From patchwork Thu Dec 8 19:22:29 2022 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: 45127 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 B3D8A27BBF1; Thu, 8 Dec 2022 19:23:11 +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=-3.7 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_MSPIKE_H2,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 71D6E27BBE9 for ; Thu, 8 Dec 2022 19:23:10 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1p3MU4-0000VG-Mb; Thu, 08 Dec 2022 14:23:04 -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 1p3MU2-0000SR-Dg for guix-patches@gnu.org; Thu, 08 Dec 2022 14:23:02 -0500 Received: from debbugs.gnu.org ([209.51.188.43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1p3MU2-0000Jg-5d for guix-patches@gnu.org; Thu, 08 Dec 2022 14:23:02 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1p3MU1-0002gL-W3; Thu, 08 Dec 2022 14:23:02 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#59908] [PATCH 1/4] gnu: Add r-rcppde. References: <2916bd5df8054870a70ba29c5fde484c@mdc-berlin.de> In-Reply-To: <2916bd5df8054870a70ba29c5fde484c@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: Thu, 08 Dec 2022 19:23:01 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 59908 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: <59908@debbugs.gnu.org> Cc: rekado@elephly.net X-Debbugs-Original-Xcc: rekado@elephly.net Received: via spool by 59908-submit@debbugs.gnu.org id=B59908.167052737610250 (code B ref 59908); Thu, 08 Dec 2022 19:23:01 +0000 Received: (at 59908) by debbugs.gnu.org; 8 Dec 2022 19:22:56 +0000 Received: from localhost ([127.0.0.1]:58618 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p3MTv-0002fF-Rq for submit@debbugs.gnu.org; Thu, 08 Dec 2022 14:22:56 -0500 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]:45667) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p3MTs-0002eb-M2 for 59908@debbugs.gnu.org; Thu, 08 Dec 2022 14:22:53 -0500 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= content-transfer-encoding:content-type:content-type:mime-version :x-mailer:message-id:date:date:subject:subject:from:from :received; s=mdc; t=1670527365; x=1672341766; bh=+xKGzEJ5LtA7Djv 8Py2JfquudquM4nWdzCsxXq/ePQ0=; b=XqRsnD/pOdWlptxATL3quKVylNzX3GQ gro5dgtPipieZ7v7VFrLfIBynwWF37KCr5T+4DkHHOcSjkBXOq92ysyHR5rMuXYt Yp4D0oZllNdh3mPzEnj4iHU4hukeshUgtoEkCsBvxvbBVwYbp4hX7jUvij4Khh1d Q7Lhcq02YAZQ= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by a2062.mx.srv.dfn.de (Postfix) with ESMTPS id 02F26A05DC for <59908@debbugs.gnu.org>; Thu, 8 Dec 2022 20:22:43 +0100 (CET) Received: from pimi-TRX40-AORUS-PRO-WIFI.lan (77.23.232.54) 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; Thu, 8 Dec 2022 20:22:43 +0100 From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Date: Thu, 8 Dec 2022 20:22:29 +0100 Message-ID: <20221208192232.16413-1-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 MIME-Version: 1.0 X-Originating-IP: [77.23.232.54] X-ClientProxiedBy: SW-IT-P-EX1.mdc-berlin.net (141.80.113.54) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27312.002 X-TM-AS-Result: No-10--3.814000-5.000000 X-TMASE-MatchedRID: SzbEz7SZt2v/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOjEIt+uIPPOAbo TDS3zulAcjTcMkuJPYkZijt1cgK90C/33TWoSUH6031Nfxfj2zO0aicQ5bmD5t9RjZujPiSkqbs +nJ/tFJH53MzgUtcaKpppDjkxOpb7o89pzL7BO+7f2ZJbLRf3DwK0ZgbTOeKUyiLz1Vtc/pWYDT