Received: by mail.netbsd.org (Postfix, from userid 605) id BBC3384E6B; Sat, 18 Sep 2021 11:43:03 +0000 (UTC) Received: from localhost (localhost [127.0.0.1]) by mail.netbsd.org (Postfix) with ESMTP id F232084E6A for ; Sat, 18 Sep 2021 11:43:02 +0000 (UTC) X-Virus-Scanned: amavisd-new at netbsd.org Received: from mail.netbsd.org ([IPv6:::1]) by localhost (mail.netbsd.org [IPv6:::1]) (amavisd-new, port 10025) with ESMTP id E8dcxL8Uvh_4 for ; Sat, 18 Sep 2021 11:43:02 +0000 (UTC) Received: from cvs.NetBSD.org (ivanova.netbsd.org [199.233.217.197]) by mail.netbsd.org (Postfix) with ESMTP id 076AC84E67 for ; Sat, 18 Sep 2021 11:43:02 +0000 (UTC) Received: by cvs.NetBSD.org (Postfix, from userid 500) id 009CFFA97; Sat, 18 Sep 2021 11:43:01 +0000 (UTC) Content-Transfer-Encoding: 7bit Content-Type: multipart/mixed; boundary="_----------=_1631965381206390" MIME-Version: 1.0 Date: Sat, 18 Sep 2021 11:43:01 +0000 From: "Makoto Fujiwara" Subject: CVS commit: pkgsrc/math/R-sandwich To: pkgsrc-changes@NetBSD.org Reply-To: mef@netbsd.org X-Mailer: log_accum Message-Id: <20210918114302.009CFFA97@cvs.NetBSD.org> Sender: pkgsrc-changes-owner@NetBSD.org List-Id: Precedence: bulk List-Unsubscribe: This is a multi-part message in MIME format. --_----------=_1631965381206390 Content-Disposition: inline Content-Transfer-Encoding: 8bit Content-Type: text/plain; charset="US-ASCII" Module Name: pkgsrc Committed By: mef Date: Sat Sep 18 11:43:01 UTC 2021 Modified Files: pkgsrc/math/R-sandwich: Makefile distinfo Log Message: (math/R-sandwich) Updated 2.5.1 to 3.0.1 # sandwich 3.0-1 * Extended the "Getting started" page with information on how to use _sandwich_ in combination with the _modelsummary_ package (Arel-Bundock) based on _broom_ infrastructure (Robinson, Hayes, Couch). (Based on ideas from Grant McDermott.) * Catch `NA` observations in `cluster` and/or `order.by` indexes for `vcovCL()`, `vcovBS()`, `vcovPL()`, and `vcovPC()`. Such missing observations cannot be handled in the covariance extractor functions but need to be addressed prior to fitting the model object, either by omitting these observations or by imputing the missing values. (Raised by Alexander Fischer on StackOverflow .) * In `vcovHC()` if there are `estfun()` rows that are all zero and `type = "const"`, then the working residuals for `lm` and `glm` objects are obtained via `residuals()` rather than `estfun()`. (Prompted by an issue raised by Alex Torgovitsky.) # sandwich 3.0-0 * Release of version 3.0-0 accompanying the publication of the paper "Various Versatile Variances: An Object-Oriented Implementation of Clustered Covariances in R." together with Susanne Koell and Nathaniel Graham in the _Journal of Statistcal Software_ at . The paper is also provided as a vignette in the package as `vignette("sandwich-CL", package = "sandwich")`. * Improved or clarified notation in Equations 6, 9, 21, and 22 (based on feedback from Bettina Gruen). * The documentation of the HC1 bias correction for clustered covariances in `vignette("sandwich-CL", package = "sandwich")` has been corrected (Equation 15). While both the code in `vcovCL()` and the corresponding documentation `?vcovCL` always correctly used (n-1)/(n-k), the vignette had incorrectly stated it as n/(n-k). (Reported by Yves Croissant.) * The package is also accompanied by a `pkgdown` website on R-Forge now: This essentially uses the previous content of the package (documentation, vignettes, NEWS) and just formatting was enhanced. But a few new features were also added: - A "Get started" vignette for the `pkgdown` page (but not shipped in the package) providing an introduction to the package and listing all variance-covariance functions provided with links to further details. - R/Markdown overview vignettes for the `pkgdown` page (but also not shipped in the package) linking the `Sweave`-based PDF vignettes so that they are easily accessible online. - A `README` with very brief overview for the `pkgdown` title page. - A nice logo, kindly provided by Reto Stauffer. * All kernel weights functions in `kweights()` are made symmetric around zero now (suggested by Christoph Hanck). The quadratic spectral kernal is approximated by `exp(-c * x^2)` rather than `1` for very small `x`. * In case the `Formula` namespace is loaded, warnings are suppressed now for processing formula specifications like `cluster = ~ id` in `expand.model.frame()`. Otherwise warnings may occur with the `|` separator in multi-part formulas with factors. (Reported by David Hugh-Jones.) * The `bread()` method for `mlm` objects has been improved to also handle _weighted_ `mlm` objects. (Suggested by James Pustejovsky.) To generate a diff of this commit: cvs rdiff -u -r1.2 -r1.3 pkgsrc/math/R-sandwich/Makefile cvs rdiff -u -r1.1 -r1.2 pkgsrc/math/R-sandwich/distinfo Please note that diffs are not public domain; they are subject to the copyright notices on the relevant files. --_----------=_1631965381206390 Content-Disposition: inline Content-Length: 2066 Content-Transfer-Encoding: binary Content-Type: text/x-diff; charset=us-ascii Modified files: Index: pkgsrc/math/R-sandwich/Makefile diff -u pkgsrc/math/R-sandwich/Makefile:1.2 pkgsrc/math/R-sandwich/Makefile:1.3 --- pkgsrc/math/R-sandwich/Makefile:1.2 Thu Aug 8 19:53:53 2019 +++ pkgsrc/math/R-sandwich/Makefile Sat Sep 18 11:43:01 2021 @@ -1,8 +1,7 @@ -# $NetBSD: Makefile,v 1.2 2019/08/08 19:53:53 brook Exp $ +# $NetBSD: Makefile,v 1.3 2021/09/18 11:43:01 mef Exp $ R_PKGNAME= sandwich -R_PKGVER= 2.5-1 -CATEGORIES= math +R_PKGVER= 3.0-1 MAINTAINER= pkgsrc-users@NetBSD.org COMMENT= Robust covariance matrix estimators @@ -10,6 +9,12 @@ LICENSE= gnu-gpl-v2 OR gnu-gpl-v3 DEPENDS+= R-zoo>=1.8.6:../../math/R-zoo +# Packages suggested but not available: +# 'AER', 'geepack', 'multiwayvcov', 'pcse', 'plm', 'pscl', +# 'scatterplot3d', 'strucchange' +TEST_DEPENDS+= R-car-[0-9]*:../../math/R-car +TEST_DEPENDS+= R-lmtest-[0-9]*:../../math/R-lmtest + USE_LANGUAGES= # none .include "../../math/R/Makefile.extension" Index: pkgsrc/math/R-sandwich/distinfo diff -u pkgsrc/math/R-sandwich/distinfo:1.1 pkgsrc/math/R-sandwich/distinfo:1.2 --- pkgsrc/math/R-sandwich/distinfo:1.1 Wed Jul 31 13:28:23 2019 +++ pkgsrc/math/R-sandwich/distinfo Sat Sep 18 11:43:01 2021 @@ -1,6 +1,6 @@ -$NetBSD: distinfo,v 1.1 2019/07/31 13:28:23 brook Exp $ +$NetBSD: distinfo,v 1.2 2021/09/18 11:43:01 mef Exp $ -SHA1 (R/sandwich_2.5-1.tar.gz) = acaf9914ed1a0674033e701b10a4e4733a5b4634 -RMD160 (R/sandwich_2.5-1.tar.gz) = ccdc868f90c92016d5b1baf5e76a107a8fc2082c -SHA512 (R/sandwich_2.5-1.tar.gz) = 381a4f3f1252e61796744a0d15ce1a118e4a0d4d06325294617fee77e4080e37a0832794d03e1478b7a897058693a50a5c0e59591f445517590f7772c7fd7d04 -Size (R/sandwich_2.5-1.tar.gz) = 1349536 bytes +SHA1 (R/sandwich_3.0-1.tar.gz) = 243830dd567c18b2d1fc46069350ffbf40ebb04d +RMD160 (R/sandwich_3.0-1.tar.gz) = fc11d686429ae4a6caa9c1427edb5e1302caff50 +SHA512 (R/sandwich_3.0-1.tar.gz) = fa2117c0d357aea85bab3468789739e218d87552535a8c5aaabb5c1191883304dfd8ac5109d7104ab15fd4535c5f1f4de88a5779ad1e573efc73b0ae567c6769 +Size (R/sandwich_3.0-1.tar.gz) = 1482805 bytes --_----------=_1631965381206390--