how to handle svg files when exporting orgmode to html and pdf?

how to handle svg files when exporting orgmode to html and pdf?

[malcolm cook]

Hi, 

I am creating .svg files with R source blocks and ESS in org. 

I am happily viewing them in-line in my emacs buffer. 

I am happily exporting as html and viewing them in-line in the resulting web 
page, including a table of images. 

I do not have an approach for including them into PDF when I export-tex-pdf. 

I'm thinking there might be an approach to converting them on-the-fly to png 
(or something) during the export->tex->pdf. 

A similar problem was addressed with custom macros here: 
http://thread.gmane.org/gmane.emacs.orgmode/56532/focus=58322 

But it does not work with  R source blocks that produce .svg files. 

Any suggestions for me?  Is this a lost cause?  Am I asking for too many 
assumptions to be made by such an auto-conversion process that it is doomed 
to fail anyway? 

Thanks for your thoughts and help! 

Malcolm 

Re: how to handle svg files when exporting orgmode to html and pdf?

[Aaron Ecay]

Hi Malcom,

2013ko uztailak 17an, malcolm cook-ek idatzi zuen:
> 
> Hi, 
> 
> I am creating .svg files with R source blocks and ESS in org. 
> 
> I am happily viewing them in-line in my emacs buffer. 
> 
> I am happily exporting as html and viewing them in-line in the resulting web 
> page, including a table of images. 
> 
> I do not have an approach for including them into PDF when I export-tex-pdf. 
> 
> I'm thinking there might be an approach to converting them on-the-fly to png 
> (or something) during the export->tex->pdf. 
> 
> A similar problem was addressed with custom macros here: 
> http://thread.gmane.org/gmane.emacs.orgmode/56532/focus=58322 
> 
> But it does not work with  R source blocks that produce .svg files. 
> 
> Any suggestions for me?  Is this a lost cause?  Am I asking for too many 
> assumptions to be made by such an auto-conversion process that it is doomed 
> to fail anyway?

I have been using a variant of this workflow with some success.  Using a
patch I just pushed to the master branch, you should be able to
successfully export SVG image files to LaTeX documents, using the “svg”
LaTeX package: http://www.ctan.org/pkg/svg

No configuration should be needed on the org side.

The svg LaTeX package is a bit fussy.  It only works under pdfTeX (it
can be patched to work with LuaTeX, but cannot work with XeTeX at all).
It also requires you to have the inkscape command line program
installed.  But within those constraints it works very nicely.

You may need to arrange for whatever compilation process you use for
LaTeX files to pass the “-shell-escape” command line option to pdftex.
This allows TeX code to execute command line programs, which is needed
to communicate with inkscape and convert the SVG into something LaTeX
can use.

I think in the long run it would be nice if Org could help you translate
the image types in your document into image types an exporter
understands (basically an expanded and generalized version of what is
already done with LaTeX snippets for non-LaTeX export).  But that is
a bigger project, I think.

-- 
Aaron Ecay

Re: how to handle svg files when exporting orgmode to html and pdf?

[Malcolm Cook]

Aaron & Nick,

Thanks for the help.  I think I'm almost there.

So far I did

 * install a latex package (first time for everything).  I wound up
just putting svg.sty file it for now in the same directory as the .org
file since my attempts to date failed using $HOME/texfm
 * customize the emacs variable `org-latex-pdf-process` to include
'--shell-escape' (following advice in
http://orgmode.org/worg/org-dependencies.html, which outlines some
other options)
 * upgrade to inkscape version 0.48.+ (which is more recent than our
centOS repos proffered, but, hey) since the --export-latex switch that
svg.sty depends upon is not implemented till this version

When I "export to latex as PDF file", I get error "PDF file ./test.pdf
wasn't produced"

Sleuthing, I see the output .tex file includes the following lines:

\usepackage{svg}
...
\includegraphics[width=.9\linewidth]{mtcars.png}
@@backend:\includesvg{mtcars}

However, when they get processed, and the includesvg seeks the pdf_tex
file, I get this error:

! LaTeX Error: File `mtcars.pdf_tex' not found.
Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: pdf_tex)
Enter file name:
! Emergency stop.
<read *>
l.354 \includesvg{mtcars}

If you have any suggestions to me for further sleuthing I would be much obliged.

