pandoc creating folder with name that makes latex fail

pandoc creating folder with name that makes latex fail

[Jason Miller]

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Pandoc is used to generate a PDF from an R markdown document that has a 
chunk that generates a plot using ggplot2 and a custom function, 
progress.plot.  The chunk looks like this


```{r charts, echo=FALSE, fig.cap="Your progress curve"}

progress.plot(student)

```


The PDF is generated using a LaTeX engine.  I think it uses PDFlatex via 
pandoc.  This is causing a problem that appears to be close to the pandoc 
metal.

It seems like pandoc uses a temporary folder to store the diagram I 
generate with ggplot2.  The name of that folder has as underscore.  This 
means the path to the graphic file, a string that's used in the .tex source 
file, has an underscore.  And the latex compiler doesn't like that.

    ! Missing $ inserted.
    <inserted text> 
                    $
    l.142 ...de2020-05-06_files/figure-latex/charts-1}
                                                       \caption[Your 
progress cu...


The "_files" in the latex log snippet, above, is the name of a folder 
created by pandoc (or Rmarkdown).  I am getting a "Missing $ inserted" 
error before the latex compiler craps out.  No PDF is generated and the 
directory with the figure is deleted.

Is there a pandoc configuration change to take the underscore out of the 
temporary directory's name?  Or is there any other workaround that will 
allow me to generate figures to include in my R markdown document?

Thanks for whatever advice people can share.

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Re: pandoc creating folder with name that makes latex fail

[Paul M.]

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If you're using this with RMarkdown (e.g. via RStudio) the problem most
likely lies in knitr or RMarkdown packages in terms of temporary
directories generated.

On Thu, May 7, 2020 at 10:33 AM Jason Miller <millerj870-Re5JQEeQqe8AvxtiuMwx3w@public.gmane.org> wrote:

> Pandoc is used to generate a PDF from an R markdown document that has a
> chunk that generates a plot using ggplot2 and a custom function,
> progress.plot.  The chunk looks like this
>
>
> ```{r charts, echo=FALSE, fig.cap="Your progress curve"}
>
> progress.plot(student)
>
> ```
>
>
> The PDF is generated using a LaTeX engine.  I think it uses PDFlatex via
> pandoc.  This is causing a problem that appears to be close to the pandoc
> metal.
>
> It seems like pandoc uses a temporary folder to store the diagram I
> generate with ggplot2.  The name of that folder has as underscore.  This
> means the path to the graphic file, a string that's used in the .tex source
> file, has an underscore.  And the latex compiler doesn't like that.
>
>     ! Missing $ inserted.
>     <inserted text>
>                     $
>     l.142 ...de2020-05-06_files/figure-latex/charts-1}
>                                                        \caption[Your
> progress cu...
>
>
> The "_files" in the latex log snippet, above, is the name of a folder
> created by pandoc (or Rmarkdown).  I am getting a "Missing $ inserted"
> error before the latex compiler craps out.  No PDF is generated and the
> directory with the figure is deleted.
>
> Is there a pandoc configuration change to take the underscore out of the
> temporary directory's name?  Or is there any other workaround that will
> allow me to generate figures to include in my R markdown document?
>
> Thanks for whatever advice people can share.
>
> --
> You received this message because you are subscribed to the Google Groups
> "pandoc-discuss" group.
> To unsubscribe from this group and stop receiving emails from it, send an
> email to pandoc-discuss+unsubscribe-/JYPxA39Uh5TLH3MbocFF+G/Ez6ZCGd0@public.gmane.org
> To view this discussion on the web visit
> https://groups.google.com/d/msgid/pandoc-discuss/e448fa9c-3dfd-4eb8-8e06-01efa9c29384%40googlegroups.com
> <https://groups.google.com/d/msgid/pandoc-discuss/e448fa9c-3dfd-4eb8-8e06-01efa9c29384%40googlegroups.com?utm_medium=email&utm_source=footer>
> .
>

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Re: pandoc creating folder with name that makes latex fail

[Jason Miller]

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Thanks, Paul.  I'm new to pandoc, so I wasn't sure which tree to bark up in 
my troubleshooting.  I'm posting a version of this question to the RStudio 
community. Hadn't thought about knitr.  Will bark up that tree, too.

