From 89d95c58070dd70db432ac3f4f03f697ac9fd441 Mon Sep 17 00:00:00 2001 From: jranke Date: Mon, 24 Nov 2014 17:34:36 +0000 Subject: Remove leftover vignette file, decrease offending precision in test, release git-svn-id: svn+ssh://svn.r-forge.r-project.org/svnroot/kinfit/pkg/kinfit@232 edb9625f-4e0d-4859-8d74-9fd3b1da38cb --- DESCRIPTION | 7 +- tests/test_FOCUS_2006_A.R | 2 +- tests/test_FOCUS_2006_A.Rout.save | 198 ++++----- vignettes/Rplots.pdf | 815 -------------------------------------- 4 files changed, 106 insertions(+), 916 deletions(-) delete mode 100644 vignettes/Rplots.pdf diff --git a/DESCRIPTION b/DESCRIPTION index 5e5547a..18d5f9e 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,8 +1,8 @@ Package: kinfit Type: Package Title: Routines for fitting kinetic models to chemical degradation data -Version: 1.1.12 -Date: 2013-11-27 +Version: 1.1.13 +Date: 2014-11-24 Author: Johannes Ranke, with contributions from Katrin Lindenberger Maintainer: Johannes Ranke Description: Simple calculation routines based on the FOCUS Kinetics @@ -10,6 +10,9 @@ Description: Simple calculation routines based on the FOCUS Kinetics included (no metabolite formation/decline or multicompartment kinetics). Please note that no warranty is implied for correctness of results or fitness for a particular purpose. + This package is not actively developed at the moment. Please check the mkin + package for an actively maintained package for kinetic evaluations of + degradation data License: GPL LazyLoad: yes LazyData: yes diff --git a/tests/test_FOCUS_2006_A.R b/tests/test_FOCUS_2006_A.R index ff55174..3dc37f3 100644 --- a/tests/test_FOCUS_2006_A.R +++ b/tests/test_FOCUS_2006_A.R @@ -37,7 +37,7 @@ print(kinresults(fits)$stats, digits=5) data(FOCUS_2006_D) fits <- kinfit(FOCUS_2006_D, kinmodels = c("SFO", "FOMC")) print(kinresults(fits)$results, digits=5) -print(kinresults(fits)$stats, digits=5) +print(kinresults(fits)$stats, digits=3) data(FOCUS_2006_E) fits <- kinfit(FOCUS_2006_E, kinmodels = c("SFO", "FOMC", "DFOP")) diff --git a/tests/test_FOCUS_2006_A.Rout.save b/tests/test_FOCUS_2006_A.Rout.save index 1b459f6..2b962a7 100644 --- a/tests/test_FOCUS_2006_A.Rout.save +++ b/tests/test_FOCUS_2006_A.Rout.save @@ -1,98 +1,100 @@ - -R version 2.14.0 (2011-10-31) -Copyright (C) 2011 The R Foundation for Statistical Computing -ISBN 3-900051-07-0 -Platform: i386-pc-mingw32/i386 (32-bit) - -R is free software and comes with ABSOLUTELY NO WARRANTY. -You are welcome to redistribute it under certain conditions. -Type 'license()' or 'licence()' for distribution details. - -R is a collaborative project with many contributors. -Type 'contributors()' for more information and -'citation()' on how to cite R or R packages in publications. - -Type 'demo()' for some demos, 'help()' for on-line help, or -'help.start()' for an HTML browser interface to help. -Type 'q()' to quit R. - -> # $Id: test_FOCUS_2006_A.R 59 2010-07-28 12:29:15Z jranke $ -> -> # Copyright (C) 2008-2010 Johannes Ranke -> # Contact: mkin-devel@lists.berlios.de -> -> # This file is part of the R package kinfit -> -> # kinfit is free software: you can redistribute it and/or modify it under the -> # terms of the GNU General Public License as published by the Free Software -> # Foundation, either version 3 of the License, or (at your option) any later -> # version. -> -> # This program is distributed in the hope that it will be useful, but WITHOUT -> # ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS -> # FOR A PARTICULAR PURPOSE. See the GNU General Public License for more -> # details. -> -> # You should have received a copy of the GNU General Public License along with -> # this program. If not, see -> -> library(kinfit) -> data(FOCUS_2006_A) -> fits <- kinfit(FOCUS_2006_A, kinmodels = c("SFO", "HS")) -> print(kinresults(fits)$results, digits=5) - DT50 DT90 -SFO 18.624 61.868 -> print(kinresults(fits)$stats, digits=5) - n.times df mean.means RSS err.min R2 -SFO 8 6 50.054 221.81 0.083848 0.9845 -> -> data(FOCUS_2006_B) -> fits <- kinfit(FOCUS_2006_B, kinmodels = c("SFO", "FOMC", "DFOP")) -> print(kinresults(fits)$results, digits=5) - DT50 DT90 -SFO 8.8686 29.461 -FOMC 8.6834 30.754 -DFOP 8.6829 30.789 -> print(kinresults(fits)$stats, digits=5) - n.times df mean.means RSS err.min R2 -SFO 8 6 35.015 30.656 0.044555 0.99713 -FOMC 8 5 35.015 28.583 0.045886 0.99733 -DFOP 8 4 35.015 28.550 0.049527 0.99733 -> -> data(FOCUS_2006_C) -> fits <- kinfit(FOCUS_2006_C, kinmodels = c("SFO", "FOMC", "DFOP")) -> print(kinresults(fits)$results, digits=5) - DT50 DT90 -SFO 2.2647 7.5233 -FOMC 1.7852 15.1479 -DFOP 1.8869 21.2507 -> print(kinresults(fits)$stats, digits=5) - n.times df mean.means RSS err.min R2 -SFO 9 7 23.589 196.5334 0.158440 0.97136 -FOMC 9 6 23.589 31.0509 0.066568 0.99548 -DFOP 9 5 23.589 4.3627 0.026621 0.99936 -> -> data(FOCUS_2006_D) -> fits <- kinfit(FOCUS_2006_D, kinmodels = c("SFO", "FOMC")) -> print(kinresults(fits)$results, digits=5) - DT50 DT90 -SFO 7.0776 23.511 -FOMC 6.9350 24.044 -> print(kinresults(fits)$stats, digits=5) - n.times df mean.means RSS err.min R2 -SFO 9 7 39.523 207.63 0.064524 0.99194 -FOMC 9 6 39.523 205.45 0.067792 0.99202 -> -> data(FOCUS_2006_E) -> fits <- kinfit(FOCUS_2006_E, kinmodels = c("SFO", "FOMC", "DFOP")) -> print(kinresults(fits)$results, digits=5) - DT50 DT90 -SFO 2.2647 7.5233 -FOMC 1.7852 15.1479 -DFOP 1.8869 21.2507 -> print(kinresults(fits)$stats, digits=5) - n.times df mean.means RSS err.min R2 -SFO 9 7 23.589 196.5334 0.158440 0.97136 -FOMC 9 6 23.589 31.0509 0.066568 0.99548 -DFOP 9 5 23.589 4.3627 0.026621 0.99936 -> + +R version 3.1.2 (2014-10-31) -- "Pumpkin Helmet" +Copyright (C) 2014 The R Foundation for Statistical Computing +Platform: x86_64-pc-linux-gnu (64-bit) + +R is free software and comes with ABSOLUTELY NO WARRANTY. +You are welcome to redistribute it under certain conditions. +Type 'license()' or 'licence()' for distribution details. + +R is a collaborative project with many contributors. +Type 'contributors()' for more information and +'citation()' on