Thanks,

Malcolm Cook


On Sat, Jul 27, 2013 at 1:36 AM, Aaron Ecay <aaronecay@gmail.com> wrote:
>
> Hi Malcom,
>
> 2013ko uztailak 17an, malcolm cook-ek idatzi zuen:
> >
> > Hi,
> >
> > I am creating .svg files with R source blocks and ESS in org.
> >
> > I am happily viewing them in-line in my emacs buffer.
> >
> > I am happily exporting as html and viewing them in-line in the resulting web
> > page, including a table of images.
> >
> > I do not have an approach for including them into PDF when I export-tex-pdf.
> >
> > I'm thinking there might be an approach to converting them on-the-fly to png
> > (or something) during the export->tex->pdf.
> >
> > A similar problem was addressed with custom macros here:
> > http://thread.gmane.org/gmane.emacs.orgmode/56532/focus=58322
> >
> > But it does not work with  R source blocks that produce .svg files.
> >
> > Any suggestions for me?  Is this a lost cause?  Am I asking for too many
> > assumptions to be made by such an auto-conversion process that it is doomed
> > to fail anyway?
>
> I have been using a variant of this workflow with some success.  Using a
> patch I just pushed to the master branch, you should be able to
> successfully export SVG image files to LaTeX documents, using the “svg”
> LaTeX package: http://www.ctan.org/pkg/svg
>
> No configuration should be needed on the org side.
>
> The svg LaTeX package is a bit fussy.  It only works under pdfTeX (it
> can be patched to work with LuaTeX, but cannot work with XeTeX at all).
> It also requires you to have the inkscape command line program
> installed.  But within those constraints it works very nicely.
>
> You may need to arrange for whatever compilation process you use for
> LaTeX files to pass the “-shell-escape” command line option to pdftex.
> This allows TeX code to execute command line programs, which is needed
> to communicate with inkscape and convert the SVG into something LaTeX
> can use.
>
> I think in the long run it would be nice if Org could help you translate
> the image types in your document into image types an exporter
> understands (basically an expanded and generalized version of what is
> already done with LaTeX snippets for non-LaTeX export).  But that is
> a bigger project, I think.
>
> --
> Aaron Ecay

Re: how to handle svg files when exporting orgmode to html and pdf?

[Nick Dokos]

Malcolm Cook <malcolm.cook@gmail.com> writes:


> When I "export to latex as PDF file", I get error "PDF file ./test.pdf
> wasn't produced"
>

In case of difficulties like this, I produce the tex file (C-c C-e l l)
and then I process it by hand:

 pdflatex --shell-escape foo.tex

Separates concerns nicely.

> Sleuthing, I see the output .tex file includes the following lines:
>
> \usepackage{svg}
> ...
> \includegraphics[width=.9\linewidth]{mtcars.png}
> @@backend:\includesvg{mtcars}
>

This looks wrong. You probably want @@latex:\includesvg{mtcars}@@ in
your org file. In any case, the output in the tex file should be just

  \includesvg{mtcars}

Also, not sure how the \includegraphics is produced (are you evaluating a
source block?) but it should probably not be there, otherwise you are
going to get two images in your PDF.

-- 
Nick

Re: how to handle svg files when exporting orgmode to html and pdf?

[Cook, Malcolm]

>In case of difficulties like this, I produce the tex file (C-c C-e l l)
 >and then I process it by hand:
 >
 > pdflatex --shell-escape foo.tex
 >
 >Separates concerns nicely.

I will try your approach - thanks - I agree

 >
 >> Sleuthing, I see the output .tex file includes the following lines:
 >>
 >> \usepackage{svg}
 >> ...
 >> \includegraphics[width=.9\linewidth]{mtcars.png}
 >> @@backend:\includesvg{mtcars}
 >>
 >
 >This looks wrong. You probably want @@latex:\includesvg{mtcars}@@ in
 >your org file. In any case, the output in the tex file should be just
 >
 >  \includesvg{mtcars}
 >
 >Also, not sure how the \includegraphics is produced (are you evaluating a
 >source block?) 

Yes

> but it should probably not be there, otherwise you are
 >going to get two images in your PDF.

I was going to conditionally suppress it depending on value of ox-backend.....

If I can get this whole gamish to work for me at all....

~Malcolm

 >
 >--
 >Nick
 >

Re: how to handle svg files when exporting orgmode to html and pdf?

[Aaron Ecay]

Hi Malcom,

2013ko abuztuak 8an, Malcolm Cook-ek idatzi zuen:
> 
> Aaron & Nick,
> 
> Thanks for the help.  I think I'm almost there.
> 
> So far I did
> 
>  * install a latex package (first time for everything).  I wound up
> just putting svg.sty file it for now in the same directory as the .org
> file since my attempts to date failed using $HOME/texfm
>  * customize the emacs variable `org-latex-pdf-process` to include
> '--shell-escape' (following advice in
> http://orgmode.org/worg/org-dependencies.html, which outlines some
> other options)
>  * upgrade to inkscape version 0.48.+ (which is more recent than our
> centOS repos proffered, but, hey) since the --export-latex switch that
> svg.sty depends upon is not implemented till this version
> 
> When I "export to latex as PDF file", I get error "PDF file ./test.pdf
> wasn't produced"
> 
> Sleuthing, I see the output .tex file includes the following lines:
> 
> \usepackage{svg}
> ...
> \includegraphics[width=.9\linewidth]{mtcars.png}
> @@backend:\includesvg{mtcars}
  ^^^^^^^^^

This looks like (malformed?) org markup that has “escaped” into the
exported .tex file.  Are you still using some of the custom macros from
other threads?  Can you send a minimal example of the file that you are
trying to export, and the resulting exported .tex file?  The .log file
produced by LaTeX when compiling the .tex file may be helpful as well.

Thanks,

-- 
Aaron Ecay

Re: how to handle svg files when exporting orgmode to html and pdf?

