[sage-devel] Re: Invitation to Participate in Survey: Governance and Community building

[Anne Schilling]

Thank you for taking the initiative!

Best wishes,

Anne

On Thursday, June 27, 2024 at 4:46:21 AM UTC-7 Sébastien Labbé wrote:

> Good idea! I will take the time to answer the survey soon.
>
> Sébastien
>
>

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[sage-devel] Re: Registration open for Hybrid Sage Days 120, this Wednesday Jul 19

[Anne Schilling]

Out of curiosity, how many people attended these Sage Days?
Anne

On Friday, July 21, 2023 at 8:07:17 PM UTC-7 Kwankyu Lee wrote:

> Thanks. For interested people, the titles are
>
> Sage Days 120: Install Sage from GitHub and getting started with the 
> SageMath development workflow
>
> https://www.youtube.com/watch?v=NAuKG87MPIM
>
> Sage Days 120: The five by five on the modularization of the SageMath 
> Python library
>
> https://www.youtube.com/watch?v=-zclXy-NqJ0
>
>
>
>

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Re: [sage-devel] Re: VOTE: move Sage development to Github

[Anne Schilling]

-1

On Friday, September 23, 2022 at 2:12:22 PM UTC-7 vdelecroix wrote:

> -1
>
> On Fri, 23 Sept 2022 at 12:43, Marc Mezzarobba  
> wrote:
> >
> > Emmanuel Charpentier wrote:
> > > +1 for Github
> > >
> > > Also wishing for contingency plan for re-migrating to self-hosted
> > > Gitlab.
> >
> > Same here.
> >
> > --
> > Marc
> >
> > --
> > 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+...@googlegroups.com.
> > To view this discussion on the web visit 
> https://groups.google.com/d/msgid/sage-devel/tgk2jf%24nm6%241%40ciao.gmane.io
> .
>

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[sage-devel] Re: problems building develop branch

[Anne Schilling]

Thank you everyone! That worked! Anne

On Tuesday, September 22, 2020 at 2:25:22 AM UTC-7 Kwankyu Lee wrote:

> The last line of Volker's recipe is actually:
>
> * Run "xcode-select --switch 
> /Applications/Xcode-11.app/Contents/Developer" to switch
>

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[sage-devel] Re: problems building develop branch

[Anne Schilling]

Ok, thanks for letting me know. Does that mean I can now not work on 
tickets that are based on the latest develop branch?

Anne

On Monday, September 21, 2020 at 8:58:18 AM UTC-7 Matthias Koeppe wrote:

> Hi Anne,
> This is from the new Xcode 12 that probably came with a system update.
> https://trac.sagemath.org/ticket/30494 tracks the progress of fixing Sage 
> to support the new Xcode version.
> Matthias
>
>
> On Monday, September 21, 2020 at 8:51:35 AM UTC-7 anne1.s...@gmail.com 
> wrote:
>
>>
>> Dear All,
>>
>> I am having trouble again to build the latest develop branch on MacOS 
>> 10.15.6. The log files can be found at 
>>
>> https://www.math.ucdavis.edu/~anne/config.log
>> https://www.math.ucdavis.edu/~anne/gf2x-1.3.0.log
>>
>> Best wishes,
>>
>> Anne
>>
>>
>>

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[sage-devel] problems building develop branch

[Anne Schilling]

Dear All,

I am having trouble again to build the latest develop branch on MacOS 
10.15.6. The log files can be found at 

https://www.math.ucdavis.edu/~anne/config.log
https://www.math.ucdavis.edu/~anne/gf2x-1.3.0.log

Best wishes,

Anne


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[sage-devel] Re: SearchForest

[Anne Schilling]

Thank you for letting me know! I did search on the trac server, but did not 
find 16351 for some reason, only much older tickets that did not seem 
relevant.

Anne

On Thursday, September 10, 2020 at 11:25:03 AM UTC-7 Samuel Lelievre wrote:

>
>
> Le jeudi 10 septembre 2020 19:11:16 UTC+2, Matthias Koeppe a écrit :
>>
>> On Thursday, September 10, 2020 at 9:56:13 AM UTC-7, Anne Schilling wrote:
>>>
>>> I upgraded to the latest development version and now my research code 
>>> complains that SearchForest cannot be found in sage.combinat.backtrack any 
>>> longer. How come there is no deprecation warning? Where did the code go?
>>>
>>>
>> It was removed in https://trac.sagemath.org/ticket/16351 
>>
>> As discussed in the ticket, the deprecation happened in prehistoric 
>> times, before the invention of deprecation warnings.
>>
>
> In such cases, the Trac query engine is your friend:
>
> A search for tickets with "searchforest" in the summary
>
> https://trac.sagemath.org/query?order=id=1=~searchforest 
>
> reveals ticket 16351.
>
> You can also query for tickets with "searchforest" in the description:
>
> https://trac.sagemath.org/query?order=id=1=~searchforest 
>
> and there are many other options, see:
>
> https://trac.sagemath.org/query
>
> This is so useful that I added a "search engine shortcut"
> to my browser. Often browsers have shortcuts to search
> on bing, duckduckgo, google, wikipedia, ...
>
> b stuff
> d stuff
> g stuff
> w stuff
>
> so why not add tsum and tdesc ("trac summary", "trac description")
> to be able to search using
>
> tsum stuff
> tdesc stuff
>
> respectively defined as
>
> https://trac.sagemath.org/query?order=id=1=~%s
> https://trac.sagemath.org/query?order=id=1=~%s
>
> See this howto for how to set custom search engines
> in various browsers:
>
> https://www.howtogeek.com/114176
>

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[sage-devel] SearchForest

[Anne Schilling]

Dear All,

I upgraded to the latest development version and now my research code 
complains that SearchForest cannot be found in sage.combinat.backtrack any 
longer. How come there is no deprecation warning? Where did the code go?

Best wishes,

Anne

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Re: [sage-devel] trouble compiling development version

[Anne Schilling]

Thank you, everyone, for your comments! The laptop indeed used the wrong 
python3 configuration. This is likely due to the fact that I copied all my 
files from an old laptop over, so it got confused. Sage builds now again!

Thank you,

Anne



On Tuesday, September 1, 2020 at 3:56:05 PM UTC-7 zsc...@gmail.com wrote:

