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[R-pkg-devel] Unable to create manual

13 messages · Uwe Ligges, Matthias Gondan, Edward Wei +3 more

Original
Edward Wei
# 
This is the following error message I get from R CMD check:

LaTeX errors when creating PDF version.
This typically indicates Rd problems.
* checking PDF version of manual without index ... ERROR
Re-running with no redirection of stdout/stderr.
Hmm ... looks like a package
Converting parsed Rd's to LaTeX ...
Creating pdf output from LaTeX ...
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,  :
  pdflatex is not available
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,  :
  pdflatex is not available
Error in running tools::texi2pdf()
You may want to clean up by 'rm -Rf
C:/Users/edmon/AppData/Local/Temp/RtmpWkD7Iy/Rd2pdf35d81e3e188c'
* DONE

Status: 1 ERROR, 1 WARNING, 2 NOTEs


Then, I tried debugging by isolating errors from the Rd to PDF conversion.


C:\Users\edmon\Documents\R\RFIN> R CMD Rd2pdf avfintools --no-clean
Hmm ... looks like a package
Converting Rd files to LaTeX ...
Creating pdf output from LaTeX ...
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,  :
  pdflatex is not available
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,  :
  pdflatex is not available
Error in running tools::texi2pdf()
You may want to clean up by 'rm -Rf .Rd2pdf27964'


In this folder is the file Rd2.tex which I tried to complie into a pdf. But
this error returns and PDF cannot be compiled. :


LaTeX Error: File `Rd.sty' not found.

Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)

Enter file name:
! Emergency stop.
<read *>

l.4 \usepackage
               {makeidx}^^M
==> Fatal error occurred, no output PDF file produced!


Thanks for your help,
Uwe Ligges
#
On 12.09.2022 15:09, Edward Wei wrote:
Install some LaTeX distribution?

Best,
Uwe Ligges
Matthias Gondan
# 
You may wish to check first if pdflatex works from the folder, i.e.

C:\Users\edmon\Documents\R\RFIN> pdflatex

The problem with Rd.sty may be unrelated.


Von: Edward Wei
Gesendet: Montag, 12. September 2022 15:09
An: r-package-devel at r-project.org
Betreff: [R-pkg-devel] Unable to create manual

This is the following error message I get from R CMD check:

LaTeX errors when creating PDF version.
This typically indicates Rd problems.
* checking PDF version of manual without index ... ERROR
Re-running with no redirection of stdout/stderr.
Hmm ... looks like a package
Converting parsed Rd's to LaTeX ...
Creating pdf output from LaTeX ...
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,  :
  pdflatex is not available
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,  :
  pdflatex is not available
Error in running tools::texi2pdf()
You may want to clean up by 'rm -Rf
C:/Users/edmon/AppData/Local/Temp/RtmpWkD7Iy/Rd2pdf35d81e3e188c'
* DONE

Status: 1 ERROR, 1 WARNING, 2 NOTEs


Then, I tried debugging by isolating errors from the Rd to PDF conversion.


C:\Users\edmon\Documents\R\RFIN> R CMD Rd2pdf avfintools --no-clean
Hmm ... looks like a package
Converting Rd files to LaTeX ...
Creating pdf output from LaTeX ...
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,  :
  pdflatex is not available
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,  :
  pdflatex is not available
Error in running tools::texi2pdf()
You may want to clean up by 'rm -Rf .Rd2pdf27964'


In this folder is the file Rd2.tex which I tried to complie into a pdf. But
this error returns and PDF cannot be compiled. :


LaTeX Error: File `Rd.sty' not found.

Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)

Enter file name:
! Emergency stop.
<read *>

l.4 \usepackage
               {makeidx}^^M
==> Fatal error occurred, no output PDF file produced!


Thanks for your help,


______________________________________________
R-package-devel at r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-package-devel
2 days later
Edward Wei
# 
Hello Matthias.

This is what is returned when I try pdflatex on terminal

This is pdfTeX, Version 3.141592653-2.6-1.40.24 (MiKTeX 22.8.28) (preloaded
format=pdflatex.fmt)
 restricted \write18 enabled.
**



On Mon, Sep 12, 2022 at 7:20 AM Matthias Gondan <matthias-gondan at gmx.de>
wrote:

  
  


  


      

    

    

      
      

        


  

        

      Matthias Gondan
    

    

      
      #
    

  


  

      
That?s interesting. I was just wondering if it is installed, given the message ?pdflatex is not available?.