[Malcolm Cook]

[-- Attachment #1: Type: text/plain, Size: 1714 bytes --]

Aaron, thanks so much, I've attached all three....
--
Malcolm Cook
h - 913.642.5257
c - 913.226.1542
w - 816.926.4449


On Thu, Aug 8, 2013 at 2:36 PM, Aaron Ecay <aaronecay@gmail.com> wrote:
> Hi Malcom,
>
> 2013ko abuztuak 8an, Malcolm Cook-ek idatzi zuen:
>>
>> Aaron & Nick,
>>
>> Thanks for the help.  I think I'm almost there.
>>
>> So far I did
>>
>>  * install a latex package (first time for everything).  I wound up
>> just putting svg.sty file it for now in the same directory as the .org
>> file since my attempts to date failed using $HOME/texfm
>>  * customize the emacs variable `org-latex-pdf-process` to include
>> '--shell-escape' (following advice in
>> http://orgmode.org/worg/org-dependencies.html, which outlines some
>> other options)
>>  * upgrade to inkscape version 0.48.+ (which is more recent than our
>> centOS repos proffered, but, hey) since the --export-latex switch that
>> svg.sty depends upon is not implemented till this version
>>
>> When I "export to latex as PDF file", I get error "PDF file ./test.pdf
>> wasn't produced"
>>
>> Sleuthing, I see the output .tex file includes the following lines:
>>
>> \usepackage{svg}
>> ...
>> \includegraphics[width=.9\linewidth]{mtcars.png}
>> @@backend:\includesvg{mtcars}
>   ^^^^^^^^^
>
> This looks like (malformed?) org markup that has “escaped” into the
> exported .tex file.  Are you still using some of the custom macros from
> other threads?  Can you send a minimal example of the file that you are
> trying to export, and the resulting exported .tex file?  The .log file
> produced by LaTeX when compiling the .tex file may be helpful as well.
>
> Thanks,
>
> --
> Aaron Ecay

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<mtcars.png, id=7, 481.8pt x 481.8pt>
File: mtcars.png Graphic file (type png)
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! LaTeX Error: File `mtcars.zzpdf_tex' not found.

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

Enter file name: 
! Emergency stop.
<read *> 
         
l.39 \includesvg{mtcars}
                        ^^M
*** (cannot \read from terminal in nonstop modes)

 
Here is how much of TeX's memory you used:
 5831 strings out of 256216
 77364 string characters out of 1917073
 137008 words of memory out of 1500000
 8982 multiletter control sequences out of 10000+200000
 13711 words of font info for 45 fonts, out of 1200000 for 2000
 645 hyphenation exceptions out of 8191
 67i,6n,95p,285b,205s stack positions out of 5000i,500n,6000p,200000b,15000s
!  ==> Fatal error occurred, no output PDF file produced!

[-- Attachment #3: testsvg.tex --]
[-- Type: application/x-tex, Size: 823 bytes --]

[-- Attachment #4: testsvg.org --]
[-- Type: application/octet-stream, Size: 241 bytes --]

#+begin_src R :results  graphics output :exports both :file mtcars.png 
library(ggplot2)
qplot(wt, mpg, data = mtcars)
#+end_src

#+RESULTS:
[[file:mtcars.png]]

#+LATEX_HEADER: \usepackage{svg}
#+BEGIN_LaTeX
\includesvg{mtcars}
#+END_LaTeX

Re: how to handle svg files when exporting orgmode to html and pdf?

[Aaron Ecay]

Hi Malcom,

It looks like there are two things going on.  The first is that you
are (as Nick suspected) including the file twice in the document.  You
should change the header of the babel block to output a SVG file:

#+begin_src R :results  graphics output :exports both :file mtcars.svg
                                                                   ^^^

Then you don’t need the #+BEGIN/END_LATEX bit.

The other bit is the svg package failing somehow.  Does the mtcars.svg
file exist in the same directory?  (It isn’t being generated by the
babel block, for example).  Is the inkscape binary you installed on your
$PATH?  I am suspicious about this line from the log file:

,----
| ! LaTeX Error: File `mtcars.zzpdf_tex' not found.
`----

The “zz” should not be there.  Could a stray “zz” have gotten into the
svg.sty file?

The svg package doesn’t have the greatest error reporting; if
you keep having trouble it may be helpful to add \usepackage{trace} to
the top of the document, and \traceon just before the \includesvg
command, to try to see in more detail what steps it is trying (and
possibly failing).  This will generate a voluminous log file...

-- 
Aaron Ecay

Re: how to handle svg files when exporting orgmode to html and pdf?

[Malcolm Cook]

Aaron,

Yeah, the zz was added by me whilst sleuthing.  Sorry for the
confusion.  I added it across the board though. Before I added it, the
message had been 'mtcars.zzpdf_tex' not found.'

I know with org I can directly :export :file basename.svg

The thing I am trying to accomplish is to find an approach that works
for both org export to html and org export to latex->pdf without
having to edit the org document in between exports.

When I do  :export :file basename.svg the resulting pdf does not
inline the svg.  Rather it contains a link to it.

