Re: Babel language support for Mathematica

Re: Babel language support for Mathematica

[Richard Stanton]

I recently saw this posting about org support for Mathematica. Thanks for writing this! 

Unfortunately, while I can get it to work for simple things (e.g., 2+3), even slightly more complex things don't seem to work. For example, suppose I'd like to define a function f(x) = x + 3, and then calculate f(5). In a MMA notebook, if I type

f[x_] := x+3
f[5]

I get the answer 8. If I try the same code in an org-mode code block, here's what happens:

#+BEGIN_SRC mathematica 
f[x_] := x+3
f[5]
#+END_SRC

#+RESULTS:
: Null

Am I missing something obvious here?

Thanks very much.

Richard Stanton

Re: Babel language support for Mathematica

[John Kitchin]

I wonder if this is an output vs value issue on the return of the
block. If you set :results output does anything change? or, is there a
way to specify a return value? or specifically print something?

Richard Stanton writes:

> I recently saw this posting about org support for Mathematica. Thanks for writing this!
>
> Unfortunately, while I can get it to work for simple things (e.g., 2+3), even slightly more complex things don't seem to work. For example, suppose I'd like to define a function f(x) = x + 3, and then calculate f(5). In a MMA notebook, if I type
>
> f[x_] := x+3
> f[5]
>
> I get the answer 8. If I try the same code in an org-mode code block, here's what happens:
>
> #+BEGIN_SRC mathematica
> f[x_] := x+3
> f[5]
> #+END_SRC
>
> #+RESULTS:
> : Null
>
> Am I missing something obvious here?
>
> Thanks very much.
>
> Richard Stanton

--
Professor John Kitchin
Doherty Hall A207F
Department of Chemical Engineering
Carnegie Mellon University
Pittsburgh, PA 15213
412-268-7803
@johnkitchin
http://kitchingroup.cheme.cmu.edu

Re: Babel language support for Mathematica

[Yi Wang]

[-- Attachment #1: Type: text/plain, Size: 1860 bytes --]

Dear Richard,

You can do:

#+BEGIN_SRC mathematica
f[x_] := x+3;
f[5]
#+END_SRC

Here are explanations: I actually put everything in the SRC block into a
Print[...].

So in the second example, what actually runs is

Print[f[x_] := x+3
f[5]]

This does not return any value. Because what it really does is print the
value of "f[x_] := x+3 f[5]"

Here is the code:

(concat
     (mapconcat ;; define any variables
      (lambda (pair)
(format "%s=%s;"
(car pair)
(org-babel-mathematica-var-to-mathematica (cdr pair))))
      vars "\n") "\nPrint[\n" body "\n]\n")

If anybody has idea to improve it, I will be happy to see and work it out!

Best,
Yi




On Sat, Mar 14, 2015 at 7:09 AM John Kitchin <jkitchin@andrew.cmu.edu>
wrote:

> I wonder if this is an output vs value issue on the return of the
> block. If you set :results output does anything change? or, is there a
> way to specify a return value? or specifically print something?
>
> Richard Stanton writes:
>
> > I recently saw this posting about org support for Mathematica. Thanks
> for writing this!
> >
> > Unfortunately, while I can get it to work for simple things (e.g., 2+3),
> even slightly more complex things don't seem to work. For example, suppose
> I'd like to define a function f(x) = x + 3, and then calculate f(5). In a
> MMA notebook, if I type
> >
> > f[x_] := x+3
> > f[5]
> >
> > I get the answer 8. If I try the same code in an org-mode code block,
> here's what happens:
> >
> > #+BEGIN_SRC mathematica
> > f[x_] := x+3
> > f[5]
> > #+END_SRC
> >
> > #+RESULTS:
> > : Null
> >
> > Am I missing something obvious here?
> >
> > Thanks very much.
> >
> > Richard Stanton
>
> --
> Professor John Kitchin
> Doherty Hall A207F
> Department of Chemical Engineering
> Carnegie Mellon University
> Pittsburgh, PA 15213
> 412-268-7803
> @johnkitchin
> http://kitchingroup.cheme.cmu.edu
>