IhMw3OOX0tCKdnhB581kTfEkyaZdz6C0ePs7A07ba607moR85RRwIEOncjwA+tQ6UXg9Zm4cMkX 0zMhC9fWx6HhAa+qKbwEfNprCBboIsSSgGl7n32YBT3zIItZxCYPcAkQgOMD135VgdLTM7AdAnz xkc/wOO+Yl/q6i1mnv1mO1iYLJDqT4cbBIKMuHq+68HqACCvKA== X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--3.814000-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27312.002 X-TM-SNTS-SMTP: DA951AEE9A558A4E3BB13C8A0981184DCBE57CF9142DDA2941F21733A551ABA82002: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-rcppde): New variable. --- gnu/packages/cran.scm | 26 ++++++++++++++++++++++++++ 1 file changed, 26 insertions(+) base-commit: 81191e3410cc00c6438f532599dd0b96d521982f diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 5c5258d6e0..016eeb4821 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -4569,6 +4569,32 @@ (define-public r-rcpp @code{citation(\"Rcpp\")} for details on these last two.") (license license:gpl2+))) +(define-public r-rcppde + (package + (name "r-rcppde") + (version "0.1.6") + (source (origin + (method url-fetch) + (uri (cran-uri "RcppDE" version)) + (sha256 + (base32 + "1i9jj595nqpb16y22z2b8fcf0gq1fg0pbiisbd837p1cyw4nff69")))) + (properties `((upstream-name . "RcppDE"))) + (build-system r-build-system) + (propagated-inputs + (list r-rcpp + r-rcpparmadillo)) + (home-page "https://cran.r-project.org/package=RcppDE") + (synopsis "Global optimization by differential evolution in C++") + (description + "This package provides an iteration of the @code{DEoptim} function. It +performs global optimization by differential evolution. The implementation +employs the @code{Rcpp} package. The last one provides tools for integration +of R objects at the C++ level—and vice versa. @code{R-rcppde} uses the @code{ +RcppArmadillo} package. This one provides an interface from R to the Armadillo +linear algebra package written in C++.") + (license license:gpl2+))) + (define-public r-rcppml (package (name "r-rcppml") From patchwork Thu Dec 8 19:22:30 2022 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: 45128 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 7733527BBE9; Thu, 8 Dec 2022 19:23:13 +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=-3.7 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_MSPIKE_H2,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 77AC627BBF0 for ; Thu, 8 Dec 2022 19:23:10 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1p3MU4-0000V7-6k; Thu, 08 Dec 2022 14:23:04 -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 1p3MU2-0000SQ-13 for guix-patches@gnu.org; Thu, 08 Dec 2022 14:23:02 -0500 Received: from debbugs.gnu.org ([209.51.188.43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1p3MU1-0000Jb-P1 for guix-patches@gnu.org; Thu, 08 Dec 2022 14:23:01 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1p3MU1-0002g0-JY; Thu, 08 Dec 2022 14:23:01 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#59908] [PATCH 2/4] gnu: Add r-ptw. 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: Thu, 08 Dec 2022 19:23:01 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 59908 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: <59908@debbugs.gnu.org> Cc: rekado@elephly.net X-Debbugs-Original-Xcc: rekado@elephly.net Received: via spool by 59908-submit@debbugs.gnu.org id=B59908.167052737410241 (code B ref 59908); Thu, 08 Dec 2022 19:23:01 +0000 Received: (at 59908) by debbugs.gnu.org; 8 Dec 2022 19:22:54 +0000 Received: from localhost ([127.0.0.1]:58616 