I thought the dance with the svg package was a way of accomplishing my aim.

Do you see a better way?

Thanks!
--
Malcolm Cook
h - 913.642.5257
c - 913.226.1542
w - 816.926.4449


On Thu, Aug 8, 2013 at 4:00 PM, Aaron Ecay <aaronecay@gmail.com> wrote:
> Hi Malcom,
>
> It looks like there are two things going on.  The first is that you
> are (as Nick suspected) including the file twice in the document.  You
> should change the header of the babel block to output a SVG file:
>
> #+begin_src R :results  graphics output :exports both :file mtcars.svg
>                                                                    ^^^
>
> Then you don’t need the #+BEGIN/END_LATEX bit.
>
> The other bit is the svg package failing somehow.  Does the mtcars.svg
> file exist in the same directory?  (It isn’t being generated by the
> babel block, for example).  Is the inkscape binary you installed on your
> $PATH?  I am suspicious about this line from the log file:
>
> ,----
> | ! LaTeX Error: File `mtcars.zzpdf_tex' not found.
> `----
>
> The “zz” should not be there.  Could a stray “zz” have gotten into the
> svg.sty file?
>
> The svg package doesn’t have the greatest error reporting; if
> you keep having trouble it may be helpful to add \usepackage{trace} to
> the top of the document, and \traceon just before the \includesvg
> command, to try to see in more detail what steps it is trying (and
> possibly failing).  This will generate a voluminous log file...
>
> --
> Aaron Ecay

Re: how to handle svg files when exporting orgmode to html and pdf?

[Aaron Ecay]

Hi Malcom,
        
There is a patch that was added to the master branch of the org git
repository on Jul 27, which turns this from a link into a real inclusion
of the image.  So, it will only work as intended if you are using a git
checkout from after that date.

My apologies, I should have made this more prominent in my earlier
mails.

-- 
Aaron Ecay

Re: how to handle svg files when exporting orgmode to html and pdf?

[Malcolm Cook]

Aaron,

Thanks for staying with me on this.

I'm not sure what you're suggesting.

Nonetheless, I just updated org from `git clone git://orgmode.org/org-mode.git`

So, now I'm got org-version  release_8.0.7-377-gef2d47.dirty.

Are you suggesting that  with this patch.svg created with exporting
graphics :file should now display in the emacs buffer when I toggle
display of inline images?  I wish they would.  They do not, despite my
adding "svg" to org-export-latex-inline-image-extensions.

Are you suggesting that such a .svg created by org code block would be
appear in the pdf created when I export to latex -> pdf?  I wish that
also... that's what I've been trying to accomplish.

Thanks!,


Malcolm


PS - I see you are/were in PA in linguistics.   My first job after my
masters in AI from U Mass was at CMU's psych dept as a lisp programmer
for John Anderson's intelligent tutoring systems.  I then went on in
computational linguistics a bit, working on a marcus parser based
natural language processing system at wang labs.  Ages ago.  Now I'm
in computational biology.  The one commonality through it all?  Emacs!
--
Malcolm Cook
h - 913.642.5257
c - 913.226.1542
w - 816.926.4449


On Thu, Aug 8, 2013 at 4:34 PM, Aaron Ecay <aaronecay@gmail.com> wrote:
> Hi Malcom,
>
> There is a patch that was added to the master branch of the org git
> repository on Jul 27, which turns this from a link into a real inclusion
> of the image.  So, it will only work as intended if you are using a git
> checkout from after that date.
>
> My apologies, I should have made this more prominent in my earlier
> mails.
>
> --
> Aaron Ecay

Re: how to handle svg files when exporting orgmode to html and pdf?

[Aaron Ecay]

[-- Attachment #1: Type: text/plain, Size: 2158 bytes --]

Hi Malcom,

On Thu, Aug 8, 2013 at 10:04 PM, Malcolm Cook <malcolm.cook@gmail.com> wrote:
> Aaron,
>
> Thanks for staying with me on this.
>
> I'm not sure what you're suggesting.
>
> Nonetheless, I just updated org from `git clone git://orgmode.org/org-mode.git`
>
> So, now I'm got org-version  release_8.0.7-377-gef2d47.dirty.
>
> Are you suggesting that  with this patch.svg created with exporting
> graphics :file should now display in the emacs buffer when I toggle
> display of inline images?  I wish they would.  They do not, despite my
> adding "svg" to org-export-latex-inline-image-extensions.

This I believe relies on your emacs binary having support for svg
images.  You can check if emacs is linked against librsvg with the
following shell command (assuming you are on linux):
$ ldd `which emacs` | grep svg

Which should give you some line of output like
    librsvg-2.so.2 => /usr/lib/librsvg-2.so.2 (0xb6a86000)

Within emacs, M-: (image-type-available-p 'svg) RET should display t

In buffer viewing of svg works for me without any additional setup,
upon pressing C-c C-x C-v, in an emacs with svg support.

>
> Are you suggesting that such a .svg created by org code block would be
> appear in the pdf created when I export to latex -> pdf?  I wish that
> also... that's what I've been trying to accomplish.

