From debbugs-submit-bounces@debbugs.gnu.org Tue Apr 21 12:28:15 2020 Received: (at submit) by debbugs.gnu.org; 21 Apr 2020 16:28:15 +0000 Received: from localhost ([127.0.0.1]:50656 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1jQvkt-0006QH-2a for submit@debbugs.gnu.org; Tue, 21 Apr 2020 12:28:15 -0400 Received: from lists.gnu.org ([209.51.188.17]:53298) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1jQvkr-0006QA-I1 for submit@debbugs.gnu.org; Tue, 21 Apr 2020 12:28:13 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:55484) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1jQvkq-0001xc-SJ for guix-patches@gnu.org; Tue, 21 Apr 2020 12:28:13 -0400 X-Spam-Checker-Version: SpamAssassin 3.4.2 (2018-09-13) on eggs.gnu.org X-Spam-Level: X-Spam-Status: No, score=-1.9 required=5.0 tests=BAYES_00,KHOP_DYNAMIC, URIBL_BLOCKED autolearn=unavailable autolearn_force=no version=3.4.2 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.90_1) (envelope-from ) id 1jQvko-0000Hg-Rx for guix-patches@gnu.org; Tue, 21 Apr 2020 12:28:12 -0400 Received: from 216-80-121-173.s13.demp-ubr2.chi-demp.il.static.cable.rcncustomer.com ([216.80.121.173]:58983 helo=ericcbrown.com) by eggs.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1jQvko-0000EX-Bl for guix-patches@gnu.org; Tue, 21 Apr 2020 12:28:10 -0400 Received: from localhost (unknown [192.168.1.1]) by ericcbrown.com (Postfix) with ESMTPSA id AF31A498E973 for ; Tue, 21 Apr 2020 11:28:07 -0500 (CDT) From: Eric Brown To: guix-patches@gnu.org Subject: New package: r-brms Mail-reply-to: Eric Brown Mail-followup-to: Eric Brown Date: Tue, 21 Apr 2020 11:28:07 -0500 Message-ID: <87blnkreg8.fsf@ericcbrown.com> User-Agent: Gnus/5.13 (Gnus v5.13) Emacs/26.3 (gnu/linux) MIME-Version: 1.0 Content-Type: multipart/mixed; boundary="=-=-=" Received-SPF: none client-ip=216.80.121.173; envelope-from=ecbrown@ericcbrown.com; helo=ericcbrown.com X-detected-operating-system: by eggs.gnu.org: First seen = 2020/04/21 12:28:07 X-ACL-Warn: Detected OS = Mac OS X [generic] [fuzzy] X-Received-From: 216.80.121.173 X-Spam-Score: -0.7 (/) 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: -1.7 (-) --=-=-= Content-Type: text/plain Dear Guix: Please see attached diff for r-brms. Best regards, Eric --=-=-= Content-Type: text/x-patch Content-Disposition: inline; filename=0001-gnu-Add-r-brms.patch Content-Description: r-brms >From 6d9b9202a5c2c45bd30b8764c740aee291274c83 Mon Sep 17 00:00:00 2001 From: Eric Brown Date: Tue, 21 Apr 2020 11:13:11 -0500 Subject: [PATCH] gnu: Add r-brms. * gnu/packages/cran.scm (r-brms): New variable. --- gnu/packages/cran.scm | 52 +++++++++++++++++++++++++++++++++++++++++++ 1 file changed, 52 insertions(+) diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index 70cb7cc700..13251652d4 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -21162,3 +21162,55 @@ evaluated interactively.") Bayes factors, posterior model probabilities, and normalizing constants in general, via different versions of bridge sampling.") (license license:gpl2+))) + +(define-public r-brms + (package + (name "r-brms") + (version "2.12.