Re: [sage-release] Re: Sage 7.5.beta4 released

[Justin C. Walker]

On Nov 29, 2016, at 23:23 , Sébastien Labbé wrote:

> On OSX 10.10.2, I get two errors with make ptestlong (only the one with 
> singular.py reappears on a rerun) :

The singular issue has appeared before, and is supposedly fixed by #21865 (the 
latest release of Singular).  The one in trace.py I have not seen, and don't 
recall seeing.

Justin

--
Justin C. Walker, Curmudgeon-At-Large
Institute for the Absorption of Federal Funds

Men are from Earth.
Women are from Earth.
   Deal with it.




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Re: [sage-release] Re: Sage 7.5.beta4 released

[William Stein]

There is really no good way to deal with this besides proper OS packages or
rebuild sage from source when you do nontrivial system upgrades.

On Sat, Nov 26, 2016 at 11:27 AM Francois Bissey <
francois.bis...@canterbury.ac.nz> wrote:

> libvpx has stung before. When we upgraded linbox I made sure
> it wouldn’t be linked to openCL for sage binaries but made no
> provisions for regular builds.
> In a way with Gentoo or arch (and SuSE tumbleweed and…) we are
> in a unusual position compared to standard distro. Most binary
> distros with releases that are not rolling will stick with
> a version of the library unless forced to change.
> So for them the problem is only when they upgrade to a new release.
> For rolling release distro the problem is whenever.
>
> sage itself cannot really deal very well with the problem, especially
> when it relies on some components of the base system. Unless you
> go all gentoo-prefix style (and even then I am sure sometimes the base
> system creeps in).
>
> François
>
> > On 27/11/2016, at 08:11, Steven Trogdon 
> wrote:
> >
> > So how is this sort of thing to be dealt with, in general, under Sage?
> For example looking at files just under local/lib I see the following libs
> that are linked to system libs which presumably would require a rebuild if
> system libs were changed
> >
> > local/lib/libgd.so
> > libvpx.so.3 => /usr/lib64/libvpx.so.3 (0x7f7e40c3b000)
> > libtiff.so.5 => /usr/lib64/libtiff.so.5 (0x7f7e406cb000)
> > libjpeg.so.62 => /usr/lib64/libjpeg.so.62 (0x7f7e3fc95000)
> > local/lib/libzmq.so
> > libsodium.so.18 => /usr/lib64/libsodium.so.18
> (0x7f3584ad9000)
> > local/lib/liblinbox.so
> > libOpenCL.so.1 => /usr/lib64/libOpenCL.so.1 (0x7fd68e402000)
> > local/lib/liblinboxsage.so
> > libOpenCL.so.1 => /usr/lib64/libOpenCL.so.1 (0x7f38cfceb000)
> >
> > There are lots more of these if local/lib/python2.7 and local/lib/R were
> searched.
> >
> > On Saturday, November 26, 2016 at 12:54:05 AM UTC-6, François wrote:
> > After inspection there is a configure switch. It is always on
> > in Gentoo. We could configure zeromq in sage to never depend
> > on it. Ticket time?
> >
> > François
> >
> > > On 26/11/2016, at 19:49, Francois Bissey 
> wrote:
> > >
> > > I am guessing it is picked up automagically by zeromq.
> > > Sage doesn’t provide it, it was detected from your system.
> > > I’ll look into it.
> > >
> > > François
> > >
> > >> On 26/11/2016, at 19:46, Steven Trogdon  wrote:
> > >>
> > >> OK, after looking at the logs beta3 was built on 11/17. libsodium was
> upgraded from libsodium.so.13 to libsodium.so.18 on 11/18. So there has
> been a system update between the build of beta3 and beta4. The question is
> 'is libsodium.so.18' really needed?
> > >>
> > >> On Saturday, November 26, 2016 at 12:31:04 AM UTC-6, François wrote:
> > >> libsodium is not a sage package so it comes from Gentoo.
> > >> libsodium.so.13 was provided by libsodium-1.0.2.
> > >> All the other libsodium available in Gentoo provide
> > >> libsodium.so.18.
> > >> Would you have by chance been doing an upgrade rather
> > >> than a build of sage from scratch - and upgraded
> > >> libsodium just before the upgrade?
> > >>
> > >> François
> > >>
> > >>> On 26/11/2016, at 18:46, Steven Trogdon 
> wrote:
> > >>>
> > >>> Fails here on Gentoo when building the docs:
> > >>>
> > >>> [dochtml] Traceback (most recent call last):
> > >>> [dochtml]   File
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line
> 162, in _run_module_as_main
> > >>> [dochtml] "__main__", fname, loader, pkg_name)
> > >>> [dochtml]   File
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line
> 72, in _run_code
> > >>> [dochtml] exec code in run_globals
> > >>> [repl ] File
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/__init__.py",
> line 34, in 
> > >>> [repl ] from zmq import backend
> > >>> [repl ] File
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
> line 40, in 
> > >>> [repl ] reraise(*exc_info)
> > >>> [repl ] File
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
> line 27, in 
> > >>> [repl ] _ns = select_backend(first)
> > >>> [repl ] File
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/select.py",
> line 26, in select_backend
> > >>> [repl ] mod = __import__(name, fromlist=public_api)
> > >>> [repl ] File
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/cython/__init__.py",
> line 6, in 
> > >>> [repl ] from . import (constants, error, message, context,
> > >>> [repl ] ImportError: libsodium.so.13: cannot open shared object
> file: No such 

Re: [sage-release] Re: Sage 7.5.beta4 released

[Francois Bissey]

libvpx has stung before. When we upgraded linbox I made sure
it wouldn’t be linked to openCL for sage binaries but made no
provisions for regular builds.
In a way with Gentoo or arch (and SuSE tumbleweed and…) we are 
in a unusual position compared to standard distro. Most binary 
distros with releases that are not rolling will stick with
a version of the library unless forced to change.
So for them the problem is only when they upgrade to a new release.
For rolling release distro the problem is whenever.

sage itself cannot really deal very well with the problem, especially
when it relies on some components of the base system. Unless you
go all gentoo-prefix style (and even then I am sure sometimes the base
system creeps in).

