[R] odfWeave: Trouble Getting the Package to Work

[Paul Miller]

Hi Max,
 
Sorry I didn't provide sufficient information. Below is my sessionInfo with all code included.
 
Thanks,
 
Paul
 
sessionInfo()
R version 2.13.1 (2011-07-08)
Platform: x86_64-pc-mingw32/x64 (64-bit)
locale:
[1] LC_COLLATE=English_United States.1252 
[2] LC_CTYPE=English_United States.1252   
[3] LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C                          
[5] LC_TIME=English_United States.1252    
attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     
> 
> ##################
> #### odfWeave ####
> ##################
> 
> .libPaths("C:/Users/pmiller/Documents/R/win-library/2.13")
> 
> #### Set path to odt files ####
> 
> fp <- "N:/Studies/HCRPC1211/Documentation/R Documentation/odfWeave Documentation/Examples/Example 1/"
> 
> #### Weave odt source file ####
> 
> library(odfWeave)
Loading required package: lattice
Loading required package: XML
> inFile  <- paste(fp, "simple.odt", sep="")
> outFile <- paste(fp, "output.odt", sep="")
> odfWeave(inFile, outFile)
  Copying  N:/Studies/HCRPC1211/Documentation/R Documentation/odfWeave Documentation/Examples/Example 1/simple.odt 
  Setting wd to  C:\Users\pmiller\AppData\Local\Temp\3\Rtmp2lSWXe/odfWeave18104355174 
  Unzipping ODF file using unzip -o "simple.odt" 
Archive:  simple.odt
 extracting: mimetype                
  inflating: meta.xml                
  inflating: settings.xml            
  inflating: content.xml             
 extracting: Thumbnails/thumbnail.png  
  inflating: layout-cache            
  inflating: manifest.rdf            
   creating: Configurations2/popupmenu/
   creating: Configurations2/images/Bitmaps/
   creating: Configurations2/toolpanel/
   creating: Configurations2/statusbar/
   creating: Configurations2/toolbar/
   creating: Configurations2/progressbar/
   creating: Configurations2/menubar/
   creating: Configurations2/floater/
  inflating: Configurations2/accelerator/current.xml  
  inflating: styles.xml              
  inflating: META-INF/manifest.xml   
  Removing  simple.odt 
  Creating a Pictures directory
  Pre-processing the contents
  Sweaving  content.Rnw 
  Writing to file content_1.xml
  Processing code chunks ...
Error in parse(text = cmd) : <text>:1:40: unexpected '&'
1: paste(levels(iris$Species), collapse = &
                                          ^
> 
> 


--- On Mon, 2/18/13, Max Kuhn <mxkuhn at gmail.com> wrote:


From: Max Kuhn <mxkuhn at gmail.com>
Subject: Re: [R] odfWeave: Trouble Getting the Package to Work
To: "Paul Miller" <pjmiller_57 at yahoo.com>
Cc: "r-help at r-project.org" <r-help at r-project.org>
Received: Monday, February 18, 2013, 8:47 AM



That's not a reproducible example. There is no sessionInfo() and you omitted code (where did 'fp' come from?).


It works fine for me (see sessionInfo below) using the code in ?odfWeave.


As for the file paths: you can point to different paths for the files (although don't change the working directory in the odt file). If you read the documentation for workDir: "a path to a directory where the source file will be unpacked and processed. If it does not exist, it will be created. If it exists, it should be empty, since all its contents will be included in the generated file". The default value should be sufficient. 


Max



> sessionInfo()
R version 2.15.2 (2012-10-26)
Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit)


locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8


attached base packages:
[1] grid      stats     graphics  grDevices utils     datasets  methods   base     


other attached packages:
[1] MASS_7.3-22     odfWeave_0.8.2  XML_3.95-0.1    lattice_0.20-10


loaded via a namespace (and not attached):
[1] tools_2.15.2







On Mon, Feb 18, 2013 at 8:52 AM, Paul Miller <pjmiller_57 at yahoo.com> wrote:

Hello All,

Have recently started learning Sweave and Knitr. Am now trying to learn odfWeave as well. Things went pretty smoothly with Sweave and Knitr but I'm having some trouble with odfWeave.

My understanding was that odfWeave should work in pretty much the same way as Sweave. With odfWeave, you set up an input .odt file in a folder, run that file through the odfWeave function, and then the function produces an output .odt file in the same folder.

So I decided to try that using a file called simple.odt that comes with the odfWeave package. Unfortunately, things didn't work out quite as I had hoped. Below is the result of my attempt to odfWeave that file via Emacs.

For some reason, odfWeave is setting the wd to a location on the C drive when my input file is on the N drive. I tried altering this by setting the location of workDir to my folder on the N drive. odfWeave through up an error saying that this folder already exists. So perhaps the files are supposed to be processed in a location other than the one where the input file resides.

The other thing is that odfWeave is finding an unexpected "&". There is text in the "simple.odt" input file that looks like "paste(levels(iris$Species), collapse = " but it has no "&". So presumably something is wrong in the xml markup that is being produced.

If anyone can help me understand what is going wrong here, that would be greatly appreciated.

Thanks,

Paul

> library(odfWeave)
Loading required package: lattice
Loading required package: XML
> inFile  <- paste(fp, "simple.odt", sep="")
> outFile <- paste(fp, "output.odt", sep="")
> odfWeave(inFile, outFile)
  Copying  N:/Studies/HCRPC1211/Documentation/R Documentation/odfWeave Documentation/Examples/Example 1/simple.odt
  Setting wd to  C:\Users\pmiller\AppData\Local\Temp\3\RtmpMlDMHV/odfWeave18071055703
  Unzipping ODF file using unzip -o "simple.odt"
Archive:  simple.odt
 extracting: mimetype               
  inflating: meta.xml               
  inflating: settings.xml           
  inflating: content.xml            
 extracting: Thumbnails/thumbnail.png 
  inflating: layout-cache           
  inflating: manifest.rdf           
   creating: Configurations2/popupmenu/
   creating: Configurations2/images/Bitmaps/
   creating: Configurations2/toolpanel/
   creating: Configurations2/statusbar/
   creating: Configurations2/toolbar/
   creating: Configurations2/progressbar/
   creating: Configurations2/menubar/
   creating: Configurations2/floater/
  inflating: Configurations2/accelerator/current.xml 
  inflating: styles.xml             
  inflating: META-INF/manifest.xml  
  Removing  simple.odt
  Creating a Pictures directory
  Pre-processing the contents
  Sweaving  content.Rnw
  Writing to file content_1.xml
  Processing code chunks ...
Error in parse(text = cmd) : <text>:1:40: unexpected '&'
1: paste(levels(iris$Species), collapse = &
                                          ^
>
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-- 

Max