Yes.  I'm attaching the testsvg.org file (slightly modified from the
one you sent) and resultant latex export I get from the same git
version as you...as you can see, the [[file:mtcars.svg]] link is
translated into an \includesvg LaTeX command.  Does it work the same
for you?

>
> PS - I see you are/were in PA in linguistics.   My first job after my
> masters in AI from U Mass was at CMU's psych dept as a lisp programmer
> for John Anderson's intelligent tutoring systems.  I then went on in
> computational linguistics a bit, working on a marcus parser based
> natural language processing system at wang labs.  Ages ago.  Now I'm
> in computational biology.  The one commonality through it all?  Emacs!

:)  I'm in the doctoral program in linguistics at Penn, and a happy
emacs user for several years.  Here's to many more!

[-- Attachment #2: testsvg.org --]
[-- Type: application/octet-stream, Size: 161 bytes --]

#+begin_src R :results  graphics output :exports both :file mtcars.svg
library(ggplot2)
qplot(wt, mpg, data = mtcars)
#+end_src

#+RESULTS:
[[file:mtcars.svg]]


[-- Attachment #3: testsvg.tex --]
[-- Type: application/x-tex, Size: 760 bytes --]

Re: how to handle svg files when exporting orgmode to html and pdf?

[Cook, Malcolm]

Thomas, Suvayu, Aaron, Nick, Eric, Carsten, Phil, et al,

Thanks for all your help.

I am now satisfied with approach for exporting images to inline html and inline latex=>pdf.

In my hands, the following code block will produce in-line images in html and be included in exported pdf.

#+LATEX_HEADER: \usepackage{svg}
#+begin_src R :results  graphics output :exports both :file mtcars.svg
with(mtcars,plot(wt, mpg))
#+end_src 

I am using:
	Emacs 24.3.1
	Suvayus orgmode export filter:

(defun my-svg-graphics (contents backend info)
  (when (eq backend 'latex)
  (replace-regexp-in-string "\\`\\\\includegraphics.+\\({.+\.svg}\\)"
       "\\\\includesvg\1" contents))
)
(add-to-list 'org-export-filter-link-functions 'my-svg-graphics)

* svg latex package v1.0 2004/11/05

 * customize the emacs variable `org-latex-pdf-process` to include
'--shell-escape' (following advice in
http://orgmode.org/worg/org-dependencies.html, which outlines some
other options)

* customize org-export-html-inline-image-extensions to include  "svg" 

 * upgrade to inkscape version 0.48.+ (which is more recent than our
centOS repos proffered, but, hey) since the --export-latex switch that
svg.sty depends upon is not implemented till this version

* upgrade org-mode version 8.0.7-377 built from git pull yesterday

I think I've covered all the pieces.

I have not explored how/whether any options passed to includegraphics are interpreted by includesvg.

Now, if I could get .svg images to display inline in my emacs buffer.  The following is not respected, at least in my hands.  
	'(org-export-latex-inline-image-extensions (quote ("pdf" "jpeg" "jpg" "png" "ps" "eps" "svg")))
Any takers?


~ Malcolm



 >-----Original Message-----
 >From: emacs-orgmode-bounces+mec=stowers.org@gnu.org [mailto:emacs-orgmode-bounces+mec=stowers.org@gnu.org] On
 >Behalf Of Malcolm Cook
 >Sent: Thursday, August 08, 2013 9:05 PM
 >To: Malcolm Cook; emacs-orgmode@gnu.org; Nick Dokos
 >Subject: Re: [O] how to handle svg files when exporting orgmode to html and pdf?
 >
 >Aaron,
 >
 >Thanks for staying with me on this.
 >
 >I'm not sure what you're suggesting.
 >
 >Nonetheless, I just updated org from `git clone git://orgmode.org/org-mode.git`
 >
 >So, now I'm got org-version  release_8.0.7-377-gef2d47.dirty.
 >
 >Are you suggesting that  with this patch.svg created with exporting
 >graphics :file should now display in the emacs buffer when I toggle
 >display of inline images?  I wish they would.  They do not, despite my
 >adding "svg" to org-export-latex-inline-image-extensions.
 >
 >Are you suggesting that such a .svg created by org code block would be
 >appear in the pdf created when I export to latex -> pdf?  I wish that
 >also... that's what I've been trying to accomplish.
 >
 >Thanks!,
 >
 >
 >Malcolm
 >
 >
 >PS - I see you are/were in PA in linguistics.   My first job after my
 >masters in AI from U Mass was at CMU's psych dept as a lisp programmer
 >for John Anderson's intelligent tutoring systems.  I then went on in
 >computational linguistics a bit, working on a marcus parser based
 >natural language processing system at wang labs.  Ages ago.  Now I'm
 >in computational biology.  The one commonality through it all?  Emacs!
 >--
 >Malcolm Cook
 >h - 913.642.5257
 >c - 913.226.1542
 >w - 816.926.4449
 >
 >
 >On Thu, Aug 8, 2013 at 4:34 PM, Aaron Ecay <aaronecay@gmail.com> wrote:
 >> Hi Malcom,
 >>
 >> There is a patch that was added to the master branch of the org git
 >> repository on Jul 27, which turns this from a link into a real inclusion
 >> of the image.  So, it will only work as intended if you are using a git
 >> checkout from after that date.
 >>
 >> My apologies, I should have made this more prominent in my earlier
 >> mails.
 >>
 >> --
 >> Aaron Ecay

Re: how to handle svg files when exporting orgmode to html and pdf?

