Re: [sage-devel] Error building the documentation with 8.8.beta5

[David Coudert]

Working ! Thank you. 
D.

> you need to install full JDK, not just JRE, if you need java/javac. 
>
>

-- 
You received this message because you are subscribed to the Google Groups 
"sage-devel" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-devel+unsubscr...@googlegroups.com.
To view this discussion on the web visit 
https://groups.google.com/d/msgid/sage-devel/3172c624-962f-4ae8-861b-119e339f4d55%40googlegroups.com.

Re: [sage-devel] Error building the documentation with 8.8.beta5

[Dima Pasechnik]

On Sat, Jul 20, 2019 at 9:20 PM David Coudert  wrote:
>
> I had to fully reinstall my laptop (with reformat). So I updated my system to 
> OSX Mojave, installed last Xcode, command tools, etc., and made a fresh 
> install of 8.9.beta3, but I still have the same issue :(
>
> I have installed Java 8 update 221 (last version)
>
> But when I try:
>
> MacBook-Air-de-David:sage dcoudert$ java --version
>
> No Java runtime present, requesting install.

you need to install full JDK, not just JRE, if you need java/javac.

HTH
Dima
>
> MacBook-Air-de-David:sage dcoudert$ javac --version
>
> No Java runtime present, requesting install.
>
>
> There is something wrong here, but what ?
> Also, I don't understand why this problem appears only with 8.8.beta5...
>
> Thanks for your help.
> David.
>
> Le mercredi 22 mai 2019 11:45:42 UTC-4, David Coudert a écrit :
>>
>> Let us know if you find a way to fix that. All my attempts failed (make 
>> doc-clean, dist-clean)
>> David.
>>
>> Le mardi 21 mai 2019 10:35:38 UTC+2, Nicolas M. Thiéry a écrit :
>>>
>>>
>>> Just for the record: same error here on Balthazar's laptop, sage
>>> 8.8.beta5, fresh Ubuntu 18.04.
>>>
>>> Cheers,
>>> Nicolas
>
> --
> You received this message because you are subscribed to the Google Groups 
> "sage-devel" group.
> To unsubscribe from this group and stop receiving emails from it, send an 
> email to sage-devel+unsubscr...@googlegroups.com.
> To view this discussion on the web visit 
> https://groups.google.com/d/msgid/sage-devel/4ee2e6e2-7946-43f1-a94d-ddb6f7d4ca77%40googlegroups.com.

-- 
You received this message because you are subscribed to the Google Groups 
"sage-devel" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-devel+unsubscr...@googlegroups.com.
To view this discussion on the web visit 
https://groups.google.com/d/msgid/sage-devel/CAAWYfq2GnYA44U-DUfDf61BWTbjP34wYmuqHd8X1oKUSTFy5Uw%40mail.gmail.com.

Re: [sage-devel] Error building the documentation with 8.8.beta5

[David Coudert]

I had to fully reinstall my laptop (with reformat). So I updated my system 
to OSX Mojave, installed last Xcode, command tools, etc., and made a fresh 
install of 8.9.beta3, but I still have the same issue :(

I have installed Java 8 update 221 (last version)

But when I try:

MacBook-Air-de-David:sage dcoudert$ java --version

No Java runtime present, requesting install.

MacBook-Air-de-David:sage dcoudert$ javac --version

No Java runtime present, requesting install.

There is something wrong here, but what ?
Also, I don't understand why this problem appears only with 8.8.beta5...

Thanks for your help.
David.

Le mercredi 22 mai 2019 11:45:42 UTC-4, David Coudert a écrit :
>
> Let us know if you find a way to fix that. All my attempts failed (make 
> doc-clean, dist-clean)
> David.
>
> Le mardi 21 mai 2019 10:35:38 UTC+2, Nicolas M. Thiéry a écrit :
>>
>>
>> Just for the record: same error here on Balthazar's laptop, sage 
>> 8.8.beta5, fresh Ubuntu 18.04. 
>>
>> Cheers, 
>> Nicolas 
>>
>

-- 
You received this message because you are subscribed to the Google Groups 
"sage-devel" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-devel+unsubscr...@googlegroups.com.
To view this discussion on the web visit 
https://groups.google.com/d/msgid/sage-devel/4ee2e6e2-7946-43f1-a94d-ddb6f7d4ca77%40googlegroups.com.