François

> On 27/11/2016, at 08:11, Steven Trogdon  wrote:
> 
> So how is this sort of thing to be dealt with, in general, under Sage? For 
> example looking at files just under local/lib I see the following libs that 
> are linked to system libs which presumably would require a rebuild if system 
> libs were changed
> 
> local/lib/libgd.so
> libvpx.so.3 => /usr/lib64/libvpx.so.3 (0x7f7e40c3b000)
> libtiff.so.5 => /usr/lib64/libtiff.so.5 (0x7f7e406cb000)
> libjpeg.so.62 => /usr/lib64/libjpeg.so.62 (0x7f7e3fc95000)
> local/lib/libzmq.so
> libsodium.so.18 => /usr/lib64/libsodium.so.18 (0x7f3584ad9000)
> local/lib/liblinbox.so
> libOpenCL.so.1 => /usr/lib64/libOpenCL.so.1 (0x7fd68e402000)
> local/lib/liblinboxsage.so
> libOpenCL.so.1 => /usr/lib64/libOpenCL.so.1 (0x7f38cfceb000)
> 
> There are lots more of these if local/lib/python2.7 and local/lib/R were 
> searched.
> 
> On Saturday, November 26, 2016 at 12:54:05 AM UTC-6, François wrote:
> After inspection there is a configure switch. It is always on 
> in Gentoo. We could configure zeromq in sage to never depend 
> on it. Ticket time? 
> 
> François 
> 
> > On 26/11/2016, at 19:49, Francois Bissey  
> > wrote: 
> > 
> > I am guessing it is picked up automagically by zeromq. 
> > Sage doesn’t provide it, it was detected from your system. 
> > I’ll look into it. 
> > 
> > François 
> > 
> >> On 26/11/2016, at 19:46, Steven Trogdon  wrote: 
> >> 
> >> OK, after looking at the logs beta3 was built on 11/17. libsodium was 
> >> upgraded from libsodium.so.13 to libsodium.so.18 on 11/18. So there has 
> >> been a system update between the build of beta3 and beta4. The question is 
> >> 'is libsodium.so.18' really needed? 
> >> 
> >> On Saturday, November 26, 2016 at 12:31:04 AM UTC-6, François wrote: 
> >> libsodium is not a sage package so it comes from Gentoo. 
> >> libsodium.so.13 was provided by libsodium-1.0.2. 
> >> All the other libsodium available in Gentoo provide 
> >> libsodium.so.18. 
> >> Would you have by chance been doing an upgrade rather 
> >> than a build of sage from scratch - and upgraded 
> >> libsodium just before the upgrade? 
> >> 
> >> François 
> >> 
> >>> On 26/11/2016, at 18:46, Steven Trogdon  wrote: 
> >>> 
> >>> Fails here on Gentoo when building the docs: 
> >>> 
> >>> [dochtml] Traceback (most recent call last): 
> >>> [dochtml]   File 
> >>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> >>> 162, in _run_module_as_main 
> >>> [dochtml] "__main__", fname, loader, pkg_name) 
> >>> [dochtml]   File 
> >>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> >>> 72, in _run_code 
> >>> [dochtml] exec code in run_globals 
> >>> [repl ] File 
> >>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/__init__.py",
> >>>  line 34, in  
> >>> [repl ] from zmq import backend 
> >>> [repl ] File 
> >>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
> >>>  line 40, in  
> >>> [repl ] reraise(*exc_info) 
> >>> [repl ] File 
> >>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
> >>>  line 27, in  
> >>> [repl ] _ns = select_backend(first) 
> >>> [repl ] File 
> >>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/select.py",
> >>>  line 26, in select_backend 
> >>> [repl ] mod = __import__(name, fromlist=public_api) 
> >>> [repl ] File 
> >>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/cython/__init__.py",
> >>>  line 6, in  
> >>> [repl ] from . import (constants, error, message, context, 
> >>> [repl ] ImportError: libsodium.so.13: cannot open shared object file: 
> >>> No such file or directory 
> >>> [polynomia] reading sources... [  9%] sage/rings/fraction_field_FpT 
> >>> Error building the documentation. 
> >>> Traceback (most recent call last): 
> >>>  File 
> >>> 

Re: [sage-release] Re: Sage 7.5.beta4 released

[Steven Trogdon]

So how is this sort of thing to be dealt with, in general, under Sage? For 
example looking at files just under local/lib I see the following libs that 
are linked to system libs which presumably would require a rebuild if 
system libs were changed

local/lib/libgd.so
libvpx.so.3 => /usr/lib64/libvpx.so.3 (0x7f7e40c3b000)
libtiff.so.5 => /usr/lib64/libtiff.so.5 (0x7f7e406cb000)
libjpeg.so.62 => /usr/lib64/libjpeg.so.62 (0x7f7e3fc95000)
local/lib/libzmq.so
libsodium.so.18 => /usr/lib64/libsodium.so.18 (0x7f3584ad9000)
local/lib/liblinbox.so
libOpenCL.so.1 => /usr/lib64/libOpenCL.so.1 (0x7fd68e402000)
local/lib/liblinboxsage.so
libOpenCL.so.1 => /usr/lib64/libOpenCL.so.1 (0x7f38cfceb000)

There are lots more of these if local/lib/python2.7 and local/lib/R were 
searched.

On Saturday, November 26, 2016 at 12:54:05 AM UTC-6, François wrote:
>
> After inspection there is a configure switch. It is always on 
> in Gentoo. We could configure zeromq in sage to never depend 
> on it. Ticket time? 
>
> François 
>
> > On 26/11/2016, at 19:49, Francois Bissey  > wrote: 
> > 
> > I am guessing it is picked up automagically by zeromq. 
> > Sage doesn’t provide it, it was detected from your system. 
> > I’ll look into it. 
> > 
> > François 
> > 
> >> On 26/11/2016, at 19:46, Steven Trogdon  > wrote: 
> >> 
> >> OK, after looking at the logs beta3 was built on 11/17. libsodium was 
> upgraded from libsodium.so.13 to libsodium.so.18 on 11/18. So there has 
> been a system update between the build of beta3 and beta4. The question is 
> 'is libsodium.so.18' really needed? 
> >> 
> >> On Saturday, November 26, 2016 at 12:31:04 AM UTC-6, François wrote: 
> >> libsodium is not a sage package so it comes from Gentoo. 
> >> libsodium.so.13 was provided by libsodium-1.0.2. 
> >> All the other libsodium available in Gentoo provide 
> >> libsodium.so.18. 
> >> Would you have by chance been doing an upgrade rather 
> >> than a build of sage from scratch - and upgraded 
> >> libsodium just before the upgrade? 
> >> 
> >> François 
> >> 
> >>> On 26/11/2016, at 18:46, Steven Trogdon  wrote: 
> >>> 
> >>> Fails here on Gentoo when building the docs: 
> >>> 
> >>> [dochtml] Traceback (most recent call last): 
> >>> [dochtml]   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 162, in _run_module_as_main 
> >>> [dochtml] "__main__", fname, loader, pkg_name) 
> >>> [dochtml]   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 72, in _run_code 
> >>> [dochtml] exec code in run_globals 
> >>> [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/__init__.py",
>  
> line 34, in  
> >>> [repl ] from zmq import backend 
> >>> [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
>  
> line 40, in  
> >>> [repl ] reraise(*exc_info) 
> >>> [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
>  
> line 27, in  
> >>> [repl ] _ns = select_backend(first) 
> >>> [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/select.py",
>  
> line 26, in select_backend 
> >>> [repl ] mod = __import__(name, fromlist=public_api) 
> >>> [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/cython/__init__.py",
>  
> line 6, in  
> >>> [repl ] from . import (constants, error, message, context, 
> >>> [repl ] ImportError: libsodium.so.13: cannot open shared object 
> file: No such file or directory 
> >>> [polynomia] reading sources... [  9%] sage/rings/fraction_field_FpT 
> >>> Error building the documentation. 
> >>> Traceback (most recent call last): 
> >>>  File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 162, in _run_module_as_main 
> >>>"__main__", fname, loader, pkg_name) 
> >>>  File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 72, in _run_code 
> >>>exec code in run_globals 
> >>>  File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__main__.py",
>  
> line 2, in  
> >>>main() 
> >>>  File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 1667, in main 
> >>>builder() 
> >>>  File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 316, in _wrapper 
> >>>getattr(get_builder(document), 'inventory')(*args, **kwds) 
> >>>  File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 

