diff options
| -rw-r--r-- | .Rbuildignore | 3 | ||||
| -rw-r--r-- | .gitignore | 1 | ||||
| -rw-r--r-- | DESCRIPTION | 2 | ||||
| -rw-r--r-- | GNUmakefile | 6 | ||||
| -rw-r--r-- | build.log | 10 | ||||
| -rw-r--r-- | check.log | 81 | ||||
| -rw-r--r-- | test.log | 13 |
7 files changed, 112 insertions, 4 deletions
diff --git a/.Rbuildignore b/.Rbuildignore index 700385ef..0cf899b7 100644 --- a/.Rbuildignore +++ b/.Rbuildignore @@ -19,3 +19,6 @@ vignettes/*.synctex.gz ^vignettes/*_files$ ^figure/* ^Rplots.pdf$ +test.log +check.log +build.log @@ -22,3 +22,4 @@ vignettes/figure/ vignettes/*_cache/ vignettes/*_files/ mkin.Rcheck +install.log diff --git a/DESCRIPTION b/DESCRIPTION index 56f3fe15..7004f0da 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -2,7 +2,7 @@ Package: mkin Type: Package Title: Routines for Fitting Kinetic Models with One or More State Variables to Chemical Degradation Data -Version: 0.9-38 +Version: 0.9-39 Date: 2015-06-23 Authors@R: c(person("Johannes", "Ranke", role = c("aut", "cre", "cph"), email = "jranke@uni-bremen.de"), diff --git a/GNUmakefile b/GNUmakefile index 9caa84f7..57a6ca15 100644 --- a/GNUmakefile +++ b/GNUmakefile @@ -40,7 +40,7 @@ README.md: README.Rmd $(TGZ): $(pkgfiles) vignettes/*.html vignettes/*.pdf cd ..;\ - "$(RBIN)/R" CMD build $(PKGSRC) + "$(RBIN)/R" CMD build $(PKGSRC) 2>&1 | tee $(PKGNAME)/build.log $(TGZVNR): $(pkgfiles) cd ..;\ @@ -59,7 +59,7 @@ install-no-vignettes: build-no-vignettes "$(RBIN)/R" CMD INSTALL $(TGZVNR) check: build - "$(RBIN)/R" CMD check --as-cran --no-tests $(TGZ) + "$(RBIN)/R" CMD check --as-cran --no-tests $(TGZ) 2>&1 | tee check.log quickcheck: build-no-vignettes mv $(TGZVNR) $(TGZ) @@ -78,7 +78,7 @@ clean: test: install-no-vignettes cd tests;\ - "$(RBIN)/Rscript" testthat.R + "$(RBIN)/Rscript" testthat.R 2>&1 | tee ../test.log vignettes/%.pdf: vignettes/header.tex vignettes/references.bib vignettes/%.Rnw "$(RBIN)/Rscript" -e "tools::buildVignette(file = 'vignettes/$*.Rnw', dir = 'vignettes')" diff --git a/build.log b/build.log new file mode 100644 index 00000000..2b07aa3f --- /dev/null +++ b/build.log @@ -0,0 +1,10 @@ +* checking for file ‘mkin/DESCRIPTION’ ... OK +* preparing ‘mkin’: +* checking DESCRIPTION meta-information ... OK +* installing the package to build vignettes +* creating vignettes ... OK +* checking for LF line-endings in source and make files +* checking for empty or unneeded directories +* looking to see if a ‘data/datalist’ file should be added +* building ‘mkin_0.9-39.tar.gz’ + diff --git a/check.log b/check.log new file mode 100644 index 00000000..593d6c53 --- /dev/null +++ b/check.log @@ -0,0 +1,81 @@ +* using log directory ‘/home/jranke/git/mkin/mkin.Rcheck’ +* using R version 3.2.1 (2015-06-18) +* using platform: x86_64-pc-linux-gnu (64-bit) +* using session charset: UTF-8 +* using options ‘--no-tests --as-cran’ +* checking for file ‘mkin/DESCRIPTION’ ... OK +* checking extension type ... Package +* this is package ‘mkin’ version ‘0.9-39’ +* package encoding: UTF-8 +* checking CRAN incoming feasibility ... NOTE +Maintainer: ‘Johannes Ranke <jranke@uni-bremen.de>’ + +Days since last update: 0 +* checking package namespace information ... OK +* checking package dependencies ... OK +* checking if this is a source package ... OK +* checking if there is a namespace ... OK +* checking for executable files ... OK +* checking for hidden files and directories ... OK +* checking for portable file names ... OK +* checking for sufficient/correct file permissions ... OK +* checking whether package ‘mkin’ can be installed ... OK +* checking installed package size ... OK +* checking package directory ... OK +* checking ‘build’ directory ... OK +* checking DESCRIPTION meta-information ... OK +* checking top-level files ... OK +* checking for left-over files ... OK +* checking index information ... OK +* checking package subdirectories ... OK +* checking R files for non-ASCII characters ... OK +* checking R files for syntax errors ... OK +* checking whether the package can be loaded ... OK +* checking whether the package can be loaded with stated dependencies ... OK +* checking whether the package can be unloaded cleanly ... OK +* checking whether the namespace can be loaded with stated dependencies ... OK +* checking whether the namespace can be unloaded cleanly ... OK +* checking loading without being on the library search path ... OK +* checking use of S3 registration ... OK +* checking dependencies in R code ... OK +* checking S3 generic/method consistency ... OK +* checking replacement functions ... OK +* checking foreign function calls ... OK +* checking R code for possible problems ... OK +* checking Rd files ... OK +* checking Rd metadata ... OK +* checking Rd line widths ... OK +* checking Rd cross-references ... OK +* checking for missing documentation entries ... OK +* checking for code/documentation mismatches ... OK +* checking Rd \usage sections ... OK +* checking Rd contents ... OK +* checking for unstated dependencies in examples ... OK +* checking contents of ‘data’ directory ... OK +* checking data for non-ASCII characters ... OK +* checking data for ASCII and uncompressed saves ... OK +* checking sizes of PDF files under ‘inst/doc’ ... OK +* checking installed files from ‘inst/doc’ ... OK +* checking files in ‘vignettes’ ... OK +* checking examples ... OK +* checking for unstated dependencies in ‘tests’ ... OK +* checking tests ... SKIPPED +* checking for unstated dependencies in vignettes ... OK +* checking package vignettes in ‘inst/doc’ ... OK +* checking running R code from vignettes ... + ‘FOCUS_D.Rmd’ using ‘UTF-8’ ... OK + ‘FOCUS_L.Rmd’ using ‘UTF-8’ ... OK + ‘compiled_models.Rmd’ using ‘UTF-8’ ... OK + ‘FOCUS_Z.Rnw’ using ‘UTF-8’ ... OK + ‘mkin.Rnw’ using ‘UTF-8’ ... OK + OK +* checking re-building of vignette outputs ... OK +* checking PDF version of manual ... OK +* DONE + +Status: 1 NOTE +See + ‘/home/jranke/git/mkin/mkin.Rcheck/00check.log’ +for details. + + diff --git a/test.log b/test.log new file mode 100644 index 00000000..a3222cea --- /dev/null +++ b/test.log @@ -0,0 +1,13 @@ +Lade nötiges Paket: methods +Lade nötiges Paket: minpack.lm +Lade nötiges Paket: rootSolve +Lade nötiges Paket: inline +Calculation of FOCUS chi2 error levels : .. +Results for FOCUS D established in expertise for UBA (Ranke 2014) : ...... +The t-test for significant difference from zero : .. +Model predictions with mkinpredict : ... +Fitting of parent only models : ..................... +Complex test case from Schaefer et al. (2007) Piacenza paper : .. +Results for synthetic data established in expertise for UBA (Ranke 2014) : .... + +Woot! |