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "brms" version)) + (sha256 + (base32 + "1699lwkklfhjz7fddawlig552g2zvrc34mqwrzqjgl35r9fm08gs")))) + (properties `((upstream-name . "brms"))) + (build-system r-build-system) + (propagated-inputs + `(("r-abind" ,r-abind) + ("r-backports" ,r-backports) + ("r-bayesplot" ,r-bayesplot) + ("r-bridgesampling" ,r-bridgesampling) + ("r-coda" ,r-coda) + ("r-future" ,r-future) + ("r-ggplot2" ,r-ggplot2) + ("r-glue" ,r-glue) + ("r-loo" ,r-loo) + ("r-matrix" ,r-matrix) + ("r-matrixstats" ,r-matrixstats) + ("r-mgcv" ,r-mgcv) + ("r-nleqslv" ,r-nleqslv) + ("r-nlme" ,r-nlme) + ("r-rcpp" ,r-rcpp) + ("r-rstan" ,r-rstan) + ("r-rstantools" ,r-rstantools) + ("r-shinystan" ,r-shinystan))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page + "https://github.com/paul-buerkner/brms") + (synopsis + "Bayesian Regression Models using 'Stan'") + (description + "Fit Bayesian generalized (non-)linear multivariate multilevel models +using 'Stan' for full Bayesian inference. A wide range of distributions and +link functions are supported, allowing users to fit -- among others -- linear, +robust linear, count data, survival, response times, ordinal, zero-inflated, +hurdle, and even self-defined mixture models all in a multilevel context. +Further modeling options include non-linear and smooth terms, auto-correlation +structures, censored data, meta-analytic standard errors, and quite a few +more. In addition, all parameters of the response distribution can be +predicted in order to perform distributional regression. Prior specifications +are flexible and explicitly encourage users to apply prior distributions that +actually reflect their beliefs. Model fit can easily be assessed and compared +with posterior predictive checks and leave-one-out cross-validation.") + (license license:gpl2))) -- 2.26.2 --=-=-=-- From debbugs-submit-bounces@debbugs.gnu.org Fri May 29 00:26:27 2020 Received: (at control) by debbugs.gnu.org; 29 May 2020 04:26:27 +0000 Received: from localhost ([127.0.0.1]:53554 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1jeWbC-00020z-9p for submit@debbugs.gnu.org; Fri, 29 May 2020 00:26:27 -0400 Received: from wout1-smtp.messagingengine.com ([64.147.123.24]:51739) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1jeWaw-00020W-1o for control@debbugs.gnu.org; Fri, 29 May 2020 00:26:25 -0400 Received: from compute2.internal (compute2.nyi.internal [10.202.2.42]) by mailout.west.internal (Postfix) with ESMTP id 9323E8E5; Fri, 29 May 2020 00:26:03 -0400 (EDT) Received: from mailfrontend2 ([10.202.2.163]) by compute2.internal (MEProxy); Fri, 29 May 2020 00:26:03 -0400 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=famulari.name; h=date:from:to:message-id:mime-version:content-type; s=mesmtp; bh=qWAksKV+Ewt0LMehv4RH7uwCHw2C3S4jWtgVpDEQTnE=; b=Vhy96Vl6XglF edP32PhOe6pdbC/JA8H15I6QZI/9F5iHli5pBoZ5L9sU6LI0IGgXYEFEVmhG61tN yxDfopjthbdcKzpJYrzhf945foUXKNPIIfRLQD+NNLcF8CC92WpNhfdCcURBOKiR up/+3twOSEitt/9IgOMjMyUi8bbHErs= DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d= messagingengine.com; h=content-type:date:from:message-id :mime-version:to:x-me-proxy:x-me-proxy:x-me-sender:x-me-sender :x-sasl-enc; s=fm2; bh=qWAksKV+Ewt0LMehv4RH7uwCHw2C3S4jWtgVpDEQT nE=; b=vfnkZP+vV8rA9FJuagErlpc2Y95Imheh657HgareX6aztIXPBoMggTL0m Uzd6e1fo1derT2ftrh3xpRpRXh1HXpPL6ieN4hb366ka8zduTCsDl1jjjazpTyji 0hDxdA84+SUSaWVza04Wl5ByF680QkmsNUGdOp7EKTHqiOUbzbzqivTJu+0c1Jxp yXeDFEz+7Fu3jIpbpZMiLrCmEhOrNNpb8Piuqelt6haIXcGD0SnZwv7HDF0l2oFs wqYg+dM0ce62ooftT0Ko0/dejhgKzH7+3T0RFGuZ6hmQAx+26pnGMLXwkdiLJxGE gsdr7GF8/DaVUT+7Q50/mjXomU7AA== X-ME-Sender: X-ME-Proxy-Cause: gggruggvucftvghtrhhoucdtuddrgeduhedruddvjedgjeejucetufdoteggodetrfdotf fvucfrrhhofhhilhgvmecuhfgrshhtofgrihhlpdfqfgfvpdfurfetoffkrfgpnffqhgen uceurghilhhouhhtmecufedttdenucfgmhhpthihuchsuhgsjhgvtghtucdluddtmdenuc fjughrpeffhffvkfggtggusehttdertddttddvnecuhfhrohhmpefnvghoucfhrghmuhhl rghrihcuoehlvghosehfrghmuhhlrghrihdrnhgrmhgvqeenucggtffrrghtthgvrhhnpe