[Cook, Malcolm]

Thomas, Suvayu, Aaron, Nick, Eric, Carsten, Phil, et al,

Hi again!

Can I re-open this thread to discuss two new issues I now experience with emacs 24.3.1 and orgmode version 8.2.1 in the handling of svg => tex => pdf ?

Here goes:

1) If the plot has text in it which contains a percent character (%), then we fail due to https://bugs.launchpad.net/inkscape/+bug/857231

2) If the :file is in a sub-directory  (for example, `:file fig/mtcars.svg`), even though both ./fig/mtcars.pdf_tex  and ./fig/mtcars.pdf are created, the reference to the .pdf in the .pdf_tex  is not interpreted relative to the subdirectory, but rather to the parent, and so the .pdf is not found.

The workaround for (1) is to not use '%' as a label on my plots.

The workaround for (2) is to not put my figures in a './fig/' subdirectory.

I suppose the fix for (1) is to get the inkscape export 'fixed' to (optionally) escape the labels, and to take the option.  Thoughts?

I suppose the fix for (2) is somewhere in the org code.  Any takers?

Or, any other fixes suggested?

Thanks!

Malcolm



 >-----Original Message-----
 >From: emacs-orgmode-bounces+mec=stowers.org@gnu.org [mailto:emacs-orgmode-bounces+mec=stowers.org@gnu.org] On
 >Behalf Of Cook, Malcolm
 >Sent: Friday, August 09, 2013 4:01 PM
 >To: 'Malcolm Cook'; 'emacs-orgmode@gnu.org'; 'Nick Dokos'; 'Suvayu Ali'; 'Eric Schulte'; 'Vincent Beffara'; 'Thomas S. Dye';
 >'philten@cern.ch'; 'Charles Berry'; 'Aaron Ecay'
 >Subject: Re: [O] how to handle svg files when exporting orgmode to html and pdf?
 >
 >Thomas, Suvayu, Aaron, Nick, Eric, Carsten, Phil, et al,
 >
 >Thanks for all your help.
 >
 >I am now satisfied with approach for exporting images to inline html and inline latex=>pdf.
 >
 >In my hands, the following code block will produce in-line images in html and be included in exported pdf.
 >
 >#+LATEX_HEADER: \usepackage{svg}
 >#+begin_src R :results  graphics output :exports both :file mtcars.svg
 >with(mtcars,plot(wt, mpg))
 >#+end_src
 >
 >I am using:
 >	Emacs 24.3.1
 >	Suvayus orgmode export filter:
 >
 >(defun my-svg-graphics (contents backend info)
 >  (when (eq backend 'latex)
 >  (replace-regexp-in-string "\\`\\\\includegraphics.+\\({.+\.svg}\\)"
 >       "\\\\includesvg\1" contents))
 >)
 >(add-to-list 'org-export-filter-link-functions 'my-svg-graphics)
 >
 >* svg latex package v1.0 2004/11/05
 >
 > * customize the emacs variable `org-latex-pdf-process` to include
 >'--shell-escape' (following advice in
 >http://orgmode.org/worg/org-dependencies.html, which outlines some
 >other options)
 >
 >* customize org-export-html-inline-image-extensions to include  "svg"
 >
 > * upgrade to inkscape version 0.48.+ (which is more recent than our
 >centOS repos proffered, but, hey) since the --export-latex switch that
 >svg.sty depends upon is not implemented till this version
 >
 >* upgrade org-mode version 8.0.7-377 built from git pull yesterday
 >
 >I think I've covered all the pieces.
 >
 >I have not explored how/whether any options passed to includegraphics are interpreted by includesvg.
 >
 >Now, if I could get .svg images to display inline in my emacs buffer.  The following is not respected, at least in my hands.
 >	'(org-export-latex-inline-image-extensions (quote ("pdf" "jpeg" "jpg" "png" "ps" "eps" "svg")))
 >Any takers?
 >
 >
 >~ Malcolm
 >
 >
 >
 > >-----Original Message-----
 > >From: emacs-orgmode-bounces+mec=stowers.org@gnu.org [mailto:emacs-orgmode-bounces+mec=stowers.org@gnu.org] On
 > >Behalf Of Malcolm Cook
 > >Sent: Thursday, August 08, 2013 9:05 PM
 > >To: Malcolm Cook; emacs-orgmode@gnu.org; Nick Dokos
 > >Subject: Re: [O] how to handle svg files when exporting orgmode to html and pdf?
 > >
 > >Aaron,
 > >
 > >Thanks for staying with me on this.
 > >
 > >I'm not sure what you're suggesting.
 > >
 > >Nonetheless, I just updated org from `git clone git://orgmode.org/org-mode.git`
 > >
 > >So, now I'm got org-version  release_8.0.7-377-gef2d47.dirty.
 > >
 > >Are you suggesting that  with this patch.svg created with exporting
 > >graphics :file should now display in the emacs buffer when I toggle
 > >display of inline images?  I wish they would.  They do not, despite my
 > >adding "svg" to org-export-latex-inline-image-extensions.
 > >
 > >Are you suggesting that such a .svg created by org code block would be
 > >appear in the pdf created when I export to latex -> pdf?  I wish that
 > >also... that's what I've been trying to accomplish.
 > >
 > >Thanks!,
 > >
 > >
 > >Malcolm
 > >
 > >
 > >PS - I see you are/were in PA in linguistics.   My first job after my
 > >masters in AI from U Mass was at CMU's psych dept as a lisp programmer
 > >for John Anderson's intelligent tutoring systems.  I then went on in
 > >computational linguistics a bit, working on a marcus parser based
 > >natural language processing system at wang labs.  Ages ago.  Now I'm
 > >in computational biology.  The one commonality through it all?  Emacs!
 > >--
 > >Malcolm Cook
 > >h - 913.642.5257
 > >c - 913.226.1542
 > >w - 816.926.4449
 > >
 > >
 > >On Thu, Aug 8, 2013 at 4:34 PM, Aaron Ecay <aaronecay@gmail.com> wrote:
 > >> Hi Malcom,
 > >>
 > >> There is a patch that was added to the master branch of the org git
 > >> repository on Jul 27, which turns this from a link into a real inclusion
 > >> of the image.  So, it will only work as intended if you are using a git
 > >> checkout from after that date.
 > >>
 > >> My apologies, I should have made this more prominent in my earlier
 > >> mails.
 > >>
 > >> --
 > >> Aaron Ecay
 >