[-- Attachment #2: Type: text/html, Size: 3986 bytes --]

Re: Babel language support for Mathematica

[Richard Stanton]

[-- Attachment #1: Type: text/plain, Size: 2454 bytes --]

Thanks. After a bit of experimentation, I found that you can have a block outputting several lines, but you need to manually add commas and carriage returns, e.g.,

#+BEGIN_SRC mathematica :results output
f[x_] := 3*x^2+3;
f[8], "\n",
D[f[x],x]
#+END_SRC

#+RESULTS:
: 195
: 6*x





> On Mar 13, 2015, at 4:16 PM, Yi Wang <tririverwangyi@gmail.com> wrote:
> 
> Dear Richard,
> 
> You can do:
> 
> #+BEGIN_SRC mathematica
> f[x_] := x+3;
> f[5]
> #+END_SRC
> 
> Here are explanations: I actually put everything in the SRC block into a Print[...].
> 
> So in the second example, what actually runs is
> 
> Print[f[x_] := x+3
> f[5]]
> 
> This does not return any value. Because what it really does is print the value of "f[x_] := x+3 f[5]"
> 
> Here is the code:
> 
> (concat
>      (mapconcat ;; define any variables
>       (lambda (pair)
> 	(format "%s=%s;"
> 		(car pair)
> 		(org-babel-mathematica-var-to-mathematica (cdr pair))))
>       vars "\n") "\nPrint[\n" body "\n]\n")
> 
> If anybody has idea to improve it, I will be happy to see and work it out!
> 
> Best,
> Yi
> 
> 
> 
> 
> On Sat, Mar 14, 2015 at 7:09 AM John Kitchin <jkitchin@andrew.cmu.edu <mailto:jkitchin@andrew.cmu.edu>> wrote:
> I wonder if this is an output vs value issue on the return of the
> block. If you set :results output does anything change? or, is there a
> way to specify a return value? or specifically print something?
> 
> Richard Stanton writes:
> 
> > I recently saw this posting about org support for Mathematica. Thanks for writing this!
> >
> > Unfortunately, while I can get it to work for simple things (e.g., 2+3), even slightly more complex things don't seem to work. For example, suppose I'd like to define a function f(x) = x + 3, and then calculate f(5). In a MMA notebook, if I type
> >
> > f[x_] := x+3
> > f[5]
> >
> > I get the answer 8. If I try the same code in an org-mode code block, here's what happens:
> >
> > #+BEGIN_SRC mathematica
> > f[x_] := x+3
> > f[5]
> > #+END_SRC
> >
> > #+RESULTS:
> > : Null
> >
> > Am I missing something obvious here?
> >
> > Thanks very much.
> >
> > Richard Stanton
> 
> --
> Professor John Kitchin
> Doherty Hall A207F
> Department of Chemical Engineering
> Carnegie Mellon University
> Pittsburgh, PA 15213
> 412-268-7803
> @johnkitchin
> http://kitchingroup.cheme.cmu.edu <http://kitchingroup.cheme.cmu.edu/>


[-- Attachment #2: Type: text/html, Size: 6036 bytes --]

Babel language support for Mathematica

[Yi Wang]

[-- Attachment #1: Type: text/plain, Size: 744 bytes --]

Hello,

As far as I can find, there is no babel support for Mathematica. So I wrote
one and share it in case other people are interested:

https://github.com/tririver/wy-els/blob/master/ob-mathematica.el

It is also discussed in this blog
http://cosmosimple.blogspot.co.uk/2014/01/evaluate-mathematica-code-in-emacs-org.html


While writing this extension, I have a question: How to add font-lock mode
in org code blocks? I had a read of ob-C and ob-python code and didn't find
out how they do font-lock.

Note that the font lock support for Mathematica is available as mma-mode at
https://github.com/skaslev/emacs.d/blob/master/progmodes/mma.el

For my case in a .m file I have font lock from mma.el, but not src code
blocks.