Re: [sage-devel] Error building the documentation with 8.8.beta5

[David Coudert]

Let us know if you find a way to fix that. All my attempts failed (make 
doc-clean, dist-clean)
David.

Le mardi 21 mai 2019 10:35:38 UTC+2, Nicolas M. Thiéry a écrit :
>
>
> Just for the record: same error here on Balthazar's laptop, sage 
> 8.8.beta5, fresh Ubuntu 18.04. 
>
> Cheers, 
> Nicolas 
>

-- 
You received this message because you are subscribed to the Google Groups 
"sage-devel" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-devel+unsubscr...@googlegroups.com.
To post to this group, send email to sage-devel@googlegroups.com.
Visit this group at https://groups.google.com/group/sage-devel.
To view this discussion on the web visit 
https://groups.google.com/d/msgid/sage-devel/49ab55c5-76aa-4af3-9df6-716d3853106c%40googlegroups.com.
For more options, visit https://groups.google.com/d/optout.

Re: [sage-devel] Error building the documentation with 8.8.beta5

[Nicolas M. Thiery]

Just for the record: same error here on Balthazar's laptop, sage
8.8.beta5, fresh Ubuntu 18.04.

Cheers,
Nicolas

On Mon, May 13, 2019 at 09:22:00AM -0700, David Coudert wrote:
> I already had issues building the doc with 8.8.beta4, so after upgrading to 
> 8.8.beta5, I did make doc-clean but it's not enough.
> 
> Attached is the log file.
> 
> I have not tried a dist-clean, and I hope I can avoid it...
> 
> Best,
> David.
> 
> -- 
> You received this message because you are subscribed to the Google Groups 
> "sage-devel" group.
> To unsubscribe from this group and stop receiving emails from it, send an 
> email to sage-devel+unsubscr...@googlegroups.com.
> To post to this group, send email to sage-devel@googlegroups.com.
> Visit this group at https://groups.google.com/group/sage-devel.
> To view this discussion on the web visit 
> https://groups.google.com/d/msgid/sage-devel/8c8d0f24-77cc-4d1f-99b0-59b4a53b2779%40googlegroups.com.
> For more options, visit https://groups.google.com/d/optout.