Re: [sage-release] Re: Sage 7.5.beta4 released

[Peleg Michaeli]

Thanks; this worked.

On Saturday, 26 November 2016 09:35:08 UTC+2, Jeroen Demeyer wrote:
>
> On 2016-11-26 07:38, Peleg Michaeli wrote: 
> > I have a similar error: 
>
> Not similar. Please try again with 
>
> $ make doc-clean 
> # make 
>
>

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Re: [sage-release] Re: Sage 7.5.beta4 released

[Peleg Michaeli]

Didn't work (same error).

Will try make doc-clean.

On Saturday, 26 November 2016 09:29:58 UTC+2, François wrote:
>
> ./sage -p cysignals 
> then 
> make 
>
> hopefully that should be enough. 
>
> François 
>
> > On 26/11/2016, at 20:26, Peleg Michaeli  
> wrote: 
> > 
> > What do you suggest then? make dist-clean..? 
> > 
> > On Saturday, 26 November 2016 08:42:59 UTC+2, François wrote: 
> > Not similar. For some reason your version of cysignals has not 
> > been upgraded to 1.3.2 - you still have 1.1.x. 
> > 
> > François 
> > 
> > > On 26/11/2016, at 19:38, Peleg Michaeli  wrote: 
> > > 
> > > I have a similar error: 
> > > 
> > > = 
> > > 
> > > [libs ] reading sources... [100%] sage/rings/pari_ring 
> > > [libs ] 
> /home/peleg/sage/src/doc/en/reference/libs/sage/ext/pselect.rst:11: 
> WARNING: autodoc: failed to import module u'sage.ext.pselect'; the 
> following exception was raised: 
> > > [libs ] Traceback (most recent call last): 
> > > [libs ] File 
> "/home/peleg/sage/src/sage_setup/docbuild/ext/sage_autodoc.py", line 525, 
> in import_object 
> > > [libs ] __import__(self.modname) 
> > > [libs ] ImportError: No module named pselect 
> > > [libs ] 
> /home/peleg/sage/src/doc/en/reference/libs/sage/ext/pselect.rst:: WARNING: 
> document isn't included in any toctree 
> > > Error building the documentation. 
> > > Traceback (most recent call last): 
> > >   File "/home/peleg/sage/local/lib/python/runpy.py", line 162, in 
> _run_module_as_main 
> > > "__main__", fname, loader, pkg_name) 
> > >   File "/home/peleg/sage/local/lib/python/runpy.py", line 72, in 
> _run_code 
> > > exec code in run_globals 
> > >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__main__.py",
>  
> line 2, in  
> > > main() 
> > >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 1667, in main 
> > > builder() 
> > >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 316, in _wrapper 
> > > getattr(get_builder(document), 'inventory')(*args, **kwds) 
> > >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 510, in _wrapper 
> > > build_many(build_ref_doc, L) 
> > >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 266, in build_many 
> > > results.append(target(arg)) 
> > >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 70, in build_ref_doc 
> > > getattr(ReferenceSubBuilder(doc, lang), format)(*args, **kwds) 
> > >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 719, in _wrapper 
> > > getattr(DocBuilder, build_type)(self, *args, **kwds) 
> > >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 104, in f 
> > > runsphinx() 
> > >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/sphinxbuild.py",
>  
> line 215, in runsphinx 
> > > raise exception 
> > > OSError: [libs ] 
> /home/peleg/sage/src/doc/en/reference/libs/sage/ext/pselect.rst:11: 
> WARNING: autodoc: failed to import module u'sage.ext.pselect'; the 
> following exception was raised: 
> > > 
> > > 
> > > = 
> > > 
> > > On Saturday, 26 November 2016 07:46:35 UTC+2, Steven Trogdon wrote: 
> > > Fails here on Gentoo when building the docs: 
> > > 
> > > [dochtml] Traceback (most recent call last): 
> > > [dochtml]   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 162, in _run_module_as_main 
> > > [dochtml] "__main__", fname, loader, pkg_name) 
> > > [dochtml]   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 72, in _run_code 
> > > [dochtml] exec code in run_globals 
> > > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/__init__.py",
>  
> line 34, in  
> > > [repl ] from zmq import backend 
> > > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
>  
> line 40, in  
> > > [repl ] reraise(*exc_info) 
> > > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
>  
> line 27, in  
> > > [repl ] _ns = select_backend(first) 
> > > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/select.py",
>  
> line 26, in select_backend 
> > > [repl ] mod = __import__(name, fromlist=public_api) 
> > > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/cython/__init__.py",
>  
> line 6, in  
> > > [repl ] 

Re: [sage-release] Re: Sage 7.5.beta4 released

[Jeroen Demeyer]

On 2016-11-26 07:38, Peleg Michaeli wrote:

I have a similar error:


Not similar. Please try again with

$ make doc-clean
# make

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Re: [sage-release] Re: Sage 7.5.beta4 released

[Francois Bissey]

./sage -p cysignals
then 
make

hopefully that should be enough.