> Also, it says that you have homebrew on your system.  Does 'brew doctor' 
> complain about having python on your path? Maybe you might want to try to 
> delete all of the old versions of python on your system and remove them 
> from your PATH.
>
> You might also consider following the homebrew recommendations (installing 
> gcc@9 will stop gfortran 9 from compiling from scratch) and then running 
> "source /Applications/sage/.homebrew-build-env" before you configure and 
> make.
>
> On Tuesday, September 1, 2020 at 6:49:12 PM UTC-4 Zachary Scherr wrote:
>
>> You said that you are running 10.15.6 but something looks very bizarre 
>> with the python3 that configure is picking up.  It looks like it is using
>>
>> /Library/Frameworks/Python.framework/Versions/3.7/bin/python3.7
>>
>> since this python is first in your PATH.
>>
>> Could you try running this python and then issuing:
>>
>> >>> import sysconfig
>> >>> sysconfig.get_config_var('MACOSX_DEPLOYMENT_TARGET')
>>
>> If you see it saying '10.9' then this might be related to your problem.
>>
>> On my Catalina, configure finds python3 in /usr/bin, and if I issue those 
>> same commands I get '10.14'.  So maybe your PATH is causing sage to find an 
>> older version of python 3 which is causing things to mess up.  Maybe 
>> somebody with more experience can chime in, but I would guess that this is 
>> related to your problem.
>>
>> On Tuesday, September 1, 2020 at 6:36:28 PM UTC-4 dim...@gmail.com wrote:
>>
>>> On Tue, Sep 1, 2020 at 6:13 PM Anne Schilling  
>>> wrote: 
>>> > 
>>> > Hi! 
>>> > 
>>> > I am having trouble (once again) to compile the latest development 
>>> version of sage, see 
>>> > 
>>> > https://www.math.ucdavis.edu/~anne/kiwisolver-1.0.1.log 
>>> > 
>>> > This is on MacOS 10.15.6. 
>>> > 
>>> > Any ideas? 
>>> see 
>>> https://kiwisolver.readthedocs.io/en/latest/basis/installation.html 
>>> it says 
>>> --- 
>>> For MacOSX users on OSX Mojave, one needs to set 
>>> MACOSX_DEPLOYMENT_TARGET to higher than 10.9 to force the compiler to 
>>> use the new C++ stdlib: 
>>>
>>> $ export MACOSX_DEPLOYMENT_TARGET=10.10 
>>> --- 
>>>
>>> I'd do this export and hit "make" again 
>>>
>>> HTH 
>>> Dima 
>>>
>>>
>>>
>>> > 
>>> > Anne 
>>> > 
>>> >  
>>> > [maxima-5.44.0] Copying package files from temporary location 
>>> /Applications/sage/local/var/tmp/sage/build/maxima-5.44.0/inst to 
>>> /Applications/sage/local 
>>> > [maxima-5.44.0] Successfully installed maxima-5.44.0 
>>> > [maxima-5.44.0] Deleting temporary build directory 
>>> > [maxima-5.44.0] 
>>> /Applications/sage/local/var/tmp/sage/build/maxima-5.44.0 
>>> > [maxima-5.44.0] Finished installing maxima-5.44.0 
>>> > [gfortran-9.2.0] Finished installing gfortran-9.2.0 
>>> > make[2]: *** [all-start] Error 2 
>>> > 
>>> > real 202m12.303s 
>>> > user 144m55.131s 
>>> > sys 25m56.364s 
>>> > *** 
>>> > Error building Sage. 
>>> > 
>>> > The following package(s) may have failed to build (not necessarily 
>>> > during this run of 'make all-start'): 
>>> > 
>>> > * package: kiwisolver-1.0.1 
>>> > last build time: Sep 1 02:41 
>>> > log file: /Applications/sage/logs/pkgs/kiwisolver-1.0.1.log 
>>> > build directory: 
>>> /Applications/sage/local/var/tmp/sage/build/kiwisolver-1.0.1 
>>> > 
>>> > It is safe to delete any log files and build directories, but they 
>>> > contain information that is helpful for debugging build problems. 
>>> > WARNING: If you now run 'make' again, the build directory of the 
>>> > same version of the package will, by default, be deleted. Set the 
>>> > environment variable SAGE_KEEP_BUILT_SPKGS=yes to prevent this. 
>>> > 
>>> > make[1]: *** [all-start] Error 1 
>>> > make: *** [all] Error 2 
>>> > 
>>> > -- 
>>> > 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+...@googlegroups.com. 
>>> > To view this discussion on the web visit 
>>> https://groups.google.com/d/msgid/sage-devel/0505a395-a133-47b1-956d-0334e07f9cedo%40googlegroups.com.
>>>  
>>>
>>>
>>

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Re: [sage-devel] Re: trouble compiling development version

[Anne Schilling]

Here is the top level log file:

https://www.math.ucdavis.edu/~anne/ 
<https://www.math.ucdavis.edu/~anne/kiwisolver-1.0.1.log>config.log

I did run ./configure before make.

Anne

On 9/1/20 10:52 AM, Matthias Koeppe wrote:
> Please post the top-level config.log too
>
> On Tuesday, September 1, 2020 at 10:13:22 AM UTC-7, Anne Schilling wrote:
>
> Hi!
>
> I am having trouble (once again) to compile the latest development 
> version of sage, see
>
> https://www.math.ucdavis.edu/~anne/kiwisolver-1.0.1.log 
> <https://www.math.ucdavis.edu/~anne/kiwisolver-1.0.1.log>
>
> This is on MacOS 10.15.6.
>
> Any ideas?
>
> Anne
>
> 
> [maxima-5.44.0] Copying package files from temporary location 
> /Applications/sage/local/var/tmp/sage/build/maxima-5.44.0/inst to 
> /Applications/sage/local
> [maxima-5.44.0] Successfully installed maxima-5.44.0
> [maxima-5.44.0] Deleting temporary build directory
> [maxima-5.44.0] /Applications/sage/local/var/tmp/sage/build/maxima-5.44.0
> [maxima-5.44.0] Finished installing maxima-5.44.0
> [gfortran-9.2.0] Finished installing gfortran-9.2.0
> make[2]: *** [all-start] Error 2
>
> real    202m12.303s
> user    144m55.131s
> sys    25m56.364s
> ***
> Error building Sage.
>
> The following package(s) may have failed to build (not necessarily
> during this run of 'make all-start'):
>
> * package: kiwisolver-1.0.1
>   last build time: Sep 1 02:41
>   log file:    /Applications/sage/logs/pkgs/kiwisolver-1.0.1.log
>   build directory: 
> /Applications/sage/local/var/tmp/sage/build/kiwisolver-1.0.1
>
> It is safe to delete any log files and build directories, but they
> contain information that is helpful for debugging build problems.
> WARNING: If you now run 'make' again, the build directory of the
> same version of the package will, by default, be deleted. Set the
> environment variable SAGE_KEEP_BUILT_SPKGS=yes to prevent this.
>
> make[1]: *** [all-start] Error 1
> make: *** [all] Error 2
>

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[sage-devel] trouble compiling development version

[Anne Schilling]

Hi!

I am having trouble (once again) to compile the latest development version 
of sage, see

https://www.math.ucdavis.edu/~anne/kiwisolver-1.0.1.log

This is on MacOS 10.15.6.

Any ideas?

Anne


[maxima-5.44.0] Copying package files from temporary location 
/Applications/sage/local/var/tmp/sage/build/maxima-5.44.0/inst to 
/Applications/sage/local
[maxima-5.44.0] Successfully installed maxima-5.44.0
[maxima-5.44.0] Deleting temporary build directory
[maxima-5.44.0] /Applications/sage/local/var/tmp/sage/build/maxima-5.44.0
[maxima-5.44.0] Finished installing maxima-5.44.0
[gfortran-9.2.0] Finished installing gfortran-9.2.0
make[2]: *** [all-start] Error 2

real202m12.303s
user144m55.131s
sys25m56.364s
***
Error building Sage.

The following package(s) may have failed to build (not necessarily
during this run of 'make all-start'):

* package: kiwisolver-1.0.1
  last build time: Sep 1 02:41
  log file:/Applications/sage/logs/pkgs/kiwisolver-1.0.1.log
  build directory: 
/Applications/sage/local/var/tmp/sage/build/kiwisolver-1.0.1

It is safe to delete any log files and build directories, but they
contain information that is helpful for debugging build problems.
WARNING: If you now run 'make' again, the build directory of the
same version of the package will, by default, be deleted. Set the
environment variable SAGE_KEEP_BUILT_SPKGS=yes to prevent this.

make[1]: *** [all-start] Error 1
make: *** [all] Error 2

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Re: [sage-devel] trouble building sage on mac

[Anne Schilling]

Thank you all for your help! Finally I got sage to install. There were 
permission issues with my /usr/local folder, which prevented brew from 
working correctly.