> 
> Building reference manual, first pass.
> 
> [manifolds] chargement de l'environnement sérialisé...fait
> [manifolds] building [inventory]: targets for 63 source files that are out of 
> date
> [manifolds] updating environment: 63 added, 0 changed, 0 removed
> [manifolds] 
> /Users/dcoudert/sage/src/sage_setup/docbuild/ext/sage_autodoc.py:1170: 
> RemovedInSphinx20Warning: formatargspec() is now deprecated.  Please use 
> sphinx.util.inspect.Signature instead.
> [manifolds]   return formatargspec(initmeth, *argspec)
> [manifolds] 
> /Users/dcoudert/sage/src/sage_setup/docbuild/ext/sage_autodoc.py:1406: 
> RemovedInSphinx20Warning: formatargspec() is now deprecated.  Please use 
> sphinx.util.inspect.Signature instead.
> [manifolds]   args = formatargspec(self.object, *argspec)
> [manifolds] 
> /Users/dcoudert/sage/src/sage_setup/docbuild/ext/sage_autodoc.py:1072: 
> RemovedInSphinx20Warning: formatargspec() is now deprecated.  Please use 
> sphinx.util.inspect.Signature instead.
> [manifolds]   args = formatargspec(self.object, *argspec)
> [manifolds] 
> /Users/dcoudert/sage/local/lib/python2.7/site-packages/sage/manifolds/differentiable/integrated_curve.py:docstring
>  of 
> sage.manifolds.differentiable.integrated_curve.IntegratedAutoparallelCurve:309:
>  WARNING: Exception occurred in plotting integrated_curve-3
> [manifolds]  from 
> /Users/dcoudert/sage/src/doc/en/reference/manifolds/sage/manifolds/differentiable/integrated_curve.rst:
> [manifolds] Traceback (most recent call last):
> [manifolds]   File 
> "/Users/dcoudert/sage/local/lib/python2.7/site-packages/matplotlib/sphinxext/plot_directive.py",
>  line 524, in run_code
> [manifolds] six.exec_(code, ns)
> [manifolds]   File 
> "/Users/dcoudert/sage/local/lib/python2.7/site-packages/six.py", line 709, in 
> exec_
> [manifolds] exec("""exec _code_ in _globs_, _locs_""")
> [manifolds]   File "", line 1, in 
> [manifolds]   File "", line 34, in 
> [manifolds]   File "", line 68, in sphinx_plot
> [manifolds]   File "sage/plot/plot3d/base.pyx", line 1621, in 
> sage.plot.plot3d.base.Graphics3d.save 
> (build/cythonized/sage/plot/plot3d/base.c:20977)
> [manifolds] self.save_image(filename, **kwds)
> [manifolds]   File "sage/plot/plot3d/base.pyx", line 1550, in 
> sage.plot.plot3d.base.Graphics3d.save_image 
> (build/cythonized/sage/plot/plot3d/base.c:20535)
> [manifolds] self._save_image_png(filename, **kwds)
> [manifolds]   File "sage/plot/plot3d/base.pyx", line 1512, in 
> sage.plot.plot3d.base.Graphics3d._save_image_png 
> (build/cythonized/sage/plot/plot3d/base.c:20172)
> [manifolds] scene = self._rich_repr_jmol(**opts)
> [manifolds]   File "sage/plot/plot3d/base.pyx", line 264, in 
> sage.plot.plot3d.base.Graphics3d._rich_repr_jmol 
> (build/cythonized/sage/plot/plot3d/base.c:7182)
> [manifolds] tachyon = self._rich_repr_tachyon(OutputImagePng, **opts)
> [manifolds]   File "sage/plot/plot3d/base.pyx", line 208, in 
> sage.plot.plot3d.base.Graphics3d._rich_repr_tachyon 
> (build/cythonized/sage/plot/plot3d/base.c:6180)
> [manifolds] tachyon_rt(T.tachyon(), filename, opts['verbosity'],
> [manifolds]   File 
> "/Users/dcoudert/sage/local/lib/python2.7/site-packages/sage/interfaces/tachyon.py",
>  line 162, in __call__
> [manifolds] raise RuntimeError(out)
> [manifolds] RuntimeError: Tachyon Parallel/Multiprocessor Ray Tracer   
> Version 0.98.9
> [manifolds] Copyright 1994-2010,John E. Stone 
> [manifolds] 
> [manifolds] Parse Error:
> [manifolds]Encountered a syntax error in file 
> /Users/dcoudert/.sage/temp/confetti.inria.fr/82937/tmp_feQXWm.dat
> [manifolds]Expected to find V1
> [manifolds]Actually found: ,61208
> [manifolds]Error occured at or prior to file offset 11659, line 368
> [manifolds]Error position is only approximate, but should be close
> [manifolds] Parse Error:
> [manifolds]Encountered a syntax 

Re: [sage-devel] Error building the documentation with 8.8.beta5

[David Coudert]

And what can I do to fix that ?
Until recently I was able to build the doc and I have not touched 
environment variables by myself.

In case, I tested some instructions from 
https://ask.sagemath.org/question/39422/sage-on-mac-unable-to-use-plot3d-due-to-javajmol-issues/


sage: import subprocess
sage: print subprocess.check_output(['java', '-version'], 
stderr=subprocess.STDOUT)
java version "1.6.0_65"
Java(TM) SE Runtime Environment (build 1.6.0_65-b14-466.1-11M4716)
Java HotSpot(TM) 64-Bit Server VM (build 20.65-b04-466.1, mixed mode)

sage: from sage.interfaces.jmoldata import JmolData
sage: jdata = JmolData()
sage: jdata.is_jvm_available()
False