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p3MTu-0002f7-HY for submit@debbugs.gnu.org; Thu, 08 Dec 2022 14:22:54 -0500 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]:41549) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p3MTs-0002ec-M4 for 59908@debbugs.gnu.org; Thu, 08 Dec 2022 14:22:53 -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=1670527366; x=1672341767; bh=qmpHXo0g+rjkvIa8+F7pHWt6a6AKg5nh0EFsJekMcf4=; b=BziX84F52WAH 7fcdKrPQcQFIHC/O9YsIZLK3OGtIxrVINy7C3dFm5QJmz2JU44rzDcbquJZZRd6R sjOFtcSiLadIjJl0H2QaEIbIbCVHqselLi144B9rr5LtqcOshdngIesfb5MbXeql zuvJunHlNTtIVL9qFDthjfwQ5S0VvnI= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by a2062.mx.srv.dfn.de (Postfix) with ESMTPS id 16713A05E0 for <59908@debbugs.gnu.org>; Thu, 8 Dec 2022 20:22:46 +0100 (CET) Received: from pimi-TRX40-AORUS-PRO-WIFI.lan (77.23.232.54) 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; Thu, 8 Dec 2022 20:22:43 +0100 From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Date: Thu, 8 Dec 2022 20:22:30 +0100 Message-ID: <20221208192232.16413-2-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 In-Reply-To: <20221208192232.16413-1-madalinionel.patrascu@mdc-berlin.de> References: <20221208192232.16413-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Originating-IP: [77.23.232.54] X-ClientProxiedBy: SW-IT-P-EX1.mdc-berlin.net (141.80.113.54) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27312.002 X-TM-AS-Result: No-10-0.670400-5.000000 X-TMASE-MatchedRID: I6rpFm0lrcP/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOU8ftiyKjZrXlb NLJMhGktPRxYd0S1w+nuNT8xdcEnQwE+dA3RWUSvwLYk+NSxc5r4qCLIu0mtIKY5ZGw7wyeHrUJ gwjLBXrUhKx5yh0VgdLxgN+GS/lVkUUvcVJ+45/Y7lKkz03w06+uLFZZYlisfHxPMjOKY7A8Lbi gRnpKlKTpcQTtiHDgWJyQ9UY6B1gvyLSTiEVXEg9mGhmJicaDiuJOjEQbYZ1DYzHk2G3EtCcGWK 5LzIChT9PEBiceybbVv+t8Ad/sDrPntiEfIOtHZ3yJq1ESN+kMTydv0PB1DgLaNtJpvWmDRSPEW nCfndI5+GPkJmSZLIg== X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10-0.670400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27312.002 X-TM-SNTS-SMTP: 866BAF5B38ECED7B430F6BAA62E7263D2405BEB20FB319F734F34E99BBD532B32002: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-ptw): New variable. --- gnu/packages/cran.scm | 26 ++++++++++++++++++++++++++ 1 file changed, 26 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 016eeb4821..4561d50e02 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -4858,6 +4858,32 @@ (define-public r-powerlaw ;; Any of these GPL versions. (license (list license:gpl2 license:gpl3)))) +(define-public r-ptw + (package + (name "r-ptw") + (version "1.9-16") + (source (origin + (method url-fetch) + (uri (cran-uri "ptw" version)) + (sha256 + (base32 + "0rma3h9ksc5qigdvk5vappb4ipd4rpk64wckzcxvxspakr5w71vy")))) + (properties `((upstream-name . "ptw"))) + (build-system r-build-system) + (propagated-inputs (list r-rcppde)) + (home-page "https://github.com/rwehrens/ptw") + (synopsis "Parametric time warping") + (description + "Parametric time warping aligns patterns. It aims to put corresponding +features at the same locations. The algorithm searches for an optimal polynomial +describing the warping. It is possible to align one sample to a reference, several +samples to the same reference, or several samples to several references. One can +choose between calculating individual warpings, or one global warping for a set +of samples and one reference. Two optimization criteria are