Anne

On Wednesday, July 1, 2020 at 5:55:42 AM UTC-7, Dima Pasechnik wrote:
>
> my working conjecture was that Anne had two conflicting installations 
> of freetype, for I cannot imagine Homebrew serving version 2.3 of 
> freetype. 
>
>
> On Wed, Jul 1, 2020 at 1:36 PM Zachary Scherr  > wrote: 
> > 
> > Also, you might also consider doing something like the following: 
> > 
> > > cd /usr 
> > > find -L . -name 'ftheader.h' 
> > 
> > you should see the following locations: 
> > 
> > ./local/include/freetype2/freetype/config/ftheader.h 
> > 
> ./local/var/homebrew/linked/freetype/include/freetype2/freetype/config/ftheader.h
>  
>
> > ./local/opt/freetype2/include/freetype2/freetype/config/ftheader.h 
> > ./local/opt/freetype/include/freetype2/freetype/config/ftheader.h 
> > 
> ./local/Cellar/freetype/2.10.2/include/freetype2/freetype/config/ftheader.h 
> > 
> > notice though that 
> "/usr/local/Cellar/freetype/2.10.2/include/freetype2/freetype/config/ftheader.h"
>  
> is the real file and the others should all be symlinks of this one. 
> > 
> > On Wednesday, July 1, 2020 at 8:26:58 AM UTC-4 Zachary Scherr wrote: 
> >> 
> >> Hi All, 
> >> 
> >>I just thought I would chime in on the homebrew side of things.  I 
> have freetype installed via homebrew on Catalina 10.15.5 and when I execute 
> >> 
> >> > pkg-config --modversion freetype2 
> >> 
> >> I get back 23.2.17.  Anne seemed to get back version 9.8.3, which means 
> that something is screwy with your freetype. 
> >> 
> >> Some things you could try: 
> >> 
> >> 1). If you have already installed freetype via homebrew then you can 
> try 
> >>  brew unlink freetype && brew link freetype 
> >> 
> >> 2). It's possible that "brew doctor" will pick up on the 
> inconsistencies and will give recommendations as to how to fix it. 
> >> 
> >> Your log file specifically mentioned that the system could not find 
> ftconfig.h.  With freetype correctly installed via homebrew you can do the 
> following: 
> >> 
> >> cd /usr/local/include 
> >> ls -l | grep freetype2 
> >> 
> >> and you should see that that folder is symlinked to 
> /usr/local/Cellar/freetype/2.10.2/include/freetype2 which is the folder 
> that actually contains all the freetype header files. 
> >> 
> >> Not sure how much you want to invest in fixing this, but my suggestion 
> would be to head to /usr/local and try to find ftheader.h, which is the 
> header file that defines where ftconfig.h is located.  If you find any 
> ftheader.h file that is not originating from 
> local/Cellar/freetype/2.10.2/include/freetype2/freetype/config/ftheader.h 
> then you should delete it. 
> >> 
> >> 
> >> 
> >> On Wednesday, July 1, 2020 at 2:53:05 AM UTC-4 dim...@gmail.com wrote: 
> >>> 
> >>> 
> >>> 
> >>> On Wed, 1 Jul 2020, 07:41 Anne Schilling,  
> wrote: 
> >>>> 
> >>>> 
> >>>> 
> >>>> On Tuesday, June 30, 2020 at 12:22:47 AM UTC-7, Dima Pasechnik wrote: 
> >>>>> 
> >>>>> 
> >>>>> 
> >>>>> On Tue, 30 Jun 2020, 07:46 Anne Schilling,  
> wrote: 
> >>>>>> 
> >>>>>> Here is the new config.log file. It still does not build: 
> >>>>>> 
> >>>>>> https://www.math.ucdavis.edu/~anne/config.log 
> >>>>> 
> >>>>> 
> >>>>> do you get the same error while building pillow (missing header)? If 
> so, it looks as if you removed the old freetype dylib files, but left 
> headers there. 
> >>>> 
> >>>> 
> >>>> Thank you, but what exactly am I supposed to delete? I delete the 
> folder /usr/local/Cellar/freetype 
> >>> 
> >>> 
> >>> you had to delete the installation of freetype in /usr/local/{lib, 
> include, lib/pkgconfig}. 
> >>> 
> >>> and after that, (re)install freetype in Homebrew. 
> >>> 
> >>> Deleting /usr/local/Cellar/freetype 
> >>> probably was not a good idea - that is where, I guess, you have a good 
> installation of freetype (which you should uninstall using the brew 
> commands, not just deleting from shell) 

Re: [sage-devel] trouble building sage on mac

[Anne Schilling]

On Tuesday, June 30, 2020 at 12:22:47 AM UTC-7, Dima Pasechnik wrote:
>
>
>
> On Tue, 30 Jun 2020, 07:46 Anne Schilling,  > wrote:
>
>> Here is the new config.log file. It still does not build:
>>
>> https://www.math.ucdavis.edu/~anne/config.log 
>> <https://www.google.com/url?q=https%3A%2F%2Fwww.math.ucdavis.edu%2F~anne%2Fconfig.log=D=1=AFQjCNGHbWAuGZkjNWZ_oCVmDNSsBSqS0w>
>>
>
> do you get the same error while building pillow (missing header)? If so, 
> it looks as if you removed the old freetype dylib files, but left headers 
> there.
>

Thank you, but what exactly am I supposed to delete? I delete the folder 
/usr/local/Cellar/freetype

Also, did you source .homebrew-build-env
> before doing ./configure && make ?
> As you use libraries from Homebrew, this might be crucial.
>

I did that and it still does not work. See

https://www.math.ucdavis.edu/~anne/config.log 
<https://www.google.com/url?q=https%3A%2F%2Fwww.math.ucdavis.edu%2F~anne%2Fconfig.log=D=1=AFQjCNGHbWAuGZkjNWZ_oCVmDNSsBSqS0w>

Is it possible that this might be an issue

https://github.com/Homebrew/legacy-homebrew/issues/43471


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Re: [sage-devel] trouble building sage on mac

[Anne Schilling]

Here is the new config.log file. It still does not build:

https://www.math.ucdavis.edu/~anne/config.log

On Monday, June 29, 2020 at 10:53:44 AM UTC-7, Dima Pasechnik wrote:
>
> On Mon, Jun 29, 2020 at 6:41 PM Anne Schilling 
> > wrote: 
> > 
> > Hi Dima, 
> > 
> > I removed the freetype directory in /usr/local but still get an error 
>
> after this, please re-run `./configure` followed by `make` 
> (and post the new config.log again, if it still breaks.) 
>
> > 
> > [giac-1.5.0.63-p0] Finished installing giac-1.5.0.63-p0.spkg 
> > make[2]: *** [all-start] Error 2 
> > 
> > real8m22.565s 
> > user33m16.224s 
> > sys1m44.180s 
> > *** 
> > Error building Sage. 
> > 
> > The following package(s) may have failed to build (not necessarily 
> > during this run of 'make all-start'): 
> > 
> > * package: pillow-5.3.0.p0 
> >   last build time: Jun 29 10:15 
> >   log file:/Applications/sage/logs/pkgs/pillow-5.3.0.p0.log 
> >   build directory: 
> /Applications/sage/local/var/tmp/sage/build/pillow-5.3.0.p0 
> > 
> > * package: matplotlib-2.2.5 
> >   last build time: Jun 29 10:28 
> >   log file:/Applications/sage/logs/pkgs/matplotlib-2.2.5.log 
> >   build directory: 
> /Applications/sage/local/var/tmp/sage/build/matplotlib-2.2.5 
> > 
> > It is safe to delete any log files and build directories, but they 
> > contain information that is helpful for debugging build problems. 
> > WARNING: If you now run 'make' again, the build directory of the 
> > same version of the package will, by default, be deleted. Set the 
> > environment variable SAGE_KEEP_BUILT_SPKGS=yes to prevent this. 
> > 
> > make[1]: *** [all-start] Error 1 
> > make: *** [all] Error 2 
> > 
> > 
> > On Monday, June 29, 2020 at 4:26:08 AM UTC-7, Dima Pasechnik wrote: 
> >> 
> >> On Mon, Jun 29, 2020 at 12:08 PM Anne Schilling 
> >>  wrote: 
> >> > 
> >> > 
> >> >> thanks. What is the output of 
> >> >> 
> >> >> $ pkg-config --modversion freetype2 
> >> >> 
> >> >> for you? 
> >> > 
> >> > 
> >> > sage anne$ pkg-config --modversion freetype2 
> >> > 9.8.3 
> >> 
> >> this is a very old freetype, older than the needed version 2.4 or 
> >> newer. So indeed, you hit the bug 
> >> being fixed by https://trac.sagemath.org/ticket/30014 
> >> 
> >> Can you just remove that old freetype from /usr/local (you probably 
> >> installed it many  years ago and don't need, it just 
> >> sits in /usr/local, preventing Homebrew from installing an update 
> >> there) and re-install freetype from Homebrew? 
> >> 
> >> > 
> >> > -- 
> >> > 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-...@googlegroups.com. 
> >> > To view this discussion on the web visit 
> https://groups.google.com/d/msgid/sage-devel/32310499-8294-4aa8-a403-9da677bd1d60o%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-...@googlegroups.com . 
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>  
>
>

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Re: [sage-devel] trouble building sage on mac

[Anne Schilling]

Hi Dima,

I removed the freetype directory in /usr/local but still get an error

[giac-1.5.0.63-p0] Finished installing giac-1.5.0.63-p0.spkg
make[2]: *** [all-start] Error 2

real8m22.565s
user33m16.224s
sys1m44.180s
***
Error building Sage.