Le lundi 13 mai 2019 21:30:22 UTC+2, François Bissey a écrit :
>
> It looks like you are using tachyon instead of jmol for rendering some 
> 3D plots. I think that's what is causing the issues. Your jmol install 
> may be broken and tachyon is used as the fallback. 
>

-- 
You received this message because you are subscribed to the Google Groups 
"sage-devel" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-devel+unsubscr...@googlegroups.com.
To post to this group, send email to sage-devel@googlegroups.com.
Visit this group at https://groups.google.com/group/sage-devel.
To view this discussion on the web visit 
https://groups.google.com/d/msgid/sage-devel/bf0d14f0-f25b-48a8-8497-e555ef01e745%40googlegroups.com.
For more options, visit https://groups.google.com/d/optout.

Re: [sage-devel] Error building the documentation with 8.8.beta5

[François Bissey]

It looks like you are using tachyon instead of jmol for rendering some 
3D plots. I think that's what is causing the issues. Your jmol install 
may be broken and tachyon is used as the fallback.


Francois

On 14/05/19 4:22 am, David Coudert wrote:
I already had issues building the doc with 8.8.beta4, so after upgrading 
to 8.8.beta5, I did make doc-clean but it's not enough.


Attached is the log file.

I have not tried a dist-clean, and I hope I can avoid it...

Best,
David.

--
You received this message because you are subscribed to the Google 
Groups "sage-devel" group.
To unsubscribe from this group and stop receiving emails from it, send 
an email to sage-devel+unsubscr...@googlegroups.com 
.
To post to this group, send email to sage-devel@googlegroups.com 
.

Visit this group at https://groups.google.com/group/sage-devel.
To view this discussion on the web visit 
https://groups.google.com/d/msgid/sage-devel/8c8d0f24-77cc-4d1f-99b0-59b4a53b2779%40googlegroups.com 
.

For more options, visit https://groups.google.com/d/optout.


--
You received this message because you are subscribed to the Google Groups 
"sage-devel" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-devel+unsubscr...@googlegroups.com.
To post to this group, send email to sage-devel@googlegroups.com.
Visit this group at https://groups.google.com/group/sage-devel.
To view this discussion on the web visit 
https://groups.google.com/d/msgid/sage-devel/40b2bc32-9705-2df5-3982-788c6f109862%40gmail.com.
For more options, visit https://groups.google.com/d/optout.

[sage-devel] Error building the documentation with 8.8.beta5

[David Coudert]

I already had issues building the doc with 8.8.beta4, so after upgrading to 
8.8.beta5, I did make doc-clean but it's not enough.

Attached is the log file.

I have not tried a dist-clean, and I hope I can avoid it...

Best,
David.

-- 
You received this message because you are subscribed to the Google Groups 
"sage-devel" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to sage-devel+unsubscr...@googlegroups.com.
To post to this group, send email to sage-devel@googlegroups.com.
Visit this group at https://groups.google.com/group/sage-devel.
To view this discussion on the web visit 
https://groups.google.com/d/msgid/sage-devel/8c8d0f24-77cc-4d1f-99b0-59b4a53b2779%40googlegroups.com.
For more options, visit https://groups.google.com/d/optout.

Building reference manual, first pass.