implemented: @acronym{ +RMS, Root Mean Square} error and @acronym{WCC, Weighted Cross Correlation}. Both +warping of peak profiles and of peak lists are supported.") + (license license:gpl2+))) + (define-public r-compare (package (name "r-compare") From patchwork Thu Dec 8 19:22:31 2022 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: 45130 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 AAF1D27BBEE; Thu, 8 Dec 2022 19:23:59 +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=-3.7 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_MSPIKE_H2,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 24B8327BBE9 for ; Thu, 8 Dec 2022 19:23:59 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1p3MU5-0000VM-Ei; Thu, 08 Dec 2022 14:23:05 -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 1p3MU2-0000Sp-Qo for guix-patches@gnu.org; Thu, 08 Dec 2022 14:23:02 -0500 Received: from debbugs.gnu.org ([209.51.188.43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1p3MU2-0000Jm-IX for guix-patches@gnu.org; Thu, 08 Dec 2022 14:23:02 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1p3MU2-0002ga-EH; Thu, 08 Dec 2022 14:23:02 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#59908] [PATCH 3/4] gnu: Add r-pepsnmr. 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: Thu, 08 Dec 2022 19:23:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 59908 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: <59908@debbugs.gnu.org> Cc: rekado@elephly.net X-Debbugs-Original-Xcc: rekado@elephly.net Received: via spool by 59908-submit@debbugs.gnu.org id=B59908.167052737610259 (code B ref 59908); Thu, 08 Dec 2022 19:23:02 +0000 Received: (at 59908) by debbugs.gnu.org; 8 Dec 2022 19:22:56 +0000 Received: from localhost ([127.0.0.1]:58620 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p3MTw-0002fH-7C for submit@debbugs.gnu.org; Thu, 08 Dec 2022 14:22:56 -0500 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]:52703) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p3MTs-0002ee-UF for 59908@debbugs.gnu.org; Thu, 08 Dec 2022 14:22:53 -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=1670527366; x=1672341767; bh=guEvCPLDJfFARbMsEyxwxFMFNFT4HZ4hLC+yZJ4CNaQ=; b=GqwbKzHFxqRp 4S5p45EM8XTx0ekjYf6axI0FpcFuFyuP129XhFg0+5hQeEYgJySdnXexTi8zpUb9 n8/gipooN2mNLB2rf15rQlxq86ixWhTUhwCBOJNm6Fi4yA/GPtaETmifoJH6xEYR xeju1otfNcIA3l/pIe1D+zmf2Hhr1rU= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by a2062.mx.srv.dfn.de (Postfix) with ESMTPS id D4EEEA05E4 for <59908@debbugs.gnu.org>; Thu, 8 Dec 2022 20:22:46 +0100 (CET) Received: from pimi-TRX40-AORUS-PRO-WIFI.lan (77.23.232.54) 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; Thu, 8 Dec 2022 20:22:43 +0100 From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Date: Thu, 8 Dec 2022 20:22:31 +0100 Message-ID: <20221208192232.16413-3-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 In-Reply-To: <20221208192232.16413-1-madalinionel.patrascu@mdc-berlin.de> References: <20221208192232.16413-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Originating-IP: [77.23.232.54] X-ClientProxiedBy: SW-IT-P-EX1.mdc-berlin.net (141.80.113.54) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27312.002 X-TM-AS-Result: No-10--4.523100-5.000000 X-TMASE-MatchedRID: 2wfub8HDRfP/R1NSMc2qCU7nLUqYrlslFIuBIWrdOePVU2WiOk7jaGim Izb1qb1PRRa406V/YwyBUGewL2YXt8Z8zsjIitoJnVTWWiNp+v9qc0EkR8fCHqY5ZGw7wyeHiTq