The following package(s) may have failed to build (not necessarily
during this run of 'make all-start'):

* package: pillow-5.3.0.p0
  last build time: Jun 29 10:15
  log file:/Applications/sage/logs/pkgs/pillow-5.3.0.p0.log
  build directory: 
/Applications/sage/local/var/tmp/sage/build/pillow-5.3.0.p0

* package: matplotlib-2.2.5
  last build time: Jun 29 10:28
  log file:/Applications/sage/logs/pkgs/matplotlib-2.2.5.log
  build directory: 
/Applications/sage/local/var/tmp/sage/build/matplotlib-2.2.5

It is safe to delete any log files and build directories, but they
contain information that is helpful for debugging build problems.
WARNING: If you now run 'make' again, the build directory of the
same version of the package will, by default, be deleted. Set the
environment variable SAGE_KEEP_BUILT_SPKGS=yes to prevent this.

make[1]: *** [all-start] Error 1
make: *** [all] Error 2


On Monday, June 29, 2020 at 4:26:08 AM UTC-7, Dima Pasechnik wrote:
>
> On Mon, Jun 29, 2020 at 12:08 PM Anne Schilling 
> > wrote: 
> > 
> > 
> >> thanks. What is the output of 
> >> 
> >> $ pkg-config --modversion freetype2 
> >> 
> >> for you? 
> > 
> > 
> > sage anne$ pkg-config --modversion freetype2 
> > 9.8.3 
>
> this is a very old freetype, older than the needed version 2.4 or 
> newer. So indeed, you hit the bug 
> being fixed by https://trac.sagemath.org/ticket/30014 
>
> Can you just remove that old freetype from /usr/local (you probably 
> installed it many  years ago and don't need, it just 
> sits in /usr/local, preventing Homebrew from installing an update 
> there) and re-install freetype from Homebrew? 
>
> > 
> > -- 
> > 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-...@googlegroups.com . 
> > To view this discussion on the web visit 
> https://groups.google.com/d/msgid/sage-devel/32310499-8294-4aa8-a403-9da677bd1d60o%40googlegroups.com.
>  
>
>

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Re: [sage-devel] trouble building sage on mac

[Anne Schilling]

> thanks. What is the output of 
>
> $ pkg-config --modversion freetype2 
>
> for you? 
>

sage anne$ pkg-config --modversion freetype2
9.8.3

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Re: [sage-devel] trouble building sage on mac

[Anne Schilling]

Hi Dima,

Thank you for your answer. Here is the config.log file

https://www.math.ucdavis.edu/~anne/config.log

Cheers,

Anne

On Sunday, June 28, 2020 at 2:29:27 AM UTC-7, Dima Pasechnik wrote:
>
> Cause pillow finds a broken install of freetype here: /usr/local/lib 
> (which causes the problem: 
> /usr/local/include/freetype2/freetype/freetype.h:51:10: fatal error: 
> 'freetype/config/ftconfig.h' file not found) 
>
> as well as here: /usr/local/Cellar/freetype/2.10.1 
> - which should be OK. 
>
> Does your configuration build freetype ---something you can see in the 
> main config.log--- 
> or is it configured to use one of these 
> (in config.log you'd see "use system package and not install SPKG 
> freetype") 
>
> pillow does something crazy, anyway: 
>  
> Looking for `freetype2` using pkg-config. 
> Appending path /usr/local/lib 
> Appending path /usr/local/include/freetype2 
> Looking for `lcms2` using pkg-config. 
> Looking for `libimagequant` using pkg-config. 
> Appending path /Applications/sage/local/lib 
> Appending path /Applications/sage/local/include 
> Appending path 
> /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include
>  
>
> Appending path /opt/local/lib 
> Appending path /opt/local/include 
> Appending path /usr/local/include 
> Appending path /usr/local/Cellar/freetype/2.10.1/lib 
> Appending path /usr/local/Cellar/freetype/2.10.1/include 
> ... 
>
>
> On Sun, Jun 28, 2020 at 6:14 AM Anne Schilling 
> > wrote: 
> > 
> > Hi, 
> > 
> > I am trying to build the latest stable release of sage (master branch) 
> from source on MacOS 10.15.5 
> > and got the following error. Any ideas? 
> > 
> > Best wishes, 
> > 
> > Anne 
> > 
> > --- 
> > 
> > Found local metadata for pillow-5.3.0.p0 
> > Attempting to download package Pillow-5.3.0.tar.gz from mirrors 
> > 
> http://mirrors.xmission.com/sage/spkg/upstream/pillow/Pillow-5.3.0.tar.gz 
> > [..] 
> > pillow-5.3.0.p0 
> >  
> > Setting up build directory for pillow-5.3.0.p0 
> > Finished extraction 
> > Applying patches from ../patches... 
> > Applying ../patches/setup.py.patch 
> > patching file setup.py 
> >  
> > Host system: 
> > Darwin lolita.local 19.5.0 Darwin Kernel Version 19.5.0: Tue May 26 
> 20:41:44 PDT 2020; root:xnu-6153.121.2~2/RELEASE_X86_64 x86_64 
> >  
> > C compiler: gcc 
> > C compiler version: 
> > Configured with: --prefix=/Applications/Xcode.app/Contents/Developer/usr 
> --with-gxx-include-dir=/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/c++/4.2.1
>  
>
> > Apple clang version 11.0.3 (clang-1103.0.32.62) 
> > Target: x86_64-apple-darwin19.5.0 
> > Thread model: posix 
> > InstalledDir: 
> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin
>  
>
> >  
> > Package 'pillow' is currently not installed 
> > No legacy uninstaller found for 'pillow'; nothing to do 
> > running build_ext 
> > Package libopenjp2 was not found in the pkg-config search path. 
> > Perhaps you should add the directory containing `libopenjp2.pc' 
> > to the PKG_CONFIG_PATH environment variable 
> > No package 'libopenjp2' found 
> > Package libopenjp2 was not found in the pkg-config search path. 
> > Perhaps you should add the directory containing `libopenjp2.pc' 
> > to the PKG_CONFIG_PATH environment variable 
> > No package 'libopenjp2' found 
> > Package libtiff-5 was not found in the pkg-config search path. 
> > Perhaps you should add the directory containing `libtiff-5.pc' 
> > to the PKG_CONFIG_PATH environment variable 
> > No package 'libtiff-5' found 
> > Package libtiff-5 was not found in the pkg-config search path. 
> > Perhaps you should add the directory containing `libtiff-5.pc' 
> > to the PKG_CONFIG_PATH environment variable 
> > No package 'libtiff-5' found 
> > Package lcms2 was not found in the pkg-config search path. 
> > Perhaps you should add the directory containing `lcms2.pc' 
> > to the PKG_CONFIG_PATH environment variable 
> > No package 'lcms2' found 
> > Package lcms2 was not found in the pkg-config search path. 
> > Perhaps you should add the directory containing `lcms2.pc' 
>

Re: [sage-devel] Re: trouble upgrading to latest stable version

[Anne Schilling]

Thank you!