Re: how to handle svg files when exporting orgmode to html and pdf?

[Aaron Ecay]

Hi Malcom,

2013ko urriak 28an, "Cook, Malcolm"-ek idatzi zuen:
> 
> Thomas, Suvayu, Aaron, Nick, Eric, Carsten, Phil, et al,
> 
> Hi again!
> 
> Can I re-open this thread to discuss two new issues I now experience with emacs 24.3.1 and orgmode version 8.2.1 in the handling of svg => tex => pdf ?
> 
> Here goes:
> 
> 1) If the plot has text in it which contains a percent character (%),
> then we fail due to https://bugs.launchpad.net/inkscape/+bug/857231

It sounds from
<https://bugs.launchpad.net/inkscape/+bug/719320/comments/3> as though
inkscape makes a deliberate effort to support LaTeX markup in their
pdf+latex output.  So it’s not surprising that % is a problem.

It’s unfortunate from the perspective of having a single SVG file that
works in both HTML and LaTeX, but I don’t know if that is an argument
that will cut ice with them.  I don’t know what org can/should do to
patch around inkscape’s design decisions.

Certainly the svg LaTeX package could be patched to use inkscape’s pdf
export, instead of the pdf+latex one.  This would lose the nice fonts
that running the text through latex nets you, but get rid of the %
annoyances.

> 
> 2) If the :file is in a sub-directory  (for example, `:file
> fig/mtcars.svg`), even though both ./fig/mtcars.pdf_tex  and
> ./fig/mtcars.pdf are created, the reference to the .pdf in the
> .pdf_tex  is not interpreted relative to the subdirectory, but rather
> to the parent, and so the .pdf is not found.

Have you looked at the \graphicspath macro from the graphics package?
<http://www.tex.ac.uk/cgi-bin/texfaq2html?label=graphicspath>.  You may
be able to get things to work by adding \graphicspath{{fig/}} (note the
double braces) to your document.  \setsvg{svgpath=fig/} from the svg
package may also/additionally be needed.

Aaron

PS Maybe org should be generating the \includesvg command relative to
the graphicspath or svgpath – I’m not sure.  But let us know if setting
those variables works at all, and if so we can think about adding
support to org.

-- 
Aaron Ecay

Re: how to handle svg files when exporting orgmode to html and pdf?

[Cook, Malcolm]

Hi Aaron,

>> Can I re-open this thread to discuss two new issues I now experience with emacs 24.3.1 and orgmode version 8.2.1 in the handling of
 >svg => tex => pdf ?
 >>
 >> Here goes:
 >>
 >> 1) If the plot has text in it which contains a percent character (%),
 >> then we fail due to https://bugs.launchpad.net/inkscape/+bug/857231
 >
 >It sounds from
 ><https://bugs.launchpad.net/inkscape/+bug/719320/comments/3> as though
 >inkscape makes a deliberate effort to support LaTeX markup in their
 >pdf+latex output.  So it’s not surprising that % is a problem.
 >
>It’s unfortunate from the perspective of having a single SVG file that
 >works in both HTML and LaTeX, but I don’t know if that is an argument
 >that will cut ice with them.  I don’t know what org can/should do to
 >patch around inkscape’s design decisions.