[manifolds] chargement de l'environnement sérialisé...fait
[manifolds] building [inventory]: targets for 63 source files that are out of 
date
[manifolds] updating environment: 63 added, 0 changed, 0 removed
[manifolds] 
/Users/dcoudert/sage/src/sage_setup/docbuild/ext/sage_autodoc.py:1170: 
RemovedInSphinx20Warning: formatargspec() is now deprecated.  Please use 
sphinx.util.inspect.Signature instead.
[manifolds]   return formatargspec(initmeth, *argspec)
[manifolds] 
/Users/dcoudert/sage/src/sage_setup/docbuild/ext/sage_autodoc.py:1406: 
RemovedInSphinx20Warning: formatargspec() is now deprecated.  Please use 
sphinx.util.inspect.Signature instead.
[manifolds]   args = formatargspec(self.object, *argspec)
[manifolds] 
/Users/dcoudert/sage/src/sage_setup/docbuild/ext/sage_autodoc.py:1072: 
RemovedInSphinx20Warning: formatargspec() is now deprecated.  Please use 
sphinx.util.inspect.Signature instead.
[manifolds]   args = formatargspec(self.object, *argspec)
[manifolds] 
/Users/dcoudert/sage/local/lib/python2.7/site-packages/sage/manifolds/differentiable/integrated_curve.py:docstring
 of 
sage.manifolds.differentiable.integrated_curve.IntegratedAutoparallelCurve:309: 
WARNING: Exception occurred in plotting integrated_curve-3
[manifolds]  from 
/Users/dcoudert/sage/src/doc/en/reference/manifolds/sage/manifolds/differentiable/integrated_curve.rst:
[manifolds] Traceback (most recent call last):
[manifolds]   File 
"/Users/dcoudert/sage/local/lib/python2.7/site-packages/matplotlib/sphinxext/plot_directive.py",
 line 524, in run_code
[manifolds] six.exec_(code, ns)
[manifolds]   File 
"/Users/dcoudert/sage/local/lib/python2.7/site-packages/six.py", line 709, in 
exec_
[manifolds] exec("""exec _code_ in _globs_, _locs_""")
[manifolds]   File "", line 1, in 
[manifolds]   File "", line 34, in 
[manifolds]   File "", line 68, in sphinx_plot
[manifolds]   File "sage/plot/plot3d/base.pyx", line 1621, in 
sage.plot.plot3d.base.Graphics3d.save 
(build/cythonized/sage/plot/plot3d/base.c:20977)
[manifolds] self.save_image(filename, **kwds)
[manifolds]   File "sage/plot/plot3d/base.pyx", line 1550, in 
sage.plot.plot3d.base.Graphics3d.save_image 
(build/cythonized/sage/plot/plot3d/base.c:20535)
[manifolds] self._save_image_png(filename, **kwds)
[manifolds]   File "sage/plot/plot3d/base.pyx", line 1512, in 
sage.plot.plot3d.base.Graphics3d._save_image_png 
(build/cythonized/sage/plot/plot3d/base.c:20172)
[manifolds] scene = self._rich_repr_jmol(**opts)
[manifolds]   File "sage/plot/plot3d/base.pyx", line 264, in 
sage.plot.plot3d.base.Graphics3d._rich_repr_jmol 
(build/cythonized/sage/plot/plot3d/base.c:7182)
[manifolds] tachyon = self._rich_repr_tachyon(OutputImagePng, **opts)
[manifolds]   File "sage/plot/plot3d/base.pyx", line 208, in 
sage.plot.plot3d.base.Graphics3d._rich_repr_tachyon 
(build/cythonized/sage/plot/plot3d/base.c:6180)
[manifolds] tachyon_rt(T.tachyon(), filename, opts['verbosity'],
[manifolds]   File 
"/Users/dcoudert/sage/local/lib/python2.7/site-packages/sage/interfaces/tachyon.py",
 line 162, in __call__
[manifolds] raise RuntimeError(out)
[manifolds] RuntimeError: Tachyon Parallel/Multiprocessor Ray Tracer   Version 
0.98.9
[manifolds] Copyright 1994-2010,John E. Stone 
[manifolds] 
[manifolds] Parse Error:
[manifolds]Encountered a syntax error in file 
/Users/dcoudert/.sage/temp/confetti.inria.fr/82937/tmp_feQXWm.dat
[manifolds]Expected to find V1
[manifolds]Actually found: ,61208
[manifolds]Error occured at or prior to file offset 11659, line 368
[manifolds]Error position is only approximate, but should be close
[manifolds] Parse Error:
[manifolds]Encountered a syntax error in file 
/Users/dcoudert/.sage/temp/confetti.inria.fr/82937/tmp_feQXWm.dat
[manifolds]Expected to find V2
[manifolds]Actually found: ,412589
[manifolds]Error occured at or prior to file offset 11669, line 368
[manifolds]Error position is only approximate, but should be close
[manifolds] Undefined texture ',716998', using default.
[manifolds] Parser failed due to an input file