Anne

On Tuesday, May 26, 2020 at 11:59:26 AM UTC-7, Salvatore Stella wrote:
>
> Unpacking of lambda functions' arguments is, alas,  no longer supported in 
> python3. 
>
> cf. https://www.python.org/dev/peps/pep-3113/ 
>
> S. 
>
>
>
> * Anne Schilling > [2020-05-26 
> 11:24:01]: 
>
> >Ok, success!!! Finally sage compiled for me using Matthias' suggestion of 
> >"./configure --without-system-freetype" 
> >before make. 
> > 
> >Something else must have changed though since sage does not like my 
> >sage.init file any longer: 
> > 
> >sage 
> >┌┐ 
> >│ SageMath version 9.1, Release Date: 2020-05-20 │ 
> >│ Using Python 3.7.7. Type "help()" for help.│ 
> >└┘ 
> >  File "", line 15 
> >latex_options = {'format': "dot2tex", 
> >'edge_labels':True,'color_by_label':{Integer(1):"blue", Integer(2):"red", 
> >Integer(3):"green", Integer(4):"yellow",-Integer(1):"blue", 
> >-Integer(2):"red", -Integer(3):"green",-Integer(4):"yellow"}, 
> >'edge_options': lambda (u,v,l): {'backward': l is not None and 
> >l>Integer(0)}} 
> > 
> >^ 
> >SyntaxError: invalid syntax 
> > 
> >On Tuesday, May 26, 2020 at 12:11:38 AM UTC-7, Matthias Koeppe wrote: 
> >> 
> >> By "install freetype by hand", do you mean you installed with homebrew? 
> >> If not, that's worth trying. 
> >> Alternatively, you could try "./configure --without-system-freetype" 
> >> before "make". 
> >> 
> >> Matthias 
> >> 
> >> On Tuesday, May 26, 2020 at 12:06:57 AM UTC-7, Anne Schilling wrote: 
> >>> 
> >>> https://www.math.ucdavis.edu/~anne/config.log 
> >>> 
> >>> On Tuesday, May 26, 2020 at 12:00:46 AM UTC-7, Matthias Koeppe wrote: 
> >>>> 
> >>>> config.log again please... 
> >>>> 
> >>>> On Monday, May 25, 2020 at 11:53:50 PM UTC-7, Anne Schilling wrote: 
> >>>>> 
> >>>>> Thank you! I installed all those. Now it hangs here: 
> >>>>> 
> >>>>> https://www.math.ucdavis.edu/~anne/matplotlib-2.2.5.log 
> >>>>> 
> >>>>> I tried to install freetype by hand, but it does not seem to help. 
> >>>>> 
> >>>>> 
> > 
> >-- 
> >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-...@googlegroups.com . 
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>  
>
>
>

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Re: [sage-devel] Re: trouble upgrading to latest stable version

[Anne Schilling]

Ok, success!!! Finally sage compiled for me using Matthias' suggestion of 
"./configure --without-system-freetype" 
before make.

Something else must have changed though since sage does not like my 
sage.init file any longer:

sage
┌┐
│ SageMath version 9.1, Release Date: 2020-05-20 │
│ Using Python 3.7.7. Type "help()" for help.│
└┘
  File "", line 15
latex_options = {'format': "dot2tex", 
'edge_labels':True,'color_by_label':{Integer(1):"blue", Integer(2):"red", 
Integer(3):"green", Integer(4):"yellow",-Integer(1):"blue", 
-Integer(2):"red", -Integer(3):"green",-Integer(4):"yellow"}, 
'edge_options': lambda (u,v,l): {'backward': l is not None and 
l>Integer(0)}}



 
^
SyntaxError: invalid syntax

On Tuesday, May 26, 2020 at 12:11:38 AM UTC-7, Matthias Koeppe wrote:
>
> By "install freetype by hand", do you mean you installed with homebrew? 
> If not, that's worth trying.
> Alternatively, you could try "./configure --without-system-freetype" 
> before "make".
>
> Matthias
>
> On Tuesday, May 26, 2020 at 12:06:57 AM UTC-7, Anne Schilling wrote:
>>
>> https://www.math.ucdavis.edu/~anne/config.log
>>
>> On Tuesday, May 26, 2020 at 12:00:46 AM UTC-7, Matthias Koeppe wrote:
>>>
>>> config.log again please...
>>>
>>> On Monday, May 25, 2020 at 11:53:50 PM UTC-7, Anne Schilling wrote:
>>>>
>>>> Thank you! I installed all those. Now it hangs here:
>>>>
>>>> https://www.math.ucdavis.edu/~anne/matplotlib-2.2.5.log
>>>>
>>>> I tried to install freetype by hand, but it does not seem to help.
>>>>
>>>>

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Re: [sage-devel] Re: trouble upgrading to latest stable version

[Anne Schilling]

https://www.math.ucdavis.edu/~anne/config.log

On Tuesday, May 26, 2020 at 12:00:46 AM UTC-7, Matthias Koeppe wrote:
>
> config.log again please...
>
> On Monday, May 25, 2020 at 11:53:50 PM UTC-7, Anne Schilling wrote:
>>
>> Thank you! I installed all those. Now it hangs here:
>>
>> https://www.math.ucdavis.edu/~anne/matplotlib-2.2.5.log
>>
>> I tried to install freetype by hand, but it does not seem to help.
>>
>> On Monday, May 25, 2020 at 7:44:16 PM UTC-7, Matthias Koeppe wrote:
>>>
>>> You could try if "brew install libpng" fixes this problem (otherwise 
>>> you'd need to manually clean out /usr/local/lib/libpng*)
>>>
>>> Also, note that at the end of the configure output, some commands were 
>>> recommended: "brew install boost cmake glpk gsl gd mpfi ninja openblas pcre 
>>> ppl r yasm zeromq"; I second this recommendation 
>>>
>>>
>>>
>>> On Monday, May 25, 2020 at 7:41:13 PM UTC-7, Matthias Koeppe wrote:
>>>>
>>>> On Monday, May 25, 2020 at 6:59:09 PM UTC-7, Anne Schilling wrote:
>>>>>
>>>>>
>>>>>
>>>>> On Monday, May 25, 2020 at 6:35:01 PM UTC-7, Matthias Koeppe wrote:
>>>>>>
>>>>>> Could you try with the commands:
>>>>>>
>>>>>>  . ./.homebrew-build-env
>>>>>>  ./configure
>>>>>>
>>>>>> and post the output of the latter?
>>>>>>
>>>>>
>>>>> After installing python3 with homebrew is got further. Now it hangs 
>>>>> here:
>>>>>
>>>>> https://www.math.ucdavis.edu/~anne/m4ri-20200115.log
>>>>>
>>>>>
>>>> Looks like there's some really old stuff in /usr/local, perhaps from an 
>>>> ancient homebrew or MacPorts installation?. From the log:
>>>>
>>>>
>>>> libtool: link: gcc -dynamiclib  -o .libs/libm4ri-0.0.20200115.dylib  
>>>> m4ri/.libs/brilliantrussian.o m4ri/.libs/misc.o m4ri/.libs/mzd.o 
>>>> m4ri/.libs/graycode.o m4ri/.libs/strassen.o m4ri/.libs/mzp.o 
>>>> m4ri/.libs/triangular.o m4ri/.libs/triangular_russian.o m4ri/.libs/ple.o 
>>>> m4ri/.libs/ple_russian.o m4ri/.libs/solve.o m4ri/.libs/echelonform.o 
>>>> m4ri/.libs/mmc.o m4ri/.libs/debug_dump.o m4ri/.libs/io.o m4ri/.libs/djb.o 
>>>> m4ri/.libs/mp.o   -L/Applications/sage/local/lib -L/usr/local/lib -lpng12 
>>>> -lz  -mmmx -msse -msse2 -msse3 -g -O2 -Wl,-rpath 
>>>> -Wl,/Applications/sage/local/lib   -install_name  
>>>> /Applications/sage/local/lib/libm4ri-0.0.20200115.dylib  -Wl,-single_module
>>>>> ld: warning: ignoring file /usr/local/lib/libpng12.dylib, missing 
>>>>> required architecture x86_64 in file /usr/local/lib/libpng12.dylib (2 
>>>>> slices)
>>>>> Undefined symbols for architecture x86_64:
>>>>>   "_png_create_info_struct", referenced from:
>>>>>
>>>>>
>>>>>
>>>>
>>>>
>>>>  
>>>>
>>>

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Re: [sage-devel] Re: trouble upgrading to latest stable version

[Anne Schilling]

Thank you! I installed all those. Now it hangs here:

https://www.math.ucdavis.edu/~anne/matplotlib-2.2.5.log

I tried to install freetype by hand, but it does not seem to help.