Indeed!  So, I made a suggestion to 'fix' (?) Inkscape here:

https://bugs.launchpad.net/inkscape/+bug/719320

Let's see if I get any traction on that!

>
 >Certainly the svg LaTeX package could be patched to use inkscape’s pdf
 >export, instead of the pdf+latex one.  This would lose the nice fonts
 >that running the text through latex nets you, but get rid of the %
 >annoyances.
 >
 >>
 >> 2) If the :file is in a sub-directory  (for example, `:file
 >> fig/mtcars.svg`), even though both ./fig/mtcars.pdf_tex  and
 >> ./fig/mtcars.pdf are created, the reference to the .pdf in the
 >> .pdf_tex  is not interpreted relative to the subdirectory, but rather
 >> to the parent, and so the .pdf is not found.
 >
 >Have you looked at the \graphicspath macro from the graphics package?
 ><http://www.tex.ac.uk/cgi-bin/texfaq2html?label=graphicspath>.  You may
 >be able to get things to work by adding \graphicspath{{fig/}} (note the
 >double braces) to your document.  \setsvg{svgpath=fig/} from the svg
 >package may also/additionally be needed.
 >

Excellent!  Adding to the top of my emacs .org file the following allowed it to work.  

#+LATEX_HEADER: \graphicspath{{fig/}}

Much better workaround.  But still a workaround?

~ Malcolm


 >Aaron
 >
 >PS Maybe org should be generating the \includesvg command relative to
 >the graphicspath or svgpath – I’m not sure.  But let us know if setting
 >those variables works at all, and if so we can think about adding
 >support to org.
 >
 >--
 >Aaron Ecay

Re: how to handle svg files when exporting orgmode to html and pdf?

[Aaron Ecay]

Hi Malcom,

2013ko urriak 28an, "Cook, Malcolm"-ek idatzi zuen:
> 

[...]

> Excellent!  Adding to the top of my emacs .org file the following allowed it to work.  
> 
> #+LATEX_HEADER: \graphicspath{{fig/}}
> 
> Much better workaround.  But still a workaround?

The support for including graphics from other directories in latex
documents doesn’t strike me as robust, and I think the \graphicspath
specification is often needed in such cases.  (Though I’m far from an
expert).  So I think it is indeed a workaround, but of the usual LaTeX
sort.

-- 
Aaron Ecay

Re: how to handle svg files when exporting orgmode to html and pdf?

[Nick Dokos]

[-- Attachment #1: Type: text/plain, Size: 941 bytes --]

Malcolm Cook <malcolm.cook@gmail.com> writes:

>
> #+begin_src R :results  graphics output :exports both :file mtcars.png 
> library(ggplot2)
> qplot(wt, mpg, data = mtcars)
> #+end_src
>
> #+RESULTS:
> [[file:mtcars.png]]
>
> #+LATEX_HEADER: \usepackage{svg}
> #+BEGIN_LaTeX
> \includesvg{mtcars}
> #+END_LaTeX


The following works for me:

--8<---------------cut here---------------start------------->8---
#+LATEX_HEADER: \usepackage{svg}

#+begin_src R :results  graphics output :exports both :file mtcars.svg :results none
library(ggplot2)
qplot(wt, mpg, data = mtcars)
#+end_src

#+BEGIN_LaTeX
\includesvg{mtcars}
#+END_LaTeX
--8<---------------cut here---------------end--------------->8---

The only problem is that I use minted to typeset code blocks and it
apparently does not know how to deal with R code blocks, so the code
block is not present in the PDF file. But the image is there. I attach
the resultant tex and pdf files.


[-- Warning: decoded text below may be mangled, UTF-8 assumed --]
[-- Attachment #2: TeX file --]
[-- Type: text/x-tex, Size: 794 bytes --]

% Created 2013-08-09 Fri 00:36
\documentclass[11pt]{article}
\usepackage[utf8]{inputenc}
\usepackage[T1]{fontenc}
\usepackage{fixltx2e}
\usepackage{graphicx}
\usepackage{longtable}
\usepackage{float}
\usepackage{wrapfig}
\usepackage[normalem]{ulem}
\usepackage{textcomp}
\usepackage{marvosym}
\usepackage{wasysym}
\usepackage{latexsym}
\usepackage{amssymb}
\usepackage{amstext}
\usepackage{hyperref}
\tolerance=1000
\usepackage{minted}
\usepackage{svg}
\author{Nick Dokos}
\date{\today}
\title{foo2}
\hypersetup{
  pdfkeywords={},
  pdfsubject={},
  pdfcreator={Emacs 24.3.50.2 (Org mode 8.0.7)}}
\begin{document}

\maketitle
\tableofcontents

\begin{minted}[]{R}
library(ggplot2)
qplot(wt, mpg, data = mtcars)
\end{minted}

\includesvg{mtcars}
% Emacs 24.3.50.2 (Org mode 8.0.7)
\end{document}

[-- Attachment #3: PDF file --]
[-- Type: application/pdf, Size: 49502 bytes --]

[-- Attachment #4: Type: text/plain, Size: 10 bytes --]


-- 
Nick