François

> On 26/11/2016, at 20:26, Peleg Michaeli  wrote:
> 
> What do you suggest then? make dist-clean..?
> 
> On Saturday, 26 November 2016 08:42:59 UTC+2, François wrote:
> Not similar. For some reason your version of cysignals has not 
> been upgraded to 1.3.2 - you still have 1.1.x. 
> 
> François 
> 
> > On 26/11/2016, at 19:38, Peleg Michaeli  wrote: 
> > 
> > I have a similar error: 
> > 
> > = 
> > 
> > [libs ] reading sources... [100%] sage/rings/pari_ring 
> > [libs ] 
> > /home/peleg/sage/src/doc/en/reference/libs/sage/ext/pselect.rst:11: 
> > WARNING: autodoc: failed to import module u'sage.ext.pselect'; the 
> > following exception was raised: 
> > [libs ] Traceback (most recent call last): 
> > [libs ] File 
> > "/home/peleg/sage/src/sage_setup/docbuild/ext/sage_autodoc.py", line 525, 
> > in import_object 
> > [libs ] __import__(self.modname) 
> > [libs ] ImportError: No module named pselect 
> > [libs ] 
> > /home/peleg/sage/src/doc/en/reference/libs/sage/ext/pselect.rst:: WARNING: 
> > document isn't included in any toctree 
> > Error building the documentation. 
> > Traceback (most recent call last): 
> >   File "/home/peleg/sage/local/lib/python/runpy.py", line 162, in 
> > _run_module_as_main 
> > "__main__", fname, loader, pkg_name) 
> >   File "/home/peleg/sage/local/lib/python/runpy.py", line 72, in _run_code 
> > exec code in run_globals 
> >   File 
> > "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__main__.py",
> >  line 2, in  
> > main() 
> >   File 
> > "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
> >  line 1667, in main 
> > builder() 
> >   File 
> > "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
> >  line 316, in _wrapper 
> > getattr(get_builder(document), 'inventory')(*args, **kwds) 
> >   File 
> > "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
> >  line 510, in _wrapper 
> > build_many(build_ref_doc, L) 
> >   File 
> > "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
> >  line 266, in build_many 
> > results.append(target(arg)) 
> >   File 
> > "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
> >  line 70, in build_ref_doc 
> > getattr(ReferenceSubBuilder(doc, lang), format)(*args, **kwds) 
> >   File 
> > "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
> >  line 719, in _wrapper 
> > getattr(DocBuilder, build_type)(self, *args, **kwds) 
> >   File 
> > "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
> >  line 104, in f 
> > runsphinx() 
> >   File 
> > "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/sphinxbuild.py",
> >  line 215, in runsphinx 
> > raise exception 
> > OSError: [libs ] 
> > /home/peleg/sage/src/doc/en/reference/libs/sage/ext/pselect.rst:11: 
> > WARNING: autodoc: failed to import module u'sage.ext.pselect'; the 
> > following exception was raised: 
> > 
> > 
> > = 
> > 
> > On Saturday, 26 November 2016 07:46:35 UTC+2, Steven Trogdon wrote: 
> > Fails here on Gentoo when building the docs: 
> > 
> > [dochtml] Traceback (most recent call last): 
> > [dochtml]   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> > 162, in _run_module_as_main 
> > [dochtml] "__main__", fname, loader, pkg_name) 
> > [dochtml]   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> > 72, in _run_code 
> > [dochtml] exec code in run_globals 
> > [repl ] File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/__init__.py",
> >  line 34, in  
> > [repl ] from zmq import backend 
> > [repl ] File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
> >  line 40, in  
> > [repl ] reraise(*exc_info) 
> > [repl ] File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
> >  line 27, in  
> > [repl ] _ns = select_backend(first) 
> > [repl ] File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/select.py",
> >  line 26, in select_backend 
> > [repl ] mod = __import__(name, fromlist=public_api) 
> > [repl ] File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/cython/__init__.py",
> >  line 6, in  
> > [repl ] from . import (constants, error, message, context, 
> > [repl ] ImportError: libsodium.so.13: cannot open shared object file: 
> > No such file or directory 
> > [polynomia] reading sources... [  9%] sage/rings/fraction_field_FpT 
> 

Re: [sage-release] Re: Sage 7.5.beta4 released

[Peleg Michaeli]

What do you suggest then? make dist-clean..?

On Saturday, 26 November 2016 08:42:59 UTC+2, François wrote:
>
> Not similar. For some reason your version of cysignals has not 
> been upgraded to 1.3.2 - you still have 1.1.x. 
>
> François 
>
> > On 26/11/2016, at 19:38, Peleg Michaeli  
> wrote: 
> > 
> > I have a similar error: 
> > 
> > = 
> > 
> > [libs ] reading sources... [100%] sage/rings/pari_ring 
> > [libs ] 
> /home/peleg/sage/src/doc/en/reference/libs/sage/ext/pselect.rst:11: 
> WARNING: autodoc: failed to import module u'sage.ext.pselect'; the 
> following exception was raised: 
> > [libs ] Traceback (most recent call last): 
> > [libs ] File 
> "/home/peleg/sage/src/sage_setup/docbuild/ext/sage_autodoc.py", line 525, 
> in import_object 
> > [libs ] __import__(self.modname) 
> > [libs ] ImportError: No module named pselect 
> > [libs ] 
> /home/peleg/sage/src/doc/en/reference/libs/sage/ext/pselect.rst:: WARNING: 
> document isn't included in any toctree 
> > Error building the documentation. 
> > Traceback (most recent call last): 
> >   File "/home/peleg/sage/local/lib/python/runpy.py", line 162, in 
> _run_module_as_main 
> > "__main__", fname, loader, pkg_name) 
> >   File "/home/peleg/sage/local/lib/python/runpy.py", line 72, in 
> _run_code 
> > exec code in run_globals 
> >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__main__.py",
>  
> line 2, in  
> > main() 
> >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 1667, in main 
> > builder() 
> >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 316, in _wrapper 
> > getattr(get_builder(document), 'inventory')(*args, **kwds) 
> >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 510, in _wrapper 
> > build_many(build_ref_doc, L) 
> >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 266, in build_many 
> > results.append(target(arg)) 
> >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 70, in build_ref_doc 
> > getattr(ReferenceSubBuilder(doc, lang), format)(*args, **kwds) 
> >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 719, in _wrapper 
> > getattr(DocBuilder, build_type)(self, *args, **kwds) 
> >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 104, in f 
> > runsphinx() 
> >   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/sphinxbuild.py",
>  
> line 215, in runsphinx 
> > raise exception 
> > OSError: [libs ] 
> /home/peleg/sage/src/doc/en/reference/libs/sage/ext/pselect.rst:11: 
> WARNING: autodoc: failed to import module u'sage.ext.pselect'; the 
> following exception was raised: 
> > 
> > 
> > = 
> > 
> > On Saturday, 26 November 2016 07:46:35 UTC+2, Steven Trogdon wrote: 
> > Fails here on Gentoo when building the docs: 
> > 
> > [dochtml] Traceback (most recent call last): 
> > [dochtml]   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 162, in _run_module_as_main 
> > [dochtml] "__main__", fname, loader, pkg_name) 
> > [dochtml]   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 72, in _run_code 
> > [dochtml] exec code in run_globals 
> > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/__init__.py",
>  
> line 34, in  
> > [repl ] from zmq import backend 
> > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
>  
> line 40, in  
> > [repl ] reraise(*exc_info) 
> > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
>  
> line 27, in  
> > [repl ] _ns = select_backend(first) 
> > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/select.py",
>  
> line 26, in select_backend 
> > [repl ] mod = __import__(name, fromlist=public_api) 
> > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/cython/__init__.py",
>  
> line 6, in  
> > [repl ] from . import (constants, error, message, context, 
> > [repl ] ImportError: libsodium.so.13: cannot open shared object 
> file: No such file or directory 
> > [polynomia] reading sources... [  9%] sage/rings/fraction_field_FpT 
> > Error building the documentation. 
> > Traceback (most recent call last): 
> >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 162, in _run_module_as_main 

Re: [sage-release] Re: Sage 7.5.beta4 released

[Steven Trogdon]

Yes, this seemed to have done the trick. And a few more packages were then 
rebuild as well.