On Monday, May 25, 2020 at 7:44:16 PM UTC-7, Matthias Koeppe wrote:
>
> You could try if "brew install libpng" fixes this problem (otherwise you'd 
> need to manually clean out /usr/local/lib/libpng*)
>
> Also, note that at the end of the configure output, some commands were 
> recommended: "brew install boost cmake glpk gsl gd mpfi ninja openblas pcre 
> ppl r yasm zeromq"; I second this recommendation 
>
>
>
> On Monday, May 25, 2020 at 7:41:13 PM UTC-7, Matthias Koeppe wrote:
>>
>> On Monday, May 25, 2020 at 6:59:09 PM UTC-7, Anne Schilling wrote:
>>>
>>>
>>>
>>> On Monday, May 25, 2020 at 6:35:01 PM UTC-7, Matthias Koeppe wrote:
>>>>
>>>> Could you try with the commands:
>>>>
>>>>  . ./.homebrew-build-env
>>>>  ./configure
>>>>
>>>> and post the output of the latter?
>>>>
>>>
>>> After installing python3 with homebrew is got further. Now it hangs here:
>>>
>>> https://www.math.ucdavis.edu/~anne/m4ri-20200115.log
>>>
>>>
>> Looks like there's some really old stuff in /usr/local, perhaps from an 
>> ancient homebrew or MacPorts installation?. From the log:
>>
>>
>> libtool: link: gcc -dynamiclib  -o .libs/libm4ri-0.0.20200115.dylib  
>> m4ri/.libs/brilliantrussian.o m4ri/.libs/misc.o m4ri/.libs/mzd.o 
>> m4ri/.libs/graycode.o m4ri/.libs/strassen.o m4ri/.libs/mzp.o 
>> m4ri/.libs/triangular.o m4ri/.libs/triangular_russian.o m4ri/.libs/ple.o 
>> m4ri/.libs/ple_russian.o m4ri/.libs/solve.o m4ri/.libs/echelonform.o 
>> m4ri/.libs/mmc.o m4ri/.libs/debug_dump.o m4ri/.libs/io.o m4ri/.libs/djb.o 
>> m4ri/.libs/mp.o   -L/Applications/sage/local/lib -L/usr/local/lib -lpng12 
>> -lz  -mmmx -msse -msse2 -msse3 -g -O2 -Wl,-rpath 
>> -Wl,/Applications/sage/local/lib   -install_name  
>> /Applications/sage/local/lib/libm4ri-0.0.20200115.dylib  -Wl,-single_module
>>> ld: warning: ignoring file /usr/local/lib/libpng12.dylib, missing required 
>>> architecture x86_64 in file /usr/local/lib/libpng12.dylib (2 slices)
>>> Undefined symbols for architecture x86_64:
>>>   "_png_create_info_struct", referenced from:
>>>
>>>
>>>
>>
>>
>>  
>>
>

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Re: [sage-devel] Re: trouble upgrading to latest stable version

[Anne Schilling]

Thank you! I have homebrew installed. So I just do

brew install python3 ?

Installing the python package that Dima suggested did not help.
I am trying to avoid installing a new operating system right now since I 
anyway ordered a new computer.

Best,

Anne

On Monday, May 25, 2020 at 6:05:42 PM UTC-7, Matthias Koeppe wrote:
>
> I agree, updating the OS if possible, and/or installing homebrew and 
> python3 from homebrew would be the way to go.
>
> On Monday, May 25, 2020 at 4:37:22 PM UTC-7, Dima Pasechnik wrote:
>>
>> Hi Anne, 
>> openssl is a never-ending problem on macOS, and in your case it's made 
>> worse by an old macOS version. 
>> One cannot expect much support and development on macOS 10.12, as it 
>> has reached EOL in 2019. 
>>
>> One way out would be to install Python 3.7 from cpython, and then Sage 
>> will just use it, without building. 
>>
>> https://www.python.org/ftp/python/3.7.7/python-3.7.7-macosx10.9.pkg 
>>
>> (or, alternatively, install Homebrew, then you can use many more 
>> packages from there without building) 
>>
>> HTH 
>> Dima 
>>
>> On Tue, May 26, 2020 at 12:11 AM Anne Schilling 
>>  wrote: 
>> > 
>> > Hi Dima, 
>> > 
>> > Thank you! I have run make distclean and now it gets stuck here: 
>> > 
>> > https://www.math.ucdavis.edu/~anne/python3-3.7.3.p1.log 
>> > 
>> > It looks like there is a problem with openssl. 
>> > 
>> > Any idea? 
>> > 
>> > Anne 
>> > 
>> > On Monday, May 25, 2020 at 10:52:29 AM UTC-7, Dima Pasechnik wrote: 
>> >> 
>> >> Hi Anne, 
>> >> it appears from your config.log that you did not do 
>> >> 
>> >> make distclean 
>> >> 
>> >> moreover, it says that R is already installed, and should not get 
>> reinstalled. 
>> >> 
>> >> Does Sage start? I guess not. 
>> >> If before the latest git pull you had an oldish Sage (closer to 9.0 
>> than to 9.1) 
>> >> it appears that the build system is totally confused. 
>> >> So you most probably need to do distclean. 
>> >> 
>> >> HTH 
>> >> Dima 
>> >> 
>> >> 
>> >> 
>> >> On Mon, 25 May 2020, 17:28 Anne Schilling,  
>> wrote: 
>> >>> 
>> >>> Hi Dima, 
>> >>> 
>> >>> I pulled the changes using git in the master branch and started make 
>> (or make distclean). 
>> >>> This is running on MacOS 10.12.6 . 
>> >>> 
>> >>> https://www.math.ucdavis.edu/~anne/config.log 
>> >>> https://www.math.ucdavis.edu/~anne/r-3.6.2.p0.log 
>> >>> https://www.math.ucdavis.edu/~anne/dochtml.log 
>> >>> 
>> >>> Thank you! 
>> >>> 
>> >>> Anne 
>> >>> 
>> >>> On Monday, May 25, 2020 at 1:29:33 AM UTC-7, Dima Pasechnik wrote: 
>> >>>> 
>> >>>> On Mon, May 25, 2020 at 7:44 AM Anne Schilling 
>> >>>>  wrote: 
>> >>>> > 
>> >>>> > 
>> >>>> > 
>> >>>> > On Sunday, May 24, 2020 at 10:27:19 PM UTC-7, Matthias Koeppe 
>> wrote: 
>> >>>> >> 
>> >>>> >> Hi Anne, 
>> >>>> >> 
>> >>>> >> On Sunday, May 24, 2020 at 9:40:42 PM UTC-7, Anne Schilling 
>> wrote: 
>> >>>> >>> 
>> >>>> >>> Downloading the Sage mirror list 
>> >>>> >>> CRITICAL [mirror_list|_load:91]: Downloaded mirror list has 
>> syntax error: error code: 1010 
>> >>>> >>> Searching fastest mirror 
>> >>>> >>> ERROR [mirror_list|_rank_mirrors:145]: Could not reach any 
>> mirror directly and no proxy set 
>> >>>> >> 
>> >>>> >> 
>> >>>> >> Here's a workaround: 
>> >>>> >> 
>> >>>> >> echo '["http://files.sagemath.org/;]' > upstream/mirror_list 
>> >>>> >> 
>> >>>> >> 
>> >>>> >> I hope this helps, 
>> >>>> >> Matthias 
>> >>>> > 
>> >>>> > 
>> >>>> > Thank you, that got me a lot further. But now it is stuck here: 
>> >>>> > 
>> >>>> > [mat

Re: [sage-devel] Re: trouble upgrading to latest stable version

[Anne Schilling]

Hi Dima,

Thank you! I have run make distclean and now it gets stuck here:

https://www.math.ucdavis.edu/~anne/python3-3.7.3.p1.log

It looks like there is a problem with openssl.