On Thursday, May 7, 2020 at 7:43:20 AM UTC-7, pmags wrote:
>
> If you're using this with RMarkdown (e.g. via RStudio) the problem most 
> likely lies in knitr or RMarkdown packages in terms of temporary 
> directories generated.
>
> On Thu, May 7, 2020 at 10:33 AM Jason Miller <mille...-Re5JQEeQqe8AvxtiuMwx3w@public.gmane.org 
> <javascript:>> wrote:
>
>> Pandoc is used to generate a PDF from an R markdown document that has a 
>> chunk that generates a plot using ggplot2 and a custom function, 
>> progress.plot.  The chunk looks like this
>>
>>
>> ```{r charts, echo=FALSE, fig.cap="Your progress curve"}
>>
>> progress.plot(student)
>>
>> ```
>>
>>
>> The PDF is generated using a LaTeX engine.  I think it uses PDFlatex via 
>> pandoc.  This is causing a problem that appears to be close to the pandoc 
>> metal.
>>
>> It seems like pandoc uses a temporary folder to store the diagram I 
>> generate with ggplot2.  The name of that folder has as underscore.  This 
>> means the path to the graphic file, a string that's used in the .tex source 
>> file, has an underscore.  And the latex compiler doesn't like that.
>>
>>     ! Missing $ inserted.
>>     <inserted text> 
>>                     $
>>     l.142 ...de2020-05-06_files/figure-latex/charts-1}
>>                                                        \caption[Your 
>> progress cu...
>>
>>
>> The "_files" in the latex log snippet, above, is the name of a folder 
>> created by pandoc (or Rmarkdown).  I am getting a "Missing $ inserted" 
>> error before the latex compiler craps out.  No PDF is generated and the 
>> directory with the figure is deleted.
>>
>> Is there a pandoc configuration change to take the underscore out of the 
>> temporary directory's name?  Or is there any other workaround that will 
>> allow me to generate figures to include in my R markdown document?
>>
>> Thanks for whatever advice people can share.
>>
>> -- 
>> You received this message because you are subscribed to the Google Groups 
>> "pandoc-discuss" group.
>> To unsubscribe from this group and stop receiving emails from it, send an 
>> email to pandoc-...-/JYPxA39Uh5TLH3MbocFFw@public.gmane.org <javascript:>.
>> To view this discussion on the web visit 
>> https://groups.google.com/d/msgid/pandoc-discuss/e448fa9c-3dfd-4eb8-8e06-01efa9c29384%40googlegroups.com 
>> <https://groups.google.com/d/msgid/pandoc-discuss/e448fa9c-3dfd-4eb8-8e06-01efa9c29384%40googlegroups.com?utm_medium=email&utm_source=footer>
>> .
>>
>

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Re: pandoc creating folder with name that makes latex fail

[John MacFarlane]

Agreed: pandoc doesn't create any directories of that form.
It creates a temp dir but uses the system's temp dir function
to generate the name, and it wouldn't look like that.

Jason Miller <millerj870-Re5JQEeQqe8AvxtiuMwx3w@public.gmane.org> writes:

> Thanks, Paul.  I'm new to pandoc, so I wasn't sure which tree to bark up in 
> my troubleshooting.  I'm posting a version of this question to the RStudio 
> community. Hadn't thought about knitr.  Will bark up that tree, too.
>
> On Thursday, May 7, 2020 at 7:43:20 AM UTC-7, pmags wrote:
>>
>> If you're using this with RMarkdown (e.g. via RStudio) the problem most 
>> likely lies in knitr or RMarkdown packages in terms of temporary 
>> directories generated.
>>
>> On Thu, May 7, 2020 at 10:33 AM Jason Miller <mille...-Re5JQEeQqe8AvxtiuMwx3w@public.gmane.org 
>> <javascript:>> wrote:
>>
>>> Pandoc is used to generate a PDF from an R markdown document that has a 
>>> chunk that generates a plot using ggplot2 and a custom function, 
>>> progress.plot.  The chunk looks like this
>>>
>>>
>>> ```{r charts, echo=FALSE, fig.cap="Your progress curve"}
>>>
>>> progress.plot(student)
>>>
>>> ```
>>>
>>>
>>> The PDF is generated using a LaTeX engine.  I think it uses PDFlatex via 
>>> pandoc.  This is causing a problem that appears to be close to the pandoc 
>>> metal.
>>>
>>> It seems like pandoc uses a temporary folder to store the diagram I 
>>> generate with ggplot2.  The name of that folder has as underscore.  This 
>>> means the path to the graphic file, a string that's used in the .tex source 
>>> file, has an underscore.  And the latex compiler doesn't like that.
>>>
>>>     ! Missing $ inserted.
>>>     <inserted text> 
>>>                     $
>>>     l.142 ...de2020-05-06_files/figure-latex/charts-1}
>>>                                                        \caption[Your 
>>> progress cu...
>>>
>>>
>>> The "_files" in the latex log snippet, above, is the name of a folder 
>>> created by pandoc (or Rmarkdown).  I am getting a "Missing $ inserted" 
>>> error before the latex compiler craps out.  No PDF is generated and the 
>>> directory with the figure is deleted.
>>>
>>> Is there a pandoc configuration change to take the underscore out of the 
>>> temporary directory's name?  Or is there any other workaround that will 
>>> allow me to generate figures to include in my R markdown document?
>>>
>>> Thanks for whatever advice people can share.
>>>
>>> -- 
>>> You received this message because you are subscribed to the Google Groups 
>>> "pandoc-discuss" group.
>>> To unsubscribe from this group and stop receiving emails from it, send an 
>>> email to pandoc-...-/JYPxA39Uh5TLH3MbocFFw@public.gmane.org <javascript:>.
>>> To view this discussion on the web visit 
>>> https://groups.google.com/d/msgid/pandoc-discuss/e448fa9c-3dfd-4eb8-8e06-01efa9c29384%40googlegroups.com 
>>> <https://groups.google.com/d/msgid/pandoc-discuss/e448fa9c-3dfd-4eb8-8e06-01efa9c29384%40googlegroups.com?utm_medium=email&utm_source=footer>
>>> .
>>>
>>
>
> -- 
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