On Saturday, November 26, 2016 at 12:52:15 AM UTC-6, François wrote:
>
> Yes, zeromq has no recorded dependencies in sage, so it wasn’t 
> rebuilt. ./sage -f zeroqm and then make should solve your problem. 
>
> François 
>
> > On 26/11/2016, at 19:50, Steven Trogdon  > wrote: 
> > 
> > The beta4 build was after doing a `git pull` && `make`. 
> > 
> > On Saturday, November 26, 2016 at 12:46:32 AM UTC-6, Steven Trogdon 
> wrote: 
> > OK, after looking at the logs beta3 was built on 11/17. libsodium was 
> upgraded from libsodium.so.13 to libsodium.so.18 on 11/18. So there has 
> been a system update between the build of beta3 and beta4. The question is 
> 'is libsodium.so.18' really needed? 
> > 
> > On Saturday, November 26, 2016 at 12:31:04 AM UTC-6, François wrote: 
> > libsodium is not a sage package so it comes from Gentoo. 
> > libsodium.so.13 was provided by libsodium-1.0.2. 
> > All the other libsodium available in Gentoo provide 
> > libsodium.so.18. 
> > Would you have by chance been doing an upgrade rather 
> > than a build of sage from scratch - and upgraded 
> > libsodium just before the upgrade? 
> > 
> > François 
> > 
> > > On 26/11/2016, at 18:46, Steven Trogdon  wrote: 
> > > 
> > > Fails here on Gentoo when building the docs: 
> > > 
> > > [dochtml] Traceback (most recent call last): 
> > > [dochtml]   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 162, in _run_module_as_main 
> > > [dochtml] "__main__", fname, loader, pkg_name) 
> > > [dochtml]   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 72, in _run_code 
> > > [dochtml] exec code in run_globals 
> > > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/__init__.py",
>  
> line 34, in  
> > > [repl ] from zmq import backend 
> > > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
>  
> line 40, in  
> > > [repl ] reraise(*exc_info) 
> > > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
>  
> line 27, in  
> > > [repl ] _ns = select_backend(first) 
> > > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/select.py",
>  
> line 26, in select_backend 
> > > [repl ] mod = __import__(name, fromlist=public_api) 
> > > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/cython/__init__.py",
>  
> line 6, in  
> > > [repl ] from . import (constants, error, message, context, 
> > > [repl ] ImportError: libsodium.so.13: cannot open shared object 
> file: No such file or directory 
> > > [polynomia] reading sources... [  9%] sage/rings/fraction_field_FpT 
> > > Error building the documentation. 
> > > Traceback (most recent call last): 
> > >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 162, in _run_module_as_main 
> > > "__main__", fname, loader, pkg_name) 
> > >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 72, in _run_code 
> > > exec code in run_globals 
> > >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__main__.py",
>  
> line 2, in  
> > > main() 
> > >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 1667, in main 
> > > builder() 
> > >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 316, in _wrapper 
> > > getattr(get_builder(document), 'inventory')(*args, **kwds) 
> > >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 510, in _wrapper 
> > > build_many(build_ref_doc, L) 
> > >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 252, in build_many 
> > > ret = x.get(9) 
> > >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/multiprocessing/pool.py",
>  
> line 567, in get 
> > > raise self._value 
> > > OSError: [repl ] 
> /64bitdev/storage/sage-git_develop/sage/src/doc/en/reference/repl/sage/repl/ipython_kernel/kernel.rst:11:
>  
> WARNING: autodoc: failed to import module 
> u'sage.repl.ipython_kernel.kernel'; the following exception was raised: 
> > > 
> > > I have libsodium.so.18 install which is current. I don't know which 
> libsodium I had installed when beta3 was built, but no problem there. Is 
> libsodium.so.18 really needed? 
> > > 
> > > -- 
> > > You received this 

Re: [sage-release] Re: Sage 7.5.beta4 released

[Francois Bissey]

Yes, zeromq has no recorded dependencies in sage, so it wasn’t
rebuilt. ./sage -f zeroqm and then make should solve your problem.

François

> On 26/11/2016, at 19:50, Steven Trogdon  wrote:
> 
> The beta4 build was after doing a `git pull` && `make`.
> 
> On Saturday, November 26, 2016 at 12:46:32 AM UTC-6, Steven Trogdon wrote:
> OK, after looking at the logs beta3 was built on 11/17. libsodium was 
> upgraded from libsodium.so.13 to libsodium.so.18 on 11/18. So there has been 
> a system update between the build of beta3 and beta4. The question is 'is 
> libsodium.so.18' really needed?
> 
> On Saturday, November 26, 2016 at 12:31:04 AM UTC-6, François wrote:
> libsodium is not a sage package so it comes from Gentoo. 
> libsodium.so.13 was provided by libsodium-1.0.2. 
> All the other libsodium available in Gentoo provide 
> libsodium.so.18. 
> Would you have by chance been doing an upgrade rather 
> than a build of sage from scratch - and upgraded 
> libsodium just before the upgrade? 
> 
> François 
> 
> > On 26/11/2016, at 18:46, Steven Trogdon  wrote: 
> > 
> > Fails here on Gentoo when building the docs: 
> > 
> > [dochtml] Traceback (most recent call last): 
> > [dochtml]   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> > 162, in _run_module_as_main 
> > [dochtml] "__main__", fname, loader, pkg_name) 
> > [dochtml]   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> > 72, in _run_code 
> > [dochtml] exec code in run_globals 
> > [repl ] File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/__init__.py",
> >  line 34, in  
> > [repl ] from zmq import backend 
> > [repl ] File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
> >  line 40, in  
> > [repl ] reraise(*exc_info) 
> > [repl ] File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
> >  line 27, in  
> > [repl ] _ns = select_backend(first) 
> > [repl ] File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/select.py",
> >  line 26, in select_backend 
> > [repl ] mod = __import__(name, fromlist=public_api) 
> > [repl ] File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/cython/__init__.py",
> >  line 6, in  
> > [repl ] from . import (constants, error, message, context, 
> > [repl ] ImportError: libsodium.so.13: cannot open shared object file: 
> > No such file or directory 
> > [polynomia] reading sources... [  9%] sage/rings/fraction_field_FpT 
> > Error building the documentation. 
> > Traceback (most recent call last): 
> >   File "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", 
> > line 162, in _run_module_as_main 
> > "__main__", fname, loader, pkg_name) 
> >   File "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", 
> > line 72, in _run_code 
> > exec code in run_globals 
> >   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__main__.py",
> >  line 2, in  
> > main() 
> >   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
> >  line 1667, in main 
> > builder() 
> >   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
> >  line 316, in _wrapper 
> > getattr(get_builder(document), 'inventory')(*args, **kwds) 
> >   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
> >  line 510, in _wrapper 
> > build_many(build_ref_doc, L) 
> >   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
> >  line 252, in build_many 
> > ret = x.get(9) 
> >   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python/multiprocessing/pool.py",
> >  line 567, in get 
> > raise self._value 
> > OSError: [repl ] 
> > /64bitdev/storage/sage-git_develop/sage/src/doc/en/reference/repl/sage/repl/ipython_kernel/kernel.rst:11:
> >  WARNING: autodoc: failed to import module 
> > u'sage.repl.ipython_kernel.kernel'; the following exception was raised: 
> > 
> > I have libsodium.so.18 install which is current. I don't know which 
> > libsodium I had installed when beta3 was built, but no problem there. Is 
> > libsodium.so.18 really needed? 
> > 
> > -- 
> > You received this message because you are subscribed to the Google Groups 
> > "sage-release" group. 
> > To unsubscribe from this group and stop receiving emails from it, send an 
> > email to sage-release...@googlegroups.com. 
> > To post to this group, send email to sage-r...@googlegroups.com. 
> > 