Best wishes,
Yi

[-- Attachment #2: Type: text/html, Size: 1231 bytes --]

Re: Babel language support for Mathematica

[Bastien]

Hi Yi,

Yi Wang <tririverwangyi@gmail.com> writes:

> As far as I can find, there is no babel support for Mathematica. So I
> wrote one and share it in case other people are interested:
>
> https://github.com/tririver/wy-els/blob/master/ob-mathematica.el

Nice, thanks for sharing!

(By the way, you should fix the .el header, it says that the file is
part of Emacs while it's not.)

> While writing this extension, I have a question: How to add font-lock
> mode in org code blocks?

(setq org-src-fontify-natively t)

HTH,

-- 
 Bastien

Re: Babel language support for Mathematica

[Sebastien Vauban]

Hi Bastien,

Bastien wrote:
>> While writing this extension, I have a question: How to add font-lock
>> mode in org code blocks?
>
> (setq org-src-fontify-natively t)

Shouldn't that be enabled by default, now, as there so many users who
seems to be unaware of that?

Or is there a fear of impacts on overall performance?

Best regards,
  Seb

-- 
Sebastien Vauban

Re: Babel language support for Mathematica

[Bastien]

Hi Sébastien,

"Sebastien Vauban" <sva-news-D0wtAvR13HarG/iDocfnWg@public.gmane.org>
writes:

>> (setq org-src-fontify-natively t)
>
> Shouldn't that be enabled by default, now, as there so many users who
> seems to be unaware of that?

Well, I'm all for it.

> Or is there a fear of impacts on overall performance?

No, I don't think so.

Can you create a separate thread and poll the user for whether they
want this to be the default for the next major release?

Thanks!

-- 
 Bastien

Re: Babel language support for Mathematica

[Yi Wang]

[-- Attachment #1: Type: text/plain, Size: 1111 bytes --]

Hi, Bastien,

> (By the way, you should fix the .el header, it says that the file is
> part of Emacs while it's not.)

Sorry I thought it was general GPL... Now it is updated. Thank you for
pointing that out!

> (setq org-src-fontify-natively t)

Yes, I already set this. But curiously the Mathematica code is still not
highlighted like other codes. I wonder there may be some non-standard
things inside mma.el (the Mathematica package file major mode) then?

Best,
Yi


On Thu, Jan 9, 2014 at 10:28 AM, Bastien <bzg@gnu.org> wrote:

> Hi Yi,
>
> Yi Wang <tririverwangyi@gmail.com> writes:
>
> > As far as I can find, there is no babel support for Mathematica. So I
> > wrote one and share it in case other people are interested:
> >
> > https://github.com/tririver/wy-els/blob/master/ob-mathematica.el
>
> Nice, thanks for sharing!
>
> (By the way, you should fix the .el header, it says that the file is
> part of Emacs while it's not.)
>
> > While writing this extension, I have a question: How to add font-lock
> > mode in org code blocks?
>
> (setq org-src-fontify-natively t)
>
> HTH,
>
> --
>  Bastien
>

[-- Attachment #2: Type: text/html, Size: 2743 bytes --]

Re: Babel language support for Mathematica

[Bastien]

Yi Wang <tririverwangyi@gmail.com> writes:

> Yes, I already set this. But curiously the Mathematica code is still
> not highlighted like other codes. I wonder there may be some
> non-standard things inside mma.el (the Mathematica package file major
> mode) then?

I don't think so, you may just have to check that the mode defined in
mma.el is automatically boundled with .m files -- which is not the case
with a default Emacs installation, where .m files are open with
objc-mode.

-- 
 Bastien

Re: Babel language support for Mathematica

[Yi Wang]

[-- Attachment #1: Type: text/plain, Size: 1359 bytes --]

> I don't think so, you may just have to check that the mode defined in
> mma.el is automatically boundled with .m files -- which is not the case
> with a default Emacs installation, where .m files are open with
> objc-mode.

I already have this line in my configuration file:

(add-to-list 'auto-mode-alist '("\\.m\\'" . mma-mode))

Now I have

(1) If I open a .m file, there is font lock. Thus the problem shouldn't be
binding between mma.el and .m files.
(2) If I insert a src block of C or python code in org mode, there is font
lock. Thus the problem shouldn't be org-src-fontify-natively (and I checked
it is indeed t).