Von: Edward Wei
Gesendet: Mittwoch, 14. September 2022 22:26
An: Matthias Gondan
Cc: r-package-devel at r-project.org
Betreff: Re: [R-pkg-devel] Unable to create manual

Hello Matthias.

This is what is returned when I try pdflatex on terminal

This is pdfTeX, Version 3.141592653-2.6-1.40.24 (MiKTeX 22.8.28) (preloaded format=pdflatex.fmt)
?restricted \write18 enabled.
**

        
On Mon, Sep 12, 2022 at 7:20 AM Matthias Gondan <matthias-gondan at gmx.de> wrote:

        
You may wish to check first if pdflatex works from the folder, i.e.
?
C:\Users\edmon\Documents\R\RFIN> pdflatex
?
The problem with Rd.sty may be unrelated.
?
?
Von: Edward Wei
Gesendet: Montag, 12. September 2022 15:09
An: r-package-devel at r-project.org
Betreff: [R-pkg-devel] Unable to create manual
?
This is the following error message I get from R CMD check:
?
LaTeX errors when creating PDF version.
This typically indicates Rd problems.
* checking PDF version of manual without index ... ERROR
Re-running with no redirection of stdout/stderr.
Hmm ... looks like a package
Converting parsed Rd's to LaTeX ...
Creating pdf output from LaTeX ...
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,? :
? pdflatex is not available
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,? :
? pdflatex is not available
Error in running tools::texi2pdf()
You may want to clean up by 'rm -Rf
C:/Users/edmon/AppData/Local/Temp/RtmpWkD7Iy/Rd2pdf35d81e3e188c'
* DONE
?
Status: 1 ERROR, 1 WARNING, 2 NOTEs
?
?
Then, I tried debugging by isolating errors from the Rd to PDF conversion.
?
?
C:\Users\edmon\Documents\R\RFIN> R CMD Rd2pdf avfintools --no-clean
Hmm ... looks like a package
Converting Rd files to LaTeX ...
Creating pdf output from LaTeX ...
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,? :
? pdflatex is not available
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,? :
? pdflatex is not available
Error in running tools::texi2pdf()
You may want to clean up by 'rm -Rf .Rd2pdf27964'
?
?
In this folder is the file Rd2.tex which I tried to complie into a pdf. But
this error returns and PDF cannot be compiled. :
?
?
LaTeX Error: File `Rd.sty' not found.
?
Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)
?
Enter file name:
! Emergency stop.
<read *>
?
l.4 \usepackage
????????? ?????{makeidx}^^M
==> Fatal error occurred, no output PDF file produced!
?
?
Thanks for your help,
?
???????????? [[alternative HTML version deleted]]
?
______________________________________________
R-package-devel at r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-package-devel
?

  
  


  


      

    

    

      
      

        


  

        

      Edward Wei
    

    

      
      #
    

  


  

      
My next steps in debugging this is:
1. make sure my latex CAN generate PDFs by editing .tex file
2. Run pdflatex as an Admin
3. Download "texinfo" externally (unable to do in R studio as it says it is
incompatible with this version of R)
4. Inspect Rd files

I have made no real progress on this bug...

What is interesting is that previously, before I changed my code for
feedback from manual review, this didn't happen.

On Wed, Sep 14, 2022 at 1:30 PM Matthias Gondan <matthias-gondan at gmx.de>
wrote:

            

      
      
      
    

        

      
      
    

        

  
  


  


      

    

    

      
      

        


  

        

      Duncan Murdoch
    

    

      
      #
    

  


  

      
On 12/09/2022 9:09 a.m., Edward Wei wrote:

            

      
      
      
    

        
This looks like a problem in the way tools::texi2dvi detects pdflatex. 
If you have a valid LaTeX file, try running

tools::texi2dvi(filename, pdf = TRUE)

If that gives the same message, then debug(tools::texi2dvi), and repeat, 
single stepping through the function to see what test it uses, and 
figure out why it fails on your system.

Duncan Murdoch

            

      
      
      
    

        

      
      
    

  
  


  


      

    

    

      
      

        


  

        

      Uwe Ligges
    

    

      
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On 14.09.2022 23:54, Duncan Murdoch wrote:

            

      
      
      
    

        
Or the env var PATH is overwritten once R get started, perhaps you have 
it in one of the files R process it at startup?
Does Sys.getenv("PATH") show the pat to the LaTeX binary?