Re: [sage-release] Re: Sage 7.5.beta4 released

[Steven Trogdon]

The beta4 build was after doing a `git pull` && `make`.

On Saturday, November 26, 2016 at 12:46:32 AM UTC-6, Steven Trogdon wrote:
>
> OK, after looking at the logs beta3 was built on 11/17. libsodium was 
> upgraded from libsodium.so.13 to libsodium.so.18 on 11/18. So there has 
> been a system update between the build of beta3 and beta4. The question is 
> 'is libsodium.so.18' really needed?
>
> On Saturday, November 26, 2016 at 12:31:04 AM UTC-6, François wrote:
>>
>> libsodium is not a sage package so it comes from Gentoo. 
>> libsodium.so.13 was provided by libsodium-1.0.2. 
>> All the other libsodium available in Gentoo provide 
>> libsodium.so.18. 
>> Would you have by chance been doing an upgrade rather 
>> than a build of sage from scratch - and upgraded 
>> libsodium just before the upgrade? 
>>
>> François 
>>
>> > On 26/11/2016, at 18:46, Steven Trogdon  wrote: 
>> > 
>> > Fails here on Gentoo when building the docs: 
>> > 
>> > [dochtml] Traceback (most recent call last): 
>> > [dochtml]   File 
>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
>> 162, in _run_module_as_main 
>> > [dochtml] "__main__", fname, loader, pkg_name) 
>> > [dochtml]   File 
>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
>> 72, in _run_code 
>> > [dochtml] exec code in run_globals 
>> > [repl ] File 
>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/__init__.py",
>>  
>> line 34, in  
>> > [repl ] from zmq import backend 
>> > [repl ] File 
>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
>>  
>> line 40, in  
>> > [repl ] reraise(*exc_info) 
>> > [repl ] File 
>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
>>  
>> line 27, in  
>> > [repl ] _ns = select_backend(first) 
>> > [repl ] File 
>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/select.py",
>>  
>> line 26, in select_backend 
>> > [repl ] mod = __import__(name, fromlist=public_api) 
>> > [repl ] File 
>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/cython/__init__.py",
>>  
>> line 6, in  
>> > [repl ] from . import (constants, error, message, context, 
>> > [repl ] ImportError: libsodium.so.13: cannot open shared object 
>> file: No such file or directory 
>> > [polynomia] reading sources... [  9%] sage/rings/fraction_field_FpT 
>> > Error building the documentation. 
>> > Traceback (most recent call last): 
>> >   File 
>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
>> 162, in _run_module_as_main 
>> > "__main__", fname, loader, pkg_name) 
>> >   File 
>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
>> 72, in _run_code 
>> > exec code in run_globals 
>> >   File 
>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__main__.py",
>>  
>> line 2, in  
>> > main() 
>> >   File 
>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>>  
>> line 1667, in main 
>> > builder() 
>> >   File 
>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>>  
>> line 316, in _wrapper 
>> > getattr(get_builder(document), 'inventory')(*args, **kwds) 
>> >   File 
>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>>  
>> line 510, in _wrapper 
>> > build_many(build_ref_doc, L) 
>> >   File 
>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>>  
>> line 252, in build_many 
>> > ret = x.get(9) 
>> >   File 
>> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/multiprocessing/pool.py",
>>  
>> line 567, in get 
>> > raise self._value 
>> > OSError: [repl ] 
>> /64bitdev/storage/sage-git_develop/sage/src/doc/en/reference/repl/sage/repl/ipython_kernel/kernel.rst:11:
>>  
>> WARNING: autodoc: failed to import module 
>> u'sage.repl.ipython_kernel.kernel'; the following exception was raised: 
>> > 
>> > I have libsodium.so.18 install which is current. I don't know which 
>> libsodium I had installed when beta3 was built, but no problem there. Is 
>> libsodium.so.18 really needed? 
>> > 
>> > -- 
>> > You received this message because you are subscribed to the Google 
>> Groups "sage-release" group. 
>> > To unsubscribe from this group and stop receiving emails from it, send 
>> an email to sage-release...@googlegroups.com. 
>> > To post to this group, send email to sage-r...@googlegroups.com. 
>> > Visit this group at https://groups.google.com/group/sage-release. 
>> > For more options, visit https://groups.google.com/d/optout. 
>>
>>

-- 
You 

Re: [sage-release] Re: Sage 7.5.beta4 released

[Francois Bissey]

I am guessing it is picked up automagically by zeromq.
Sage doesn’t provide it, it was detected from your system.
I’ll look into it.

