knitr

问题 I have the following document, that I am trying to compile with Rstudio: --- output: word_document: pandoc_args: [ "--biblio", "references.bib" ] --- ```{r} library("knitcitations") cleanbib() ``` This is a citation citet("10.1098/rspb.2013.1372"): ```{r} citet("10.1098/rspb.2013.1372") ``` ```{r} write.bibtex(file="references.bib") ``` ```{r} summary(cars) ``` When I run knit, it compiles the .md file, but pandoc gives an error: processing file: toy.Rmd |...................... | 33% ordinary

问题 I am knitting a .Rmd file and want to have two outputs: the html and a purl'ed R script each time I run knit. This can be done with the following Rmd file: --- title: "Purl MWE" output: html_document --- ```{r} ## This chunk automatically generates a text .R version of this script when running within knitr. input = knitr::current_input() # filename of input document output = paste(tools::file_path_sans_ext(input), 'R', sep = '.') knitr::purl(input,output,documentation=1,quiet=T) ``` ```{r} x

问题 When I knit my .Rmd to html, it does not get displayed properly, i. e. it seems like something is wrong with the format (see screenshot below): The two hyperlinks do not work, the font is not sans-serif, there is no table of contents, etc. I used the same code on a different machine 6 months ago and it rendered as expected. However, today it does not. Does anybody have an idea why the html looks ugly? It seems not to depend on the browser I open the html with (tested it in IE and Chrome).

问题 I am generating a lot of ftable() crosstabulations for a descriptive report. Example: AUS BEL BUL EST FRA GEO GER HUN ITA NET NOR ROM RUS 30- primary 0.06 0.03 0.07 0.03 0.02 0.03 0.03 0.02 0.05 0.03 0.05 0.04 0.02 secondary 0.30 0.09 0.16 0.10 0.10 0.14 0.10 0.16 0.11 0.08 0.08 0.09 0.11 tertiary 0.05 0.07 0.04 0.05 0.07 0.06 0.02 0.04 0.02 0.05 0.06 0.02 0.09 30+ primary 0.07 0.16 0.12 0.07 0.16 0.03 0.05 0.11 0.35 0.21 0.09 0.17 0.03 secondary 0.40 0.20 0.30 0.29 0.25 0.35 0.35 0.34 0.27 0

问题 There is a blog entry which describes embedding from the plotly API for R into R markdown. I just used the code to create the iframe for an html document When I have the prieview in R studio there is no error message and the iframe is created in the html document. However, it is just empty. Apparently it does not load the content somehow. I did not create the plot in the R API beforehand (but that should not matter as this is just embedding a picture into html) isn't it? My code in r markdown

问题 There is a blog entry which describes embedding from the plotly API for R into R markdown. I just used the code to create the iframe for an html document When I have the prieview in R studio there is no error message and the iframe is created in the html document. However, it is just empty. Apparently it does not load the content somehow. I did not create the plot in the R API beforehand (but that should not matter as this is just embedding a picture into html) isn't it? My code in r markdown

问题 In a package I'm developing with R Studio, I create vignettes via devtools::use_vignette("mydoc.Rnw") , which gives a standard vignette header like --- title: "Title" author: "Michael Friendly" date: "`r Sys.Date()`" output: rmarkdown::html_vignette vignette: > %\VignetteIndexEntry{Title} %\VignetteEngine{knitr::rmarkdown} %\VignetteEncoding{UTF-8} --- I have followed all the instructions in http://yihui.name/knitr/demo/vignette/ and http://r-pkgs.had.co.nz/vignettes.html. The vignettes are

问题 In a package I'm developing with R Studio, I create vignettes via devtools::use_vignette("mydoc.Rnw") , which gives a standard vignette header like --- title: "Title" author: "Michael Friendly" date: "`r Sys.Date()`" output: rmarkdown::html_vignette vignette: > %\VignetteIndexEntry{Title} %\VignetteEngine{knitr::rmarkdown} %\VignetteEncoding{UTF-8} --- I have followed all the instructions in http://yihui.name/knitr/demo/vignette/ and http://r-pkgs.had.co.nz/vignettes.html. The vignettes are

问题 I am having a problem with text wrapping in code output chunks in knitr when knitting to HTML. For example, if I run the following: matrix(rnorm(60, 5, 2), ncol = 12) The output in HTML will wrap the table, giving an output like this, where the 12th column is moved underneath the rest: ## [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,10] [,11] ## [1,] 3.407 0.8035 2.981 5.269 6.989 5.107 7.143 3.127 3.624 7.220 4.805 ## [2,] 3.907 5.5971 5.488 4.995 6.496 5.980 1.576 3.009 6.605 3.440 2.754

问题 I am trying to publish rCharts in knitrHTML, I keep getting this error: Quitting from lines 11-43 (ddd.Rmd) Error in file(con, "w") : cannot open the connection Calls: <Anonymous> ... <Anonymous> -> <Anonymous> -> <Anonymous> -> writeLines -> file Execution halted this is my kode within the markdown: rPlot(cpubusy ~ datetime, color = 'machine', type = 'point', data = server) How could I resolve this? what am I missing? 回答1: See - Ramnath answer. Basically to add rCharts and have it rendered