fhjeeigfefvedvfeetheegledtkeevuddtgedtudeiteehteegvdefffduffefffenucfk phepjeeirdduvdegrddufeekrdeifeenucevlhhushhtvghrufhiiigvpedtnecurfgrrh grmhepmhgrihhlfhhrohhmpehlvghosehfrghmuhhlrghrihdrnhgrmhgv X-ME-Proxy: Received: from localhost (c-76-124-138-63.hsd1.pa.comcast.net [76.124.138.63]) by mail.messagingengine.com (Postfix) with ESMTPA id DA7943060F09 for ; Fri, 29 May 2020 00:26:02 -0400 (EDT) Date: Fri, 29 May 2020 00:26:01 -0400 From: Leo Famulari To: control@debbugs.gnu.org Message-ID: <20200529042601.GA26204@jasmine.lan> MIME-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Disposition: inline X-Spam-Score: 2.0 (++) X-Spam-Report: Spam detection software, running on the system "debbugs.gnu.org", has NOT identified this incoming email as spam. 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Content preview: close 40746 Content analysis details: (2.0 points, 10.0 required) pts rule name description ---- ---------------------- -------------------------------------------------- 0.0 T_SPF_HELO_TEMPERROR SPF: test of HELO record failed (temperror) -0.0 SPF_PASS SPF: sender matches SPF record 1.8 MISSING_SUBJECT Missing Subject: header 0.2 NO_SUBJECT Extra score for no subject X-Debbugs-Envelope-To: control 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: 0.3 (/) close 40746 From debbugs-submit-bounces@debbugs.gnu.org Sat May 30 13:54:16 2020 Received: (at 40746) by debbugs.gnu.org; 30 May 2020 17:54:17 +0000 Received: from localhost ([127.0.0.1]:59159 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1jf5gW-00024z-LQ for submit@debbugs.gnu.org; Sat, 30 May 2020 13:54:16 -0400 Received: from out4-smtp.messagingengine.com ([66.111.4.28]:58805) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1jf5gV-00024o-Qx for 40746@debbugs.gnu.org; Sat, 30 May 2020 13:54:16 -0400 Received: from compute4.internal (compute4.nyi.internal [10.202.2.44]) by mailout.nyi.internal (Postfix) with ESMTP id 865065C009A; Sat, 30 May 2020 13:54:10 -0400 (EDT) Received: from mailfrontend1 ([10.202.2.162]) by compute4.internal (MEProxy); Sat, 30 May 2020 13:54:10 -0400 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=fastmail.com; h= from:to:subject:in-reply-to:references:date:message-id :mime-version:content-type; s=fm3; bh=8DMQWDwZGz09IJw0IWoIlXi5Na uaiCjkX8ZGwSmi1fA=; b=i30Ieh/FblxOSFjjxf085wyic7QpMlgQ/qwGq1htF9 PT/YuvjKt/zGzrS5Ya0mDFRRIKeNq7nwsrauhI5kZkB4PRlhk4Ii6OSrLvcrMEor fR04V/J4NT6/jvif3VKGtkY4jIbfRwc58QlmSL5aFKRb3W0AHH+QSGdJOUmEebWF Q+L1YBQ4ZDpDwRlxFRmzdDqBfalvd1nUPMhmm9z38GQ4Bjf4HWdFGTia3zR8r0/A zoQytaBx0Il/8KeCO5Cbz/wbDEtmbv9asKxGYRGDh9vaus0iHBl443/ZMzwd49vZ 5e+JbMJBYlmehSFPUlqwCfrUJVwMtqKmmlZdRb32BxDQ== DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d= messagingengine.com; h=content-type:date:from:in-reply-to :message-id:mime-version:references:subject:to:x-me-proxy :x-me-proxy:x-me-sender:x-me-sender:x-sasl-enc; s=fm2; bh=8DMQWD wZGz09IJw0IWoIlXi5NauaiCjkX8ZGwSmi1fA=; b=074HIwQ4PtdypLo87DgUAX iyGO5otsdZWULnEkI0kiSwk1dwYTi3MHe99i2efsjwO5EEqEDPzse0zeKCWMb4Iq uSMp/7zwUV6RAoHLMiFu6t3cqsORndOJ5YaOxWfBLDVK5Qw/7VLRxlwcCGXwOC+k BKBfH+ufD+VCBHxn4SByfZfz4XbCkzkGo2MX60q8HR4goqo0wKe/3u7fBT9dUSHj iE73uT1HYciZXh0el6BRYQMEzEAI1SWOuR3N2/4aA13b1ejmUGCkFiniV5TyY6cd XKBUFEjLDH37dx2029FhsUxrcMx5gy/s0rfR4qVf9FN6jrcy5A793Ec/1DHabBEA == X-ME-Sender: X-ME-Proxy-Cause: gggruggvucftvghtrhhoucdtuddrgeduhedrudeftddgudduiecutefuodetggdotefrod ftvfcurfhrohhfihhlvgemucfhrghsthforghilhdpqfgfvfdpuffrtefokffrpgfnqfgh necuuegrihhlohhuthemuceftddtnecusecvtfgvtghiphhivghnthhsucdlqddutddtmd