hnFV2xYx3kbnzQEXFg/pFYtNoqkLEifsNgXDdrIaKYdYQLbymTU/6DJlZIj8JIpz++XQI8PGeAi CmPx4NwBnUJ0Ek6yhjxEHRux+uk8jfhP1xgyx3DOxFnE0hzKgbPaTfElBF6ygQPPRzOzFf7jZpg QTpHjLsvf8x9oLFDgvmALtr1glwhBe7zi59sEwE0gUTlQ7Ge1BIaTWpZZEl2txSR7be7fnTFTs4 ljtt094P2K/+wkyxVzs7KL+6XFB4pSBl0hpeDh8= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--4.523100-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27312.002 X-TM-SNTS-SMTP: EEDDB1D48601CC90F285BC574ADA21E5A18F31430F75AD10CB6AD07B3BD57B282002: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-pepsnmr): New variable. --- gnu/packages/bioconductor.scm | 29 +++++++++++++++++++++++++++++ 1 file changed, 29 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index c62c5970b8..740ec4b84b 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -8323,6 +8323,35 @@ (define-public r-perfmeas a given recall, F-score for single and multiple classes are available.") (license license:gpl2+))) +(define-public r-pepsnmr + (package + (name "r-pepsnmr") + (version "1.16.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "PepsNMR" version)) + (sha256 + (base32 + "02i29jinawssqlb33wvj0h9w6cfcvamlyfxdynd38jmwx23l15l5")))) + (properties `((upstream-name . "PepsNMR"))) + (build-system r-build-system) + (propagated-inputs + (list r-ggplot2 + r-gridextra + r-matrix + r-matrixstats + r-ptw + r-reshape2)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/ManonMartin/PepsNMR") + (synopsis "Pre-process 1H-NMR FID signals") + (description + "This package provides R functions for common pre-processing steps that are +applied on @acronym{1H-NMR, proton nuclear magnetic resonance} data. It also +provides a function to read the @acronym{FID, free induction decay} signals +directly in the Bruker format.") + (license license:gpl2))) + ;; This is a CRAN package, but it depends on a Bioconductor package. (define-public r-codedepends (package From patchwork Thu Dec 8 19:22:32 2022 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: 45129 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 6172827BBEB; Thu, 8 Dec 2022 19:23:26 +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=-3.7 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,RCVD_IN_MSPIKE_H2,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 4C0CB27BBE9 for ; Thu, 8 Dec 2022 19:23:24 +0000 (GMT) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1p3MU6-0000WV-Gx; Thu, 08 Dec 2022 14:23:06 -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 1p3MU3-0000TF-6t for guix-patches@gnu.org; Thu, 08 Dec 2022 14:23:03 -0500 Received: from debbugs.gnu.org ([209.51.188.43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1p3MU2-0000Jx-Up for guix-patches@gnu.org; Thu, 08 Dec 2022 14:23:02 -0500 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1p3MU2-0002gi-Qv; Thu, 08 Dec 2022 14:23:02 -0500 X-Loop: help-debbugs@gnu.org Subject: [bug#59908] [PATCH 4/4] gnu: Add r-asics. 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: Thu, 08 Dec 2022 19:23:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 59908 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: <59908@debbugs.gnu.org> Cc: rekado@elephly.net X-Debbugs-Original-Xcc: rekado@elephly.net Received: via spool by 59908-submit@debbugs.gnu.org id=B59908.167052737710269 (code B ref 59908); Thu, 08 Dec 2022 19:23:02 +0000 Received: (at 59908) by debbugs.gnu.org; 8 Dec 2022 19:22:57 +0000 Received: from localhost ([127.0.0.1]:58624 