; x=1700759648; bh=oI2p5CsBSgxYECHVh3iY9WgYNyJtUpv/T5jeRSEbASw=; b=T53s7O9jRYkM P38FhwiDAbsA5I5SZ1qVVsJb8l9P3pFnogRpNygNuR8hUTghUuY4Ibshc6Gr9IIN 9BUTS/vyNpc4w3ZYcei9tLI1DOBjY+jGXONvLcYnSdRpIYZ5l9cHu93VQNr7LdE4 D6fwzxmB1WgNqIunjD8rnvU71RRv06g= 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 EA8B0A017D for <66899@debbugs.gnu.org>; Thu, 2 Nov 2023 18:14:06 +0100 (CET) Received: from localhost (141.80.218.27) 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; Thu, 2 Nov 2023 18:14:06 +0100 From: "Afkhami, Navid" To: <66899@debbugs.gnu.org> Subject: [PATCH 2/2] gnu: Add r-matrixtests. 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Change-Id: I62f7bd760fc8603425906c304ef4293da1c0cf61 --- gnu/packages/cran.scm | 21 +++++++++++++++++++++ 1 file changed, 21 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 5aff1a2dd5..6ff4c9324a 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -3125,6 +3125,27 @@ (define-public r-grr functions are simplified but can be faster or have other advantages.") (license license:gpl3))) +(define-public r-matrixtests + (package + (name "r-matrixtests") + (version "0.2.3") + (source + (origin + (method url-fetch) + (uri (cran-uri "matrixTests" version)) + (sha256 + (base32 "0d7i00cxzszfdnjm8q5b72ildic8nig6fbw7rba6acdnllpp7sza")))) + (properties `((upstream-name . "matrixTests"))) + (build-system r-build-system) + (propagated-inputs (list r-matrixstats)) + (home-page "https://github.com/karoliskoncevicius/matrixTests") + (synopsis "Statistical hypothesis tests on rows and columns of matrices") + (description + "This package offers quick statistical hypothesis testing for matrix rows/columns. +The main goals are speed through vectorization, detailed and user-friendly +output, and compatibility with tests implemented in R.") + (license license:gpl2))) + (define-public r-matrix-utils (package (name "r-matrix-utils") -- 2.34.1 From debbugs-submit-bounces@debbugs.gnu.org Thu Nov 02 13:38:15 2023 Received: (at 66899-done) by debbugs.gnu.org; 2 Nov 2023 17:38:15 +0000 Received: from localhost ([127.0.0.1]:55983 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qybe3-00023B-FQ for submit@debbugs.gnu.org; Thu, 02 Nov 2023 13:38:15 -0400 Received: from sender4-of-o51.zoho.com ([136.143.188.51]:21161) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1qybe1-000231-A2 for 66899-done@debbugs.gnu.org; Thu, 02 Nov 2023 13:38:14 -0400 ARC-Seal: i=1; a=rsa-sha256; t=1698946654; cv=none; d=zohomail.com; s=zohoarc; b=X36EObK7uusUcsl0NTcdPrrjFalPiicz68TQp/kSEjJl6As/Ke6id3MkoTrsYB2RWxyd2vwkSAwrJ6FkY1Ic/cgLo7L8aGpA+g68RWh8xPWLOl4a58PuQ9zeAFtJXUy+fXPl9TbFPnWSQxtQYgoopycHQYuW6zV8kyvi4dz2IAo= ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=zohomail.com; s=zohoarc; t=1698946654; h=Content-Type:Date:Date:From:From:MIME-Version:Message-ID:Subject:Subject:To:To:Message-Id:Reply-To:Cc; bh=nOQBHaYFMjmtmKrOXM6bwmazK8V0e3ZIBHy57d997+8=; b=iepUfaqlTgEzYOAQzDkyBwxoaf9ax+8mwzKRijAd6b1torDzTjsTr5ndoJU6wdMKYXQz+Lw6Qsk7/kVx3W69JNjB38xu/ddENKARufBwPVmII+QZtebjHi2tJL6PIprtiBNmJWkFMrZwEbwgCLSE1w+xhGUwvkFVB3atwdVAIGc= 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=1698946654; s=zoho; d=elephly.net; i=rekado@elephly.net; h=From:From:To:To:Subject:Subject:Date:Date:Message-ID:MIME-Version:Content-Type:Message-Id:Reply-To:Cc; bh=nOQBHaYFMjmtmKrOXM6bwmazK8V0e3ZIBHy57d997+8=; b=ELH1lnVtDjewbHXaiDQQqoOZZcVkUPNzNbX9kVt2CA/j0JMRNWgLxMEpyhcqmQ+t GHOOqGyBzBXN2QYCMZCZNPsE29nzyv4ouOvWcb2yCLk0wkj5rX945h+Sx9267HvvHDl 290CoAu+UKgZaQ326j15MFcKnkRPQJI6ypLIzQ1c= Received: from localhost (215-110-142-46.pool.kielnet.net [46.142.110.215]) by mx.zohomail.com with SMTPS id 1698946652708493.91758367560203; Thu, 2 Nov 2023 10:37:32 -0700 (PDT) User-agent: mu4e 1.10.7; emacs 29.1 From: Ricardo Wurmus To: 66899-done@debbugs.gnu.org Subject: [PATCH 0/2] *** r-nestedcv and r-matrixtests *** Date: Thu, 02 Nov 2023 18:35:45 +0100 Message-ID: <878r7gt5t2.fsf@elephly.net> MIME-Version: 1.0 Content-Type: text/plain X-ZohoMailClient: External X-Spam-Score: 0.0 (/) X-Debbugs-Envelope-To: 66899-done X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) Thanks for the patches! I applied them with minor changes to the descriptions. -- Ricardo From unknown Tue Jun 17 01:44:31 2025 Received: (at fakecontrol) by fakecontrolmessage; To: internal_control@debbugs.gnu.org From: Debbugs Internal Request Subject: Internal Control Message-Id: bug archived. Date: Fri, 01 Dec 2023 12:24:12 +0000 User-Agent: Fakemail v42.6.9 # This is a fake control message. # # The action: # bug archived. thanks # This fakemail brought to you by your local debbugs # administrator