François

> On 26/11/2016, at 19:46, Steven Trogdon  wrote:
> 
> OK, after looking at the logs beta3 was built on 11/17. libsodium was 
> upgraded from libsodium.so.13 to libsodium.so.18 on 11/18. So there has been 
> a system update between the build of beta3 and beta4. The question is 'is 
> libsodium.so.18' really needed?
> 
> On Saturday, November 26, 2016 at 12:31:04 AM UTC-6, François wrote:
> libsodium is not a sage package so it comes from Gentoo. 
> libsodium.so.13 was provided by libsodium-1.0.2. 
> All the other libsodium available in Gentoo provide 
> libsodium.so.18. 
> Would you have by chance been doing an upgrade rather 
> than a build of sage from scratch - and upgraded 
> libsodium just before the upgrade? 
> 
> François 
> 
> > On 26/11/2016, at 18:46, Steven Trogdon  wrote: 
> > 
> > Fails here on Gentoo when building the docs: 
> > 
> > [dochtml] Traceback (most recent call last): 
> > [dochtml]   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> > 162, in _run_module_as_main 
> > [dochtml] "__main__", fname, loader, pkg_name) 
> > [dochtml]   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> > 72, in _run_code 
> > [dochtml] exec code in run_globals 
> > [repl ] File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/__init__.py",
> >  line 34, in  
> > [repl ] from zmq import backend 
> > [repl ] File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
> >  line 40, in  
> > [repl ] reraise(*exc_info) 
> > [repl ] File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
> >  line 27, in  
> > [repl ] _ns = select_backend(first) 
> > [repl ] File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/select.py",
> >  line 26, in select_backend 
> > [repl ] mod = __import__(name, fromlist=public_api) 
> > [repl ] File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/cython/__init__.py",
> >  line 6, in  
> > [repl ] from . import (constants, error, message, context, 
> > [repl ] ImportError: libsodium.so.13: cannot open shared object file: 
> > No such file or directory 
> > [polynomia] reading sources... [  9%] sage/rings/fraction_field_FpT 
> > Error building the documentation. 
> > Traceback (most recent call last): 
> >   File "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", 
> > line 162, in _run_module_as_main 
> > "__main__", fname, loader, pkg_name) 
> >   File "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", 
> > line 72, in _run_code 
> > exec code in run_globals 
> >   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__main__.py",
> >  line 2, in  
> > main() 
> >   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
> >  line 1667, in main 
> > builder() 
> >   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
> >  line 316, in _wrapper 
> > getattr(get_builder(document), 'inventory')(*args, **kwds) 
> >   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
> >  line 510, in _wrapper 
> > build_many(build_ref_doc, L) 
> >   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
> >  line 252, in build_many 
> > ret = x.get(9) 
> >   File 
> > "/64bitdev/storage/sage-git_develop/sage/local/lib/python/multiprocessing/pool.py",
> >  line 567, in get 
> > raise self._value 
> > OSError: [repl ] 
> > /64bitdev/storage/sage-git_develop/sage/src/doc/en/reference/repl/sage/repl/ipython_kernel/kernel.rst:11:
> >  WARNING: autodoc: failed to import module 
> > u'sage.repl.ipython_kernel.kernel'; the following exception was raised: 
> > 
> > I have libsodium.so.18 install which is current. I don't know which 
> > libsodium I had installed when beta3 was built, but no problem there. Is 
> > libsodium.so.18 really needed? 
> > 
> > -- 
> > You received this message because you are subscribed to the Google Groups 
> > "sage-release" group. 
> > To unsubscribe from this group and stop receiving emails from it, send an 
> > email to sage-release...@googlegroups.com. 
> > To post to this group, send email to sage-r...@googlegroups.com. 
> > Visit this group at https://groups.google.com/group/sage-release. 
> > For more options, visit https://groups.google.com/d/optout. 
> 
> 

Re: [sage-release] Re: Sage 7.5.beta4 released

[Steven Trogdon]

OK, after looking at the logs beta3 was built on 11/17. libsodium was 
upgraded from libsodium.so.13 to libsodium.so.18 on 11/18. So there has 
been a system update between the build of beta3 and beta4. The question is 
'is libsodium.so.18' really needed?

On Saturday, November 26, 2016 at 12:31:04 AM UTC-6, François wrote:
>
> libsodium is not a sage package so it comes from Gentoo. 
> libsodium.so.13 was provided by libsodium-1.0.2. 
> All the other libsodium available in Gentoo provide 
> libsodium.so.18. 
> Would you have by chance been doing an upgrade rather 
> than a build of sage from scratch - and upgraded 
> libsodium just before the upgrade? 
>
> François 
>
> > On 26/11/2016, at 18:46, Steven Trogdon  > wrote: 
> > 
> > Fails here on Gentoo when building the docs: 
> > 
> > [dochtml] Traceback (most recent call last): 
> > [dochtml]   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 162, in _run_module_as_main 
> > [dochtml] "__main__", fname, loader, pkg_name) 
> > [dochtml]   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 72, in _run_code 
> > [dochtml] exec code in run_globals 
> > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/__init__.py",
>  
> line 34, in  
> > [repl ] from zmq import backend 
> > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
>  
> line 40, in  
> > [repl ] reraise(*exc_info) 
> > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
>  
> line 27, in  
> > [repl ] _ns = select_backend(first) 
> > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/select.py",
>  
> line 26, in select_backend 
> > [repl ] mod = __import__(name, fromlist=public_api) 
> > [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/cython/__init__.py",
>  
> line 6, in  
> > [repl ] from . import (constants, error, message, context, 
> > [repl ] ImportError: libsodium.so.13: cannot open shared object 
> file: No such file or directory 
> > [polynomia] reading sources... [  9%] sage/rings/fraction_field_FpT 
> > Error building the documentation. 
> > Traceback (most recent call last): 
> >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 162, in _run_module_as_main 
> > "__main__", fname, loader, pkg_name) 
> >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 72, in _run_code 
> > exec code in run_globals 
> >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__main__.py",
>  
> line 2, in  
> > main() 
> >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 1667, in main 
> > builder() 
> >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 316, in _wrapper 
> > getattr(get_builder(document), 'inventory')(*args, **kwds) 
> >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 510, in _wrapper 
> > build_many(build_ref_doc, L) 
> >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  
> line 252, in build_many 
> > ret = x.get(9) 
> >   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/multiprocessing/pool.py",
>  
> line 567, in get 
> > raise self._value 
> > OSError: [repl ] 
> /64bitdev/storage/sage-git_develop/sage/src/doc/en/reference/repl/sage/repl/ipython_kernel/kernel.rst:11:
>  
> WARNING: autodoc: failed to import module 
> u'sage.repl.ipython_kernel.kernel'; the following exception was raised: 
> > 
> > I have libsodium.so.18 install which is current. I don't know which 
> libsodium I had installed when beta3 was built, but no problem there. Is 
> libsodium.so.18 really needed? 
> > 
> > -- 
> > You received this message because you are subscribed to the Google 
> Groups "sage-release" group. 
> > To unsubscribe from this group and stop receiving emails from it, send 
> an email to sage-release...@googlegroups.com . 
> > To post to this group, send email to sage-r...@googlegroups.com 
> . 
> > Visit this group at https://groups.google.com/group/sage-release. 
> > For more options, visit https://groups.google.com/d/optout. 
>
>

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Re: [sage-release] Re: Sage 7.5.beta4 released

[Francois Bissey]

Not similar. For some reason your version of cysignals has not
been upgraded to 1.3.2 - you still have 1.1.x.