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p3MTw-0002fQ-JE for submit@debbugs.gnu.org; Thu, 08 Dec 2022 14:22:56 -0500 Received: from a2062.mx.srv.dfn.de ([194.95.232.172]:44499) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1p3MTt-0002ef-Sy for 59908@debbugs.gnu.org; Thu, 08 Dec 2022 14:22:54 -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=1670527367; x=1672341768; bh=T4s7BVU0eHnRfKSsZkA3RL0CLmp895rEpuUDRhZ6J7Y=; b=GAW84ucpVTjE RQp2+8GcX4uHJYSf/56LDSga5HiMLEk/vBgBEC08FO/6H7fBL6BGzhCmjiR5g2kE kMQCofxiHagqVhr1IlEWcaFnxfTHq1bJz89Xnqvj+NR5QdMRYhpM8q0RSslmxe6e pB6zI5YaGglx0YYEhhvtoHDYu59W7ZU= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by a2062.mx.srv.dfn.de (Postfix) with ESMTPS id 92233A05E8 for <59908@debbugs.gnu.org>; Thu, 8 Dec 2022 20:22:47 +0100 (CET) Received: from pimi-TRX40-AORUS-PRO-WIFI.lan (77.23.232.54) 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; Thu, 8 Dec 2022 20:22:43 +0100 From: =?utf-8?b?TcSDZMSDbGlu?= Ionel =?utf-8?b?UGF0cmHImWN1?= Date: Thu, 8 Dec 2022 20:22:32 +0100 Message-ID: <20221208192232.16413-4-madalinionel.patrascu@mdc-berlin.de> X-Mailer: git-send-email 2.38.1 In-Reply-To: <20221208192232.16413-1-madalinionel.patrascu@mdc-berlin.de> References: <20221208192232.16413-1-madalinionel.patrascu@mdc-berlin.de> MIME-Version: 1.0 X-Originating-IP: [77.23.232.54] X-ClientProxiedBy: SW-IT-P-EX1.mdc-berlin.net (141.80.113.54) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3092-9.0.1002-27312.002 X-TM-AS-Result: No-10--1.828400-5.000000 X-TMASE-MatchedRID: RtHHqK+8YWP/R1NSMc2qCU7nLUqYrlslFIuBIWrdOeOjEIt+uIPPOAbo TDS3zulAcjTcMkuJPYkZijt1cgK90C/33TWoSUH6194/5X9VfCzTwbfucxrN6lO9mDgDAyY4ngI gpj8eDcAZ1CdBJOsoY8RB0bsfrpPI34T9cYMsdwyNa7u2YBlmc6dClh5jIzrGhI+ltj/AWaoXhB pJH1ZK4qTfGcfpOtKdEQrBiGX7L1i6bUgaGTTxBjAxe+Ejx5xQLTVDgPySq6XcUke23u350xU7O JY7bdPeD9iv/sJMsVc7Oyi/ulxQeKUgZdIaXg4f X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--1.828400-5.000000 X-TMASE-Version: SMEX-14.0.0.3092-9.0.1002-27312.002 X-TM-SNTS-SMTP: 916E50330697721CB7FC68A13A6F01D916F1F36FB117C4898B6F121106527D3B2002: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-asics): New variable. --- gnu/packages/bioconductor.scm | 34 ++++++++++++++++++++++++++++++++++ 1 file changed, 34 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 740ec4b84b..64dbea97d0 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -2720,6 +2720,40 @@ (define-public r-asgsca model as latent variables.") (license license:gpl3))) +(define-public r-asics + (package + (name "r-asics") + (version "2.14.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "ASICS" version)) + (sha256 + (base32 + "0c2b3gdza58vqhharhw8967p2w2knnrm5s2svvnnjbf67qbg45b7")))) + (properties `((upstream-name . "ASICS"))) + (build-system r-build-system) + (propagated-inputs + (list r-biocparallel + r-ggplot2 + r-glmnet + r-gridextra + r-matrix + r-mvtnorm + r-pepsnmr + r-plyr + r-quadprog + r-ropls + r-summarizedexperiment + r-zoo)) + (native-inputs (list r-knitr)) + (home-page "https://bioconductor.org/packages/ASICS") + (synopsis "Automatic statistical identification in complex spectra") + (description + "@code{ASICS} quantifies concentration of metabolites in a complex spectrum. +The identification of metabolites is performed by fitting a mixture model to the +spectra of the library with a sparse penalty.") + (license license:gpl2+))) + (define-public r-aspli (package (name "r-aspli")