Any idea?

Anne

On Monday, May 25, 2020 at 10:52:29 AM UTC-7, Dima Pasechnik wrote:
>
> Hi Anne,
> it appears from your config.log that you did not do 
>
> make distclean
>
> moreover, it says that R is already installed, and should not get 
> reinstalled.
>
> Does Sage start? I guess not.
> If before the latest git pull you had an oldish Sage (closer to 9.0 than 
> to 9.1)
> it appears that the build system is totally confused.
> So you most probably need to do distclean.
>
> HTH
> Dima
>
>
>
> On Mon, 25 May 2020, 17:28 Anne Schilling,  > wrote:
>
>> Hi Dima,
>>
>> I pulled the changes using git in the master branch and started make (or 
>> make distclean).
>> This is running on MacOS 10.12.6 .
>>
>> https://www.math.ucdavis.edu/~anne/config.log
>> https://www.math.ucdavis.edu/~anne/r-3.6.2.p0.log
>> https://www.math.ucdavis.edu/~anne/dochtml.log
>>
>> Thank you!
>>
>> Anne
>>
>> On Monday, May 25, 2020 at 1:29:33 AM UTC-7, Dima Pasechnik wrote:
>>>
>>> On Mon, May 25, 2020 at 7:44 AM Anne Schilling 
>>>  wrote: 
>>> > 
>>> > 
>>> > 
>>> > On Sunday, May 24, 2020 at 10:27:19 PM UTC-7, Matthias Koeppe wrote: 
>>> >> 
>>> >> Hi Anne, 
>>> >> 
>>> >> On Sunday, May 24, 2020 at 9:40:42 PM UTC-7, Anne Schilling wrote: 
>>> >>> 
>>> >>> Downloading the Sage mirror list 
>>> >>> CRITICAL [mirror_list|_load:91]: Downloaded mirror list has syntax 
>>> error: error code: 1010 
>>> >>> Searching fastest mirror 
>>> >>> ERROR [mirror_list|_rank_mirrors:145]: Could not reach any mirror 
>>> directly and no proxy set 
>>> >> 
>>> >> 
>>> >> Here's a workaround: 
>>> >> 
>>> >> echo '["http://files.sagemath.org/;]' > upstream/mirror_list 
>>> >> 
>>> >> 
>>> >> I hope this helps, 
>>> >> Matthias 
>>> > 
>>> > 
>>> > Thank you, that got me a lot further. But now it is stuck here: 
>>> > 
>>> > [matplotlib-2.2.5] running install_egg_info 
>>> > [matplotlib-2.2.5] running egg_info 
>>> > [matplotlib-2.2.5] writing lib/matplotlib.egg-info/PKG-INFO 
>>> > [matplotlib-2.2.5] writing dependency_links to 
>>> lib/matplotlib.egg-info/dependency_links.txt 
>>> > [matplotlib-2.2.5] writing namespace_packages to 
>>> lib/matplotlib.egg-info/namespace_packages.txt 
>>> > [matplotlib-2.2.5] writing requirements to 
>>> lib/matplotlib.egg-info/requires.txt 
>>> > [matplotlib-2.2.5] writing top-level names to 
>>> lib/matplotlib.egg-info/top_level.txt 
>>> > [matplotlib-2.2.5] reading manifest file 
>>> 'lib/matplotlib.egg-info/SOURCES.txt' 
>>> > [matplotlib-2.2.5] reading manifest template 'MANIFEST.in' 
>>> > [matplotlib-2.2.5] writing manifest file 
>>> 'lib/matplotlib.egg-info/SOURCES.txt' 
>>> > [matplotlib-2.2.5] Copying lib/matplotlib.egg-info to 
>>> /Applications/sage/local/var/tmp/sage/build/matplotlib-2.2.5/inst/Applications/sage/local/lib/python3.7/site-packages/matplotlib-2.2.5-py3.7.egg-info
>>>  
>>>
>>> > [matplotlib-2.2.5] Installing 
>>> /Applications/sage/local/var/tmp/sage/build/matplotlib-2.2.5/inst/Applications/sage/local/lib/python3.7/site-packages/matplotlib-2.2.5-py3.7-nspkg.pth
>>>  
>>>
>>> > [matplotlib-2.2.5] running install_scripts 
>>> > [matplotlib-2.2.5] writing list of installed files to 
>>> '/private/var/folders/sq/gx2hlzhj315g48j_8r39s8p8gp/T/pip-record-rmt5izi9/install-record.txt'
>>>  
>>>
>>> > [matplotlib-2.2.5] Running setup.py install for matplotlib: 
>>> finished with status 'done' 
>>> > [matplotlib-2.2.5]   Removing source in 
>>> /private/var/folders/sq/gx2hlzhj315g48j_8r39s8p8gp/T/pip-req-build-l19fxrx8
>>>  
>>>
>>> > [matplotlib-2.2.5] Successfully installed matplotlib-2.2.5 
>>> > [matplotlib-2.2.5] Cleaning up... 
>>> > [matplotlib-2.2.5] Removed build tracker 
>>> '/private/var/folders/sq/gx2hlzhj315g48j_8r39s8p8gp/T/pip-req-tracker-rxz0bq3j'

Re: [sage-devel] Re: trouble upgrading to latest stable version

[Anne Schilling]

Hi Dima,

I pulled the changes using git in the master branch and started make (or 
make distclean).
This is running on MacOS 10.12.6 .

https://www.math.ucdavis.edu/~anne/config.log
https://www.math.ucdavis.edu/~anne/r-3.6.2.p0.log
https://www.math.ucdavis.edu/~anne/dochtml.log

Thank you!

