gnuplot-beta — Developers and beta testers of new gnuplot code

Re: gnuplot web extension

[Hans-Bernhard B. <br...@ph...>]

skhadar wrote:
> I have an assignment to develop a web-based graph plotting program.

Then you should do so.  I'm quite sure that 'develop a program' doesn't 
cover just using an existing program.

> I would like to how can I implement  the gnuplot as a web extension, any 
> seperate lib/modules are available.

gnuplot is not a "web extension" (whatever exactly that may be supposed 
to mean).  It's an interactive program, which can also be used as a 
back-end by other programs if you redirect its input and/or output.  If 
that's not information for you, I'm afraid gnuplot isn't what you need.

Re: Re: Question: intent of "set datafile binary"?

[<ds...@ch...>]

> 
> From: Hans-Bernhard Broeker <br...@ph...>
> Date: 2005/11/28 Mon AM 07:18:45 EST
> To: Ethan A Merritt <merritt@u.washington.edu>
> CC: gnuplot <gnu...@li...>
> Subject: Re: Question: intent of "set datafile binary"?
> 
> Ethan A Merritt wrote:
> > So far as I can tell, the command
> >     set datafile binary
> > does not accomplish anything at all.
> 
> I don't think the documentation says it should accomplish anything.
> The wording in 'help set datafile binary' could do with some 
> clarification, but I read it as saying: specifies defaults for what the 
> 'binary' keyword in {s}plot does.  It doesn't say anything about it 
> turning on 'binary'.

That seems like how it was intended.  But Ethan's interpretation is understandable.  One of those things where I didn't think of all the possible nuances of the syntax beforehand.  Either it should have meaning or produce an error message if it does nothing.

Dan

Re: Question: intent of "set datafile binary"?

[Hans-Bernhard B. <br...@ph...>]

Ethan A Merritt wrote:
> So far as I can tell, the command
>     set datafile binary
> does not accomplish anything at all.

I don't think the documentation says it should accomplish anything.
The wording in 'help set datafile binary' could do with some 
clarification, but I read it as saying: specifies defaults for what the 
'binary' keyword in {s}plot does.  It doesn't say anything about it 
turning on 'binary'.

Re: Re: Question: intent of "set datafile binary"?

[<ds...@ch...>]

> 
> From: Petr Mikulik <mi...@ph...>
> Date: 2005/11/27 Sun PM 12:48:25 EST
> To: Ethan A Merritt <merritt@u.washington.edu>
> CC: gnuplot <gnu...@li...>, 
>         Daniel J Sebald <dan...@ie...>
> Subject: Re: Question: intent of "set datafile binary"?
> 
> > So far as I can tell, the command
> >    set datafile binary
> > does not accomplish anything at all.
> >
> > I had assumed it was intended to make subsequent input default
> > to binary, but perhaps not.
> >
> > That is, I expected the two following sequences would produce
> > the same result.  But they don't.  The second sequence tries
> > to read the input as ascii.
> >
> > # All in-line
> > plot 'foo' binary with image
> >
> > # Set defaults
> > set datafile binary
> > plot 'foo' with image
> 
> I think the command "set datafile binary" should not switch to binary 
> reading because there is no an opposite switch like "plot 'bla' ascii".
> 
> I think it should behave this way:
> gnuplot> set datafile binary
>  			     ^
>  			option expected
> 

I've no strong opinion on this.  Could program either way.

> 
> BTW: "show datafile binary" says
>    "int64" (8) -- processor does not support this size
>    "uint64" (8) -- processor does not support this size
> but I think they are supported as "long long int" on i386.

I guess I did see the syntax "long long" the other day.  (Personally, I'd never expect such thing in a programming language.  The imprecision of it is that a programmer could easily jump to the conclusion that long long just means long.)  I can fix that.

Dan

gnuplot web extension

[skhadar <sk...@dy...>]

Hi, I am a bioinformatics student from India,
I have an assignment to develop a web-based graph plotting program.
I would like to how can I implement  the gnuplot as a web extension, any 
seperate lib/modules are available. If you could provide some light on the 
same, it would be  of great help. please tell me about any sample cgi 
scripts also. 