François

> On 26/11/2016, at 19:38, Peleg Michaeli  wrote:
> 
> I have a similar error:
> 
> =
> 
> [libs ] reading sources... [100%] sage/rings/pari_ring
> [libs ] 
> /home/peleg/sage/src/doc/en/reference/libs/sage/ext/pselect.rst:11: WARNING: 
> autodoc: failed to import module u'sage.ext.pselect'; the following exception 
> was raised:
> [libs ] Traceback (most recent call last):
> [libs ] File 
> "/home/peleg/sage/src/sage_setup/docbuild/ext/sage_autodoc.py", line 525, in 
> import_object
> [libs ] __import__(self.modname)
> [libs ] ImportError: No module named pselect
> [libs ] /home/peleg/sage/src/doc/en/reference/libs/sage/ext/pselect.rst:: 
> WARNING: document isn't included in any toctree
> Error building the documentation.
> Traceback (most recent call last):
>   File "/home/peleg/sage/local/lib/python/runpy.py", line 162, in 
> _run_module_as_main
> "__main__", fname, loader, pkg_name)
>   File "/home/peleg/sage/local/lib/python/runpy.py", line 72, in _run_code
> exec code in run_globals
>   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__main__.py",
>  line 2, in 
> main()
>   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  line 1667, in main
> builder()
>   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  line 316, in _wrapper
> getattr(get_builder(document), 'inventory')(*args, **kwds)
>   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  line 510, in _wrapper
> build_many(build_ref_doc, L)
>   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  line 266, in build_many
> results.append(target(arg))
>   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  line 70, in build_ref_doc
> getattr(ReferenceSubBuilder(doc, lang), format)(*args, **kwds)
>   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  line 719, in _wrapper
> getattr(DocBuilder, build_type)(self, *args, **kwds)
>   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  line 104, in f
> runsphinx()
>   File 
> "/home/peleg/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/sphinxbuild.py",
>  line 215, in runsphinx
> raise exception
> OSError: [libs ] 
> /home/peleg/sage/src/doc/en/reference/libs/sage/ext/pselect.rst:11: WARNING: 
> autodoc: failed to import module u'sage.ext.pselect'; the following exception 
> was raised:
> 
> 
> =
> 
> On Saturday, 26 November 2016 07:46:35 UTC+2, Steven Trogdon wrote:
> Fails here on Gentoo when building the docs:
> 
> [dochtml] Traceback (most recent call last):
> [dochtml]   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 162, in _run_module_as_main
> [dochtml] "__main__", fname, loader, pkg_name)
> [dochtml]   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 72, 
> in _run_code
> [dochtml] exec code in run_globals
> [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/__init__.py",
>  line 34, in 
> [repl ] from zmq import backend
> [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
>  line 40, in 
> [repl ] reraise(*exc_info)
> [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
>  line 27, in 
> [repl ] _ns = select_backend(first)
> [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/select.py",
>  line 26, in select_backend
> [repl ] mod = __import__(name, fromlist=public_api)
> [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/cython/__init__.py",
>  line 6, in 
> [repl ] from . import (constants, error, message, context,
> [repl ] ImportError: libsodium.so.13: cannot open shared object file: No 
> such file or directory
> [polynomia] reading sources... [  9%] sage/rings/fraction_field_FpT
> Error building the documentation.
> Traceback (most recent call last):
>   File "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", 
> line 162, in _run_module_as_main
> "__main__", fname, loader, pkg_name)
>   File "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", 
> line 72, in _run_code
> exec code in run_globals
>   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__main__.py",
>  line 2, in 
> main()
>   File 
> 

Re: [sage-release] Re: Sage 7.5.beta4 released

[Francois Bissey]

libsodium is not a sage package so it comes from Gentoo.
libsodium.so.13 was provided by libsodium-1.0.2.
All the other libsodium available in Gentoo provide
libsodium.so.18.
Would you have by chance been doing an upgrade rather
than a build of sage from scratch - and upgraded 
libsodium just before the upgrade?

François

> On 26/11/2016, at 18:46, Steven Trogdon  wrote:
> 
> Fails here on Gentoo when building the docs:
> 
> [dochtml] Traceback (most recent call last):
> [dochtml]   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 
> 162, in _run_module_as_main
> [dochtml] "__main__", fname, loader, pkg_name)
> [dochtml]   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", line 72, 
> in _run_code
> [dochtml] exec code in run_globals
> [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/__init__.py",
>  line 34, in 
> [repl ] from zmq import backend
> [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
>  line 40, in 
> [repl ] reraise(*exc_info)
> [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/__init__.py",
>  line 27, in 
> [repl ] _ns = select_backend(first)
> [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/select.py",
>  line 26, in select_backend
> [repl ] mod = __import__(name, fromlist=public_api)
> [repl ] File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/zmq/backend/cython/__init__.py",
>  line 6, in 
> [repl ] from . import (constants, error, message, context,
> [repl ] ImportError: libsodium.so.13: cannot open shared object file: No 
> such file or directory
> [polynomia] reading sources... [  9%] sage/rings/fraction_field_FpT
> Error building the documentation.
> Traceback (most recent call last):
>   File "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", 
> line 162, in _run_module_as_main
> "__main__", fname, loader, pkg_name)
>   File "/64bitdev/storage/sage-git_develop/sage/local/lib/python/runpy.py", 
> line 72, in _run_code
> exec code in run_globals
>   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__main__.py",
>  line 2, in 
> main()
>   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  line 1667, in main
> builder()
>   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  line 316, in _wrapper
> getattr(get_builder(document), 'inventory')(*args, **kwds)
>   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  line 510, in _wrapper
> build_many(build_ref_doc, L)
>   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python2.7/site-packages/sage_setup/docbuild/__init__.py",
>  line 252, in build_many
> ret = x.get(9)
>   File 
> "/64bitdev/storage/sage-git_develop/sage/local/lib/python/multiprocessing/pool.py",
>  line 567, in get
> raise self._value
> OSError: [repl ] 
> /64bitdev/storage/sage-git_develop/sage/src/doc/en/reference/repl/sage/repl/ipython_kernel/kernel.rst:11:
>  WARNING: autodoc: failed to import module 
> u'sage.repl.ipython_kernel.kernel'; the following exception was raised:
> 
> I have libsodium.so.18 install which is current. I don't know which libsodium 
> I had installed when beta3 was built, but no problem there. Is 
> libsodium.so.18 really needed?
> 
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