Best,
Uwe Ligges

            

      
      
      
    

        

      
      
    

            

      
      
      
    

        

      
      
    

  
  


  


      

    

    
1 day later

    

      
      

        


  

        

      Edward Wei
    

    

      
      #
    

  


  

      
That is an interesting thought. I don't think I have downloaded LaTex
explicitly, however, I do have MikTex and I added that file to PATH
manually.

This is what my current PATH calls:
"c:/rtools42/x86_64-w64-mingw32.static.posix/bin;c:/rtools42/usr/bin;C:\\Program
Files\\R\\R-4.2.0\\bin\\x64;C:\\Program Files (x86)\\Common
Files\\Oracle\\Java\\javapath;C:\\WINDOWS\\system32;C:\\WINDOWS;C:\\WINDOWS\\System32\\Wbem;C:\\WINDOWS\\System32\\WindowsPowerShell\\v1.0\\;C:\\WINDOWS\\System32\\OpenSSH\\;C:\\Program
Files\\Wolfram Research\\WolframScript\\;C:\\Program
Files\\Git\\cmd;C:\\Users\\edmon\\AppData\\Local\\Microsoft\\WindowsApps;C:\\Users\\edmon\\AppData\\Local\\GitHubDesktop\\bin;C:\\Users\\edmon\\AppData\\Local\\Programs\\MiKTeX\\miktex\\bin\\x64\\;C:/Program
Files/RStudio/bin/quarto/bin"

I have been able to generate a PDF of my package by entering :
tools::texi2pdf(file = "avfintools.Rcheck/avfintools-manual.tex")
on the console.

Is there a way to submit the manual manually rather than have it compiled?
Or is it a requirement for the manual to be able to be compiled from the
package?

Thanks for your help,


On Wed, Sep 14, 2022 at 3:14 PM Uwe Ligges <ligges at statistik.tu-dortmund.de>
wrote:

            

      
      
      
    

        

      
      
    

            

      
      
      
    

        

      
      
    

            

      
      
      
    

        

  
  


  


      

    

    

      
      

        


  

        

      Tomas Kalibera
    

    

      
      #
    

  


  

      
On 9/16/22 20:17, Edward Wei wrote:

            

      
      
      
    

        
MikTeX is fine and common choice and works with R.

R Admin manual has "Installing R under Windows" with more details there 
and in the linked documents, including
Howto: Building R 4.2 and packages on Windows.

There must be something special set up on your system that probably only 
debugging could reveal. Possibly some customization in any of the R 
startup files. Or some conflicting tool on the PATH (e.g. in Git?).

Tomas

            

      
      
      
    

        

      
      
    

        

      
      
    

            

      
      
      
    

        

      
      
    

  
  


  


      

    

    
2 days later

    

      
      

        


  

        

      Uwe Ligges
    

    

      
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On 16.09.2022 20:17, Edward Wei wrote:

            

      
      
      
    

        
The latter, but the mechanism works on  CRAN, so you do not ned to worry 
about that.

Best,
Uwe Ligges

            

      
      
      
    

  
  


  


      

    

    
7 days later

    

      
      

        


  

        

      Edward Wei
    

    

      
      #
    

  


  

      
So I am looking at the R Installation and Administration section,
specifically section 3 for windows. . I have some inquiries.

1. Where do I run "make check"?
2. I got this when I was running the make check:
C:\Users\edmon\Documents\R\RFIN> R CMD make check
make: *** No rule to make target 'check'.  Stop.

I'm guessing I'm running it incorrectly.

3. I get this back when I run the "tools::testInstalledPackages(scope =
"base")" on my RGUI.

Error: testing 'utils' failed

Where may I find the error log for this?


Best regards,


On Sat, Sep 17, 2022 at 3:27 AM Tomas Kalibera <tomas.kalibera at gmail.com>
wrote:

            

      
      
      
    

        

      
      
    

        

      
      
    

            

      
      
      
    

        

      
      
    

            

      
      
      
    

        

  
  


  


      

    

    

      
      

        


  

        

      Ivan Krylov
    

    

      
      #
    

  


  

      
On Mon, 26 Sep 2022 10:50:01 -0700

        
Edward Wei <edwwei2020 at gmail.com> wrote:

        

            

      
      
      
    

        
In the directory where R is built from source. If you're using a binary
build of R, this isn't applicable.

            

      
      
      
    

        
testInstalledPackages() creates output files in the current directory.
Does list.files(pattern = 'utils|Rout\\.fail') give you anything useful?