enucfjughrpefhvffujghffffkgggtsehgtderredttddtnecuhfhrohhmpeforghrihhu shcuuegrkhhkvgcuoehmsggrkhhkvgesfhgrshhtmhgrihhlrdgtohhmqeenucggtffrrg htthgvrhhnpeeuvedvueeggffhkeffgfejfefgvdeivedvteduuefhgfekieeujeegjedu tdeiudenucffohhmrghinhepghhithhhuhgsrdgtohhmnecukfhppeekgedrvddtvddrie ekrdejheenucevlhhushhtvghrufhiiigvpedtnecurfgrrhgrmhepmhgrihhlfhhrohhm pehmsggrkhhkvgesfhgrshhtmhgrihhlrdgtohhm X-ME-Proxy: Received: from localhost (ti0006q161-2604.bb.online.no [84.202.68.75]) by mail.messagingengine.com (Postfix) with ESMTPA id 003FF328005A; Sat, 30 May 2020 13:54:09 -0400 (EDT) From: Marius Bakke To: Eric Brown , 40746@debbugs.gnu.org Subject: Re: [bug#40746] New package: r-brms In-Reply-To: <87blnkreg8.fsf@ericcbrown.com> References: <87blnkreg8.fsf@ericcbrown.com> Date: Sat, 30 May 2020 19:54:08 +0200 Message-ID: <87o8q5xq9r.fsf@gnu.org> MIME-Version: 1.0 Content-Type: multipart/signed; boundary="=-=-="; micalg=pgp-sha512; protocol="application/pgp-signature" X-Spam-Score: -0.7 (/) X-Debbugs-Envelope-To: 40746 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: -1.7 (-) --=-=-= Content-Type: text/plain Hello, This patch has gone stale, sorry about that. Can you rebase it on 'master'? Eric Brown writes: > From 6d9b9202a5c2c45bd30b8764c740aee291274c83 Mon Sep 17 00:00:00 2001 > From: Eric Brown > Date: Tue, 21 Apr 2020 11:13:11 -0500 > Subject: [PATCH] gnu: Add r-brms. > > * gnu/packages/cran.scm (r-brms): New variable. [...] > + (home-page > + "https://github.com/paul-buerkner/brms") > + (synopsis > + "Bayesian Regression Models using 'Stan'") The line breaks here are unnecessary. > + (description > + "Fit Bayesian generalized (non-)linear multivariate multilevel models > +using 'Stan' for full Bayesian inference. A wide range of distributions and > +link functions are supported, allowing users to fit -- among others -- linear, > +robust linear, count data, survival, response times, ordinal, zero-inflated, > +hurdle, and even self-defined mixture models all in a multilevel context. > +Further modeling options include non-linear and smooth terms, auto-correlation > +structures, censored data, meta-analytic standard errors, and quite a few > +more. In addition, all parameters of the response distribution can be > +predicted in order to perform distributional regression. Prior specifications > +are flexible and explicitly encourage users to apply prior distributions that > +actually reflect their beliefs. Model fit can easily be assessed and compared > +with posterior predictive checks and leave-one-out cross-validation.") Please use two spaces between sentences, as suggested by 'guix lint'. > + (license license:gpl2))) I don't see any files mentioning 'GPL 2 only', so this should probably be 'gpl2+', i.e. "GPL 2 or any later version". Can you send an updated patch? Thanks in advance. :-) --=-=-= Content-Type: application/pgp-signature; name="signature.asc" -----BEGIN PGP SIGNATURE----- iQEzBAEBCgAdFiEEu7At3yzq9qgNHeZDoqBt8qM6VPoFAl7SncAACgkQoqBt8qM6 VPrS5QgAx9Fdas4tqDCGxnS1Rglk3bDW5U/Mjs3X1MeNQMBHk+Gt96H88Ft3B2Y+ SzG98lYCql9yUTjI7mYA8L4oWKGKhjekjDGeBVfP4fuQ6kk6K5crAgtPsXIlNibQ DWrNhQEjbTes8qW++4CSgH4zX0jAmi/boTGiGtQySJRbmQPRg1j6wF+XHxNgolQ3 p+AmDXT8/TLmP2AvYghGu3sxaVNy8dnlHEXGm/j4O9XXWkApJQy/Dg3icooT1O6k GMDU+c0EDvK1B9C4vcolghyJTmrmj5Q4u4sMJuBNDce04l+8BibI/pxNxmtmaFAs MQ51MhC8usC1cMNDfl+aZCcOjzkycA== =m0ul -----END PGP SIGNATURE----- --=-=-=-- From unknown Sat Jun 21 10:41:44 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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