 

Mr. Shameer Khadar
Bioinformatics & Systems Biology Group
Dr. D.Y. Patil Institute for Biotechnology & Bioinformatics
Plot 15 / Sector 50 - CBD Belapur - Navi Mumbai - 400614 - Maharashtra
INDIA <sk...@gm...>
 ------------------------------------------------------------------------
Imagination is important than knowledge - A Einstein
 ------------------------------------------------------------------------ 

Re: Error using Aqua Term with gnuplot 4.1

[Per P. <per...@ma...>]

On Nov 27, 2005, at 05:09, gnu...@li...  
wrote:

>
> Message: 2
> Date: Sat, 26 Nov 2005 09:47:37 -0500
> From: Jeremy Conlin <jer...@gm...>
> To: gnu...@li...
> Subject: Error using Aqua Term with gnuplot 4.1
>
> I have an Apple PowerBook running OS 10.4.  I just installed gnuplot
> version 4.1 because I need to plot errorbars with histeps.  I only had
> one problem with the installation but was able to get around it.  The
> problem was in the LaTeX tutorial and I simply disabled it.  Now when
> I run gnuplot, every time it tries to plot, Aqua Term opens but a
> window never opens and a plot is never displayed.  I finally get an
> error that says:
>
> 2005-11-26 09:00:16.828 gnuplot[2941] *** Uncaught exception:
> <NSInvalidReceivePortException> connection went invalid while waiting
> for a reply
> Trace/BPT trap

Just FYI, this has been resolved off-list as Jeremy contacted me  
directly too.

In case the problem pops up again, here is an explanation and solution:

The problem was caused by having two versions a AquaTerm/libaquaterm  
installed in different places, one installed by a package-manager  
(Fink) and the other by the official installer from  
aquaterm.sourceforge.net.

The Fink version of libaquaterm got picked up by gnuplot's configure  
since Fink adds itself at the beginning of the path, which is not a  
problem in itself, but the env var AQUATERM_APP was used to  
explicitly select *the other* installment of AquaTerm at runtime.

The solution is to either 1) unset AQUATERM_APP and go with the Fink  
version, or 2) remove/hide Fink's version of libaquaterm from configure.

/Per

Re: Question: intent of "set datafile binary"?

[Petr M. <mi...@ph...>]

> So far as I can tell, the command
>    set datafile binary
> does not accomplish anything at all.
>
> I had assumed it was intended to make subsequent input default
> to binary, but perhaps not.
>
> That is, I expected the two following sequences would produce
> the same result.  But they don't.  The second sequence tries
> to read the input as ascii.
>
> # All in-line
> plot 'foo' binary with image
>
> # Set defaults
> set datafile binary
> plot 'foo' with image

I think the command "set datafile binary" should not switch to binary 
reading because there is no an opposite switch like "plot 'bla' ascii".

I think it should behave this way:
gnuplot> set datafile binary
 			     ^
 			option expected


BTW: "show datafile binary" says
   "int64" (8) -- processor does not support this size
   "uint64" (8) -- processor does not support this size
but I think they are supported as "long long int" on i386.

---
PM

Question: intent of "set datafile binary"?

[Ethan A M. <merritt@u.washington.edu>]

So far as I can tell, the command
    set datafile binary
does not accomplish anything at all.

I had assumed it was intended to make subsequent input default
to binary, but perhaps not.

That is, I expected the two following sequences would produce
the same result.  But they don't.  The second sequence tries
to read the input as ascii.

# All in-line
plot 'foo' binary with image

# Set defaults
set datafile binary
plot 'foo' with image


-- 
Ethan A Merritt
Biomolecular Structure Center
University of Washington, Seattle 98195-7742

Error using Aqua Term with gnuplot 4.1

[Jeremy C. <jer...@gm...>]

I have an Apple PowerBook running OS 10.4.  I just installed gnuplot
version 4.1 because I need to plot errorbars with histeps.  I only had
one problem with the installation but was able to get around it.  The
problem was in the LaTeX tutorial and I simply disabled it.  Now when
I run gnuplot, every time it tries to plot, Aqua Term opens but a
window never opens and a plot is never displayed.  I finally get an
error that says:

2005-11-26 09:00:16.828 gnuplot[2941] *** Uncaught exception:
<NSInvalidReceivePortException> connection went invalid while waiting
for a reply
Trace/BPT trap

Can anyone help me with this?  What do I need to do to get this to work?
Thanks,
Jeremy

ps.  Please forgive if this gets posted twice.