This is why I am confused. Actually I don't badly need this feature. Just
it would be a little better to have things work properly.

Best,
Yi


On Thu, Jan 9, 2014 at 10:55 AM, Bastien <bzg@altern.org> wrote:

> Yi Wang <tririverwangyi@gmail.com> writes:
>
> > Yes, I already set this. But curiously the Mathematica code is still
> > not highlighted like other codes. I wonder there may be some
> > non-standard things inside mma.el (the Mathematica package file major
> > mode) then?
>
> I don't think so, you may just have to check that the mode defined in
> mma.el is automatically boundled with .m files -- which is not the case
> with a default Emacs installation, where .m files are open with
> objc-mode.
>
> --
>  Bastien
>

[-- Attachment #2: Type: text/html, Size: 3089 bytes --]

Re: Babel language support for Mathematica

[Bastien]

Yi Wang <tririverwangyi@gmail.com> writes:

> (1) If I open a .m file, there is font lock. Thus the problem
> shouldn't be binding between mma.el and .m files.
> (2) If I insert a src block of C or python code in org mode, there is
> font lock. Thus the problem shouldn't be org-src-fontify-natively
> (and I checked it is indeed t).

What happen if you C-c ' on a .m block?

-- 
 Bastien

Re: Babel language support for Mathematica

[Yi Wang]

[-- Attachment #1: Type: text/plain, Size: 916 bytes --]

Ah, now the problem appears. It says "No such language mode:
mathematica-mode".

So there is a mismatch between the name mathematica (which I used as name
in org-babel extension) and the name mma-mode (which is provided by
mma.el).

However, as auto-mode-alist suggests (where there is ("\\.m\\'" .
mma-mode), and no entry with mathematica-mode), I still have no idea
why org-edit-special looks for mathematica-mode instead of mma-mode.


On Thu, Jan 9, 2014 at 11:15 AM, Bastien <bzg@altern.org> wrote:

> Yi Wang <tririverwangyi@gmail.com> writes:
>
> > (1) If I open a .m file, there is font lock. Thus the problem
> > shouldn't be binding between mma.el and .m files.
> > (2) If I insert a src block of C or python code in org mode, there is
> > font lock. Thus the problem shouldn't be org-src-fontify-natively
> > (and I checked it is indeed t).
>
> What happen if you C-c ' on a .m block?
>
> --
>  Bastien
>

[-- Attachment #2: Type: text/html, Size: 1482 bytes --]

Re: Babel language support for Mathematica

[Yi Wang]

[-- Attachment #1: Type: text/plain, Size: 1190 bytes --]

Now it worked. I added (add-to-list 'org-src-lang-modes '("mathematica" .
"mma")). After that font lock and edit source works. Thank @Bastien for the
help!


On Thu, Jan 9, 2014 at 11:31 AM, Yi Wang <tririverwangyi@gmail.com> wrote:

> Ah, now the problem appears. It says "No such language mode:
> mathematica-mode".
>
> So there is a mismatch between the name mathematica (which I used as name
> in org-babel extension) and the name mma-mode (which is provided by
> mma.el).
>
> However, as auto-mode-alist suggests (where there is ("\\.m\\'" .
> mma-mode), and no entry with mathematica-mode), I still have no idea
> why org-edit-special looks for mathematica-mode instead of mma-mode.
>
>
> On Thu, Jan 9, 2014 at 11:15 AM, Bastien <bzg@altern.org> wrote:
>
>> Yi Wang <tririverwangyi@gmail.com> writes:
>>
>> > (1) If I open a .m file, there is font lock. Thus the problem
>> > shouldn't be binding between mma.el and .m files.
>> > (2) If I insert a src block of C or python code in org mode, there is
>> > font lock. Thus the problem shouldn't be org-src-fontify-natively
>> > (and I checked it is indeed t).
>>
>> What happen if you C-c ' on a .m block?
>>
>> --
>>  Bastien
>>
>
>

[-- Attachment #2: Type: text/html, Size: 2094 bytes --]