how to cite R or R packages in publications. + +Type 'demo()' for some demos, 'help()' for on-line help, or +'help.start()' for an HTML browser interface to help. +Type 'q()' to quit R. + +> # $Id: test_FOCUS_2006_A.R 59 2010-07-28 12:29:15Z jranke $ +> +> # Copyright (C) 2008-2010 Johannes Ranke +> # Contact: mkin-devel@lists.berlios.de +> +> # This file is part of the R package kinfit +> +> # kinfit is free software: you can redistribute it and/or modify it under the +> # terms of the GNU General Public License as published by the Free Software +> # Foundation, either version 3 of the License, or (at your option) any later +> # version. +> +> # This program is distributed in the hope that it will be useful, but WITHOUT +> # ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS +> # FOR A PARTICULAR PURPOSE. See the GNU General Public License for more +> # details. +> +> # You should have received a copy of the GNU General Public License along with +> # this program. If not, see +> +> library(kinfit) +> data(FOCUS_2006_A) +> fits <- kinfit(FOCUS_2006_A, kinmodels = c("SFO", "HS")) +> print(kinresults(fits)$results, digits=5) + DT50 DT90 +SFO 18.624 61.868 +> print(kinresults(fits)$stats, digits=5) + n.times df mean.means RSS err.min R2 +SFO 8 6 50.054 221.81 0.083848 0.9845 +> +> data(FOCUS_2006_B) +> fits <- kinfit(FOCUS_2006_B, kinmodels = c("SFO", "FOMC", "DFOP")) +> print(kinresults(fits)$results, digits=5) + DT50 DT90 +SFO 8.8686 29.461 +FOMC 8.6834 30.754 +DFOP 8.6829 30.789 +> print(kinresults(fits)$stats, digits=5) + n.times df mean.means RSS err.min R2 +SFO 8 6 35.015 30.656 0.044555 0.99713 +FOMC 8 5 35.015 28.583 0.045886 0.99733 +DFOP 8 4 35.015 28.550 0.049527 0.99733 +> +> data(FOCUS_2006_C) +> fits <- kinfit(FOCUS_2006_C, kinmodels = c("SFO", "FOMC", "DFOP")) +> print(kinresults(fits)$results, digits=5) + DT50 DT90 +SFO 2.2647 7.5233 +FOMC 1.7852 15.1479 +DFOP 1.8869 21.2507 +> print(kinresults(fits)$stats, digits=5) + n.times df mean.means RSS err.min R2 +SFO 9 7 23.589 196.5334 0.158440 0.97136 +FOMC 9 6 23.589 31.0509 0.066568 0.99548 +DFOP 9 5 23.589 4.3627 0.026621 0.99936 +> +> data(FOCUS_2006_D) +> fits <- kinfit(FOCUS_2006_D, kinmodels = c("SFO", "FOMC")) +> print(kinresults(fits)$results, digits=5) + DT50 DT90 +SFO 7.0776 23.511 +FOMC 6.9350 24.044 +> print(kinresults(fits)$stats, digits=3) + n.times df mean.means RSS err.min R2 +SFO 9 7 39.5 208 0.0645 0.992 +FOMC 9 6 39.5 205 0.0678 0.992 +> +> data(FOCUS_2006_E) +> fits <- kinfit(FOCUS_2006_E, kinmodels = c("SFO", "FOMC", "DFOP")) +> print(kinresults(fits)$results, digits=5) + DT50 DT90 +SFO 2.2647 7.5233 +FOMC 1.7852 15.1479 +DFOP 1.8869 21.2507 +> print(kinresults(fits)$stats, digits=5) + n.times df mean.means RSS err.min R2 +SFO 9 7 23.589 196.5334 0.158440 0.97136 +FOMC 9 6 23.589 31.0509 0.066568 0.99548 +DFOP 9 5 23.589 4.3627 0.026621 0.99936 +> +> proc.time() + user system elapsed + 0.992 0.064 1.113 diff --git a/vignettes/Rplots.pdf 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