Re: Recent patch in handling of \' broke latex terms

[Ethan A M. <merritt@u.washington.edu>]

On Friday 25 November 2005 07:28 pm, Ethan A Merritt wrote:
> I am now getting build errors from the latex tutorial
> subdirectory:

Never mind.  It's due to something else.
Sorry for the noise.

	Ethan


>
> Making all in tutorial
> make[2]: Entering directory `/home/merritt/cvs/gnuplot-cvs/tutorial'
>
> set xtics ('$-\pi$' -pi, '$-\frac{\pi}{2}$' -pi/2, "0" 0,
> '$\frac{\pi}{2}$' pi/2, '$\pi$' pi)
>                                                ^
> "eg5.plt", line 14: invalid expression
>
> make[2]: *** [eg5.tex] Error 1
>
>
>
> I suspect the culprit is this patch:
>
> 2005-11-24  Juergen Wieferink  <wie...@fr...>
>         * src/util.c (parse_sq) src/scanner.c (scanner)
> docs/gnuplot.doc: Fixed \' in single-quoted strings.
>
> I'm not entirely certain, however.  In any event it broke very recently.

-- 
Ethan A Merritt
Biomolecular Structure Center
University of Washington, Seattle 98195-7742

Recent patch in handling of \' broke latex terms

[Ethan A M. <merritt@u.washington.edu>]

I am now getting error build errors from the latex tutorial
subdirectory:

Making all in tutorial
make[2]: Entering directory `/home/merritt/cvs/gnuplot-cvs/tutorial'

set xtics ('$-\pi$' -pi, '$-\frac{\pi}{2}$' -pi/2, "0" 0, '$\frac{\pi}{2}$' 
pi/2, '$\pi$' pi)
                                               ^
"eg5.plt", line 14: invalid expression

make[2]: *** [eg5.tex] Error 1



I suspect the culprit is this patch:

2005-11-24  Juergen Wieferink  <wie...@fr...>
        * src/util.c (parse_sq) src/scanner.c (scanner) docs/gnuplot.doc:
        Fixed \' in single-quoted strings.

I'm not entirely certain, however.  In any event it broke very recently.

-- 
Ethan A Merritt
Biomolecular Structure Center
University of Washington, Seattle 98195-7742

Re: last modified date in CVS

[Petr M. <mi...@ph...>]

>> $ ident `which gnuplot`
>> /usr/local/bin/gnuplot:
>>     $Header: /cvsroot/gnuplot/gnuplot/term/tgif.trm,v 1.36 2005/08/07 
>> 09:43:34 mikulik Exp $
>
> This looks to be a string printed in every output file of "set term tgif". 
> This message makes no sense there.
>
> I propose it is replaced by the same message which appears in postscript 
> files: fprintf(...,
>  "Creator: gnuplot %s patchlevel %s\n", gnuplot_version, gnuplot_patchlevel)

OK, I've changed that in cvs.

---
PM

Re: pm3d question

[Petr M. <mi...@ph...>]

> As I said to Ethan before: if you you want to hide non-polygon stuff, 
> hidden3d is the way to do it.

I think that even the "depth" z-ordering approach would be useful, and fast.

---
Petr

Re: pm3d question

[V. <gae...@no...>]

> >Do we really want (need) a full virtual reality engine in gnuplot?

> It doesn't have to be a VR engine (no interaction or real-time=20
> efficiency strictly needed), but yes, to resolve the problems inherent=20
> in the naive approach to 3D sorting currently being discussed for pm3d=20
> here, it would need to be quite a complete 3D engine.

    Well, actually I had a close look at the 3D rendering code of
Gnuplot, and there is a certain amount of reorganising to be done,
especially moving the projection to separate function. I was planning to
try to do this but I am currently overwelmed with work, and it is likely
to go on. As far as rendering engines, I was thinking of povray and
opengl as rendering terminals.

--=20
    Ga=EBl

Re: pm3d question

[Hans-Bernhard B. <br...@ph...>]

Petr Mikulik wrote:

>>> enabling HIDDEN3D_QUADTREE.
[...]
> Unfortunately it is a compile-time switch.
> If it works, and gives good results, then make it as default.

I will.

>> The only real alternative would be to a full-featured, 
>> object-precision 3D rendering engine to replace both pm3d (polygons) 
>> and hidden3d (wireframe) output.  Such a beast would probably be even 
>> slower than hidden3d already is.

> Do we really want (need) a full virtual reality engine in gnuplot?

It doesn't have to be a VR engine (no interaction or real-time 
efficiency strictly needed), but yes, to resolve the problems inherent 
in the naive approach to 3D sorting currently being discussed for pm3d 
here, it would need to be quite a complete 3D engine.  Worse yet, I 
don't think any such renderer exists yet --- pretty much nothing out 
there is done in object precision (i.e. returns results in terms of real 
drawable objects, not just coloured screen pixels), these days.

Whether we *want* such a beast inside gnuplot, is the tricky question. 
Sorting pm3d polygons as if they're points will create nasty artifacts, 
and they'll be far from rare.

As I said to Ethan before: if you you want to hide non-polygon stuff, 
hidden3d is the way to do it.

Re: [ gnuplot-Patches-1356114 ] set term post size <foo>in,<baz>in (also cm)

[Hans-Bernhard B. <br...@ph...>]

Petr Mikulik wrote:
> What about embedding all these new commands into a single "set" command, 
> e.g.
> 
> set allterms resolution 300
> set allterms size 5, 7
> 
> so that when setting a new terminal afterwards, such as "set term png", 
> it would take the above values as default.

No need for a new command --- 'set termoption' already exists.

Re: [ gnuplot-Patches-1356114 ] set term post size <foo>in,<baz>in (also cm)

[Petr M. <mi...@ph...>]

What about embedding all these new commands into a single "set" command, 
e.g.

set allterms resolution 300
set allterms size 5, 7

so that when setting a new terminal afterwards, such as "set term png", it 
would take the above values as default.

---
PM

Re: pm3d.dem "color lines: 'splot sin(y)/(y) with linespoints palette'"

[Petr M. <mi...@ph...>]

> In the pm3d.dem example "color lines: 'splot sin(y)/(y) with linespoints 
> palette'" are the points as well as the lines supposed to be hidden?  In 
> general, the points appear to be hidden, but when zooming about sometimes I 
> see the points come through.

I think it would be sufficent there to plot "with lines" only.

---
PM

Re: last modified date in CVS

[Petr M. <mi...@ph...>]

> I think this (and "strings `which gnuplot` |grep '$Id:'") only works
> with executables built without optimisation.
>
> $ ident `which gnuplot`
> /usr/local/bin/gnuplot:
>     $Header: /cvsroot/gnuplot/gnuplot/term/tgif.trm,v 1.36 2005/08/07 09:43:34 mikulik Exp $

This looks to be a string printed in every output file of "set term tgif". 
This message makes no sense there.

I propose it is replaced by the same message which appears in postscript 
files: 
fprintf(...,
   "Creator: gnuplot %s patchlevel %s\n", gnuplot_version, gnuplot_patchlevel)

---
PM

Re: pm3d question

[Petr M. <mi...@ph...>]

>> Do we really want (need) a full virtual reality engine in gnuplot?
>
> What I want is the ability to mix surfaces, vectors, and labels in a single plot.
> I have not found an exact example yet, but maybe these give an idea of
> the desired output:
>
> http://www-space.eps.s.u-tokyo.ac.jp/~yokoyama/pub/gcn3d/
>
> For this purpose I really am not worried about artifacts due to
> multiple overlapping surfaces or pathological topologies.  I just want
> to hide the vectors and labels that are behind a colored surface while
> showing the ones in front.

I see. I like this "simple depth" approach you are implementing.

---
PM

Re: pm3d question

[Ethan M. <merritt@u.washington.edu>]

> 
> > The only real alternative would be to a full-featured, object-precision 3D 
> > rendering engine to replace both pm3d (polygons) and hidden3d (wireframe) 
> > output.  Such a beast would probably be even slower than hidden3d already is.
> 
> Do we really want (need) a full virtual reality engine in gnuplot?

What I want is the ability to mix surfaces, vectors, and labels in a single plot.
I have not found an exact example yet, but maybe these give an idea of
the desired output:

http://www-space.eps.s.u-tokyo.ac.jp/~yokoyama/pub/gcn3d/
http://www.astro.ku.dk/~rmidjord/ComputerPhysics/Project2/3Drendering.jpg
http://www.astro.phys.s.chiba-u.ac.jp/~matumoto/r-matsumoto.cdrom/d143bt68db.gif


For this purpose I really am not worried about artifacts due to
multiple overlapping surfaces or pathological topologies.  I just want
to hide the vectors and labels that are behind a colored surface while
showing the ones in front.



-- 
Ethan A Merritt       merritt@u.washington.edu
Biomolecular Structure Center
Mailstop 357742
University of Washington, Seattle, WA 98195

Re: last modified date in CVS

[Petr M. <mi...@ph...>]

>> Harald Harders wrote:
>>> grep '/ChangeLog/' CVS/Entries  | sed 's_/ChangeLog/[0-9.]*/\(.*\)//_\1_'
>>>
>>> during compiling or by ./configure or ./prepare.
>>
>> Please keep in mind that not all developers are on Unix ...
>
> Oh yes, I sometimes forget this. How do these people work?

Those people install such utilities from cygwin, mingw or gnuwin32 projects.


I propose that
      ./configure
gets the date from ChangeLong, and #defines it in config.h as
GNUPLOT_LAST_MODIFIED. Then the printing code of "show version" uses

#ifdef GNUPLOT_LAST_MODIFIED
   fprintf last modified GNUPLOT_LAST_MODIFIED
#endif

For non-./configure platforms, makefile.os2, .cyg and .mgw can be updated to 
gather the date from ChangeLog as on ./configure. Others won't see the 
message.

---
PM

Re: pm3d question

[Petr M. <mi...@ph...>]

>> OK. Yes, I see the same difference in speed with isosamples set to 40. 
>> Although you can get a factor of roughly 4X back again by enabling 
>> HIDDEN3D_QUADTREE.
>
> At high isosamples settings, you should absolutely use that switch.
> I've even been thinking about enabling it by default.

Unfortunately it is a compile-time switch.
If it works, and gives good results, then make it as default.

> The only real alternative would be to a full-featured, object-precision 3D 
> rendering engine to replace both pm3d (polygons) and hidden3d (wireframe) 
> output.  Such a beast would probably be even slower than hidden3d already is.

Do we really want (need) a full virtual reality engine in gnuplot?

---
PM

Re: Cannot change to 'C:\' (root) on Windows

[Petr M. <mi...@ph...>]

> just right after sending my last post another idea came into my mind:
> Wouldn't it be valid in general to replace a  single "\" with a double
> "\\" in a path (the "Select Folder" dialog returns)?
> So e.g. 'D:\' would become 'D:\\' and e.g. 'C:\MyDir\MyOtherDir' would
> become 'C:\\MyDir\\MyOtherDir'. This would make the replacement a lot
> easier (just replace all single backslashes with double ones), is valid
> and works (I've just tried it).
>
> It would be even compatible to *nix since there no backslash appears in
> a path (or does it?). Thus the replacement would replace "nothing"... ;-)
>
> Maybe it's worth considering this...?! What do you think?

If it is a bug, and you have figured out the solution as indicated above, 
please send us an appropriate patch.

---
PM

Re: last modified date in CVS

[Lars H. <lhe...@us...>]

> Optimization should have little to do with it --- I never build without 
> optimization, and ident always worked just fine.
> 
> Our source files go quite a bit out of their way to make sure those 
> ident strings are hard to optimize out, as a side effect of making them 
> acceptable to picky compilers.  Well, at least I don't think I've seen 
> any optimizer yet that dared strip those things.
 
 Argh, you're right - my meta-configure script uses -Dlint ...