Anne

On Monday, May 25, 2020 at 1:29:33 AM UTC-7, Dima Pasechnik wrote:
>
> On Mon, May 25, 2020 at 7:44 AM Anne Schilling 
> > wrote: 
> > 
> > 
> > 
> > On Sunday, May 24, 2020 at 10:27:19 PM UTC-7, Matthias Koeppe wrote: 
> >> 
> >> Hi Anne, 
> >> 
> >> On Sunday, May 24, 2020 at 9:40:42 PM UTC-7, Anne Schilling wrote: 
> >>> 
> >>> Downloading the Sage mirror list 
> >>> CRITICAL [mirror_list|_load:91]: Downloaded mirror list has syntax 
> error: error code: 1010 
> >>> Searching fastest mirror 
> >>> ERROR [mirror_list|_rank_mirrors:145]: Could not reach any mirror 
> directly and no proxy set 
> >> 
> >> 
> >> Here's a workaround: 
> >> 
> >> echo '["http://files.sagemath.org/;]' > upstream/mirror_list 
> >> 
> >> 
> >> I hope this helps, 
> >> Matthias 
> > 
> > 
> > Thank you, that got me a lot further. But now it is stuck here: 
> > 
> > [matplotlib-2.2.5] running install_egg_info 
> > [matplotlib-2.2.5] running egg_info 
> > [matplotlib-2.2.5] writing lib/matplotlib.egg-info/PKG-INFO 
> > [matplotlib-2.2.5] writing dependency_links to 
> lib/matplotlib.egg-info/dependency_links.txt 
> > [matplotlib-2.2.5] writing namespace_packages to 
> lib/matplotlib.egg-info/namespace_packages.txt 
> > [matplotlib-2.2.5] writing requirements to 
> lib/matplotlib.egg-info/requires.txt 
> > [matplotlib-2.2.5] writing top-level names to 
> lib/matplotlib.egg-info/top_level.txt 
> > [matplotlib-2.2.5] reading manifest file 
> 'lib/matplotlib.egg-info/SOURCES.txt' 
> > [matplotlib-2.2.5] reading manifest template 'MANIFEST.in' 
> > [matplotlib-2.2.5] writing manifest file 
> 'lib/matplotlib.egg-info/SOURCES.txt' 
> > [matplotlib-2.2.5] Copying lib/matplotlib.egg-info to 
> /Applications/sage/local/var/tmp/sage/build/matplotlib-2.2.5/inst/Applications/sage/local/lib/python3.7/site-packages/matplotlib-2.2.5-py3.7.egg-info
>  
>
> > [matplotlib-2.2.5] Installing 
> /Applications/sage/local/var/tmp/sage/build/matplotlib-2.2.5/inst/Applications/sage/local/lib/python3.7/site-packages/matplotlib-2.2.5-py3.7-nspkg.pth
>  
>
> > [matplotlib-2.2.5] running install_scripts 
> > [matplotlib-2.2.5] writing list of installed files to 
> '/private/var/folders/sq/gx2hlzhj315g48j_8r39s8p8gp/T/pip-record-rmt5izi9/install-record.txt'
>  
>
> > [matplotlib-2.2.5] Running setup.py install for matplotlib: finished 
> with status 'done' 
> > [matplotlib-2.2.5]   Removing source in 
> /private/var/folders/sq/gx2hlzhj315g48j_8r39s8p8gp/T/pip-req-build-l19fxrx8
>  
>
> > [matplotlib-2.2.5] Successfully installed matplotlib-2.2.5 
> > [matplotlib-2.2.5] Cleaning up... 
> > [matplotlib-2.2.5] Removed build tracker 
> '/private/var/folders/sq/gx2hlzhj315g48j_8r39s8p8gp/T/pip-req-tracker-rxz0bq3j'
>  
>
> > [matplotlib-2.2.5] 
> > [matplotlib-2.2.5] real6m10.218s 
> > [matplotlib-2.2.5] user0m35.266s 
> > [matplotlib-2.2.5] sys0m4.548s 
> > [matplotlib-2.2.5] Copying package files from temporary location 
> /Applications/sage/local/var/tmp/sage/build/matplotlib-2.2.5/inst to 
> /Applications/sage/local 
> > [matplotlib-2.2.5] Successfully installed matplotlib-2.2.5 
> > [matplotlib-2.2.5] Deleting temporary build directory 
> > [matplotlib-2.2.5] 
> /Applications/sage/local/var/tmp/sage/build/matplotlib-2.2.5 
> > [matplotlib-2.2.5] Finished installing matplotlib-2.2.5.spkg 
> > make[2]: *** [all-start] Error 2 
> > 
> > real48m47.186s 
> > user162m58.074s 
> > sys27m3.413s 
> > *** 
> > Error building Sage. 
> > 
> > The following package(s) may have failed to build (not necessarily 
> > during this run of 'make all-start'): 
> > 
> > * package: r-3.6.2.p0 
> >   last build time: May 24 23:28 
> >   log file:/Applications/sage/logs/pkgs/r-3.6.2.p0.log 
> >   build directory: 
> /Applications/sage/local/var/tmp/sage/build/r-3.6.2.p0 
> > 
> > * documentation: dochtml 
> >   last build time: May 24 22:43 
> >   log file:/Applications/sage/logs/pkgs/../dochtml.log 
>

[sage-devel] Re: trouble upgrading to latest stable version

[Anne Schilling]

On Sunday, May 24, 2020 at 10:27:19 PM UTC-7, Matthias Koeppe wrote:
>
> Hi Anne,
>
> On Sunday, May 24, 2020 at 9:40:42 PM UTC-7, Anne Schilling wrote:
>>
>> Downloading the Sage mirror list
>> CRITICAL [mirror_list|_load:91]: Downloaded mirror list has syntax error: 
>> error code: 1010
>> Searching fastest mirror
>> ERROR [mirror_list|_rank_mirrors:145]: Could not reach any mirror 
>> directly and no proxy set
>>
>
> Here's a workaround:
>
> echo '["http://files.sagemath.org/;]' > upstream/mirror_list 
>
>
> I hope this helps,
> Matthias
>

Thank you, that got me a lot further. But now it is stuck here:

[matplotlib-2.2.5] running install_egg_info
[matplotlib-2.2.5] running egg_info
[matplotlib-2.2.5] writing lib/matplotlib.egg-info/PKG-INFO
[matplotlib-2.2.5] writing dependency_links to 
lib/matplotlib.egg-info/dependency_links.txt
[matplotlib-2.2.5] writing namespace_packages to 
lib/matplotlib.egg-info/namespace_packages.txt
[matplotlib-2.2.5] writing requirements to 
lib/matplotlib.egg-info/requires.txt
[matplotlib-2.2.5] writing top-level names to 
lib/matplotlib.egg-info/top_level.txt
[matplotlib-2.2.5] reading manifest file 
'lib/matplotlib.egg-info/SOURCES.txt'
[matplotlib-2.2.5] reading manifest template 'MANIFEST.in'
[matplotlib-2.2.5] writing manifest file 
'lib/matplotlib.egg-info/SOURCES.txt'
[matplotlib-2.2.5] Copying lib/matplotlib.egg-info to 
/Applications/sage/local/var/tmp/sage/build/matplotlib-2.2.5/inst/Applications/sage/local/lib/python3.7/site-packages/matplotlib-2.2.5-py3.7.egg-info
[matplotlib-2.2.5] Installing 
/Applications/sage/local/var/tmp/sage/build/matplotlib-2.2.5/inst/Applications/sage/local/lib/python3.7/site-packages/matplotlib-2.2.5-py3.7-nspkg.pth
[matplotlib-2.2.5] running install_scripts
[matplotlib-2.2.5] writing list of installed files to 
'/private/var/folders/sq/gx2hlzhj315g48j_8r39s8p8gp/T/pip-record-rmt5izi9/install-record.txt'
[matplotlib-2.2.5] Running setup.py install for matplotlib: finished 
with status 'done'
[matplotlib-2.2.5]   Removing source in 
/private/var/folders/sq/gx2hlzhj315g48j_8r39s8p8gp/T/pip-req-build-l19fxrx8
[matplotlib-2.2.5] Successfully installed matplotlib-2.2.5
[matplotlib-2.2.5] Cleaning up...
[matplotlib-2.2.5] Removed build tracker 
'/private/var/folders/sq/gx2hlzhj315g48j_8r39s8p8gp/T/pip-req-tracker-rxz0bq3j'
[matplotlib-2.2.5] 
[matplotlib-2.2.5] real6m10.218s
[matplotlib-2.2.5] user0m35.266s
[matplotlib-2.2.5] sys0m4.548s
[matplotlib-2.2.5] Copying package files from temporary location 
/Applications/sage/local/var/tmp/sage/build/matplotlib-2.2.5/inst to 
/Applications/sage/local
[matplotlib-2.2.5] Successfully installed matplotlib-2.2.5
[matplotlib-2.2.5] Deleting temporary build directory
[matplotlib-2.2.5] 
/Applications/sage/local/var/tmp/sage/build/matplotlib-2.2.5
[matplotlib-2.2.5] Finished installing matplotlib-2.2.5.spkg
make[2]: *** [all-start] Error 2

real48m47.186s
user162m58.074s
sys27m3.413s
***
Error building Sage.

The following package(s) may have failed to build (not necessarily
during this run of 'make all-start'):

* package: r-3.6.2.p0
  last build time: May 24 23:28
  log file:/Applications/sage/logs/pkgs/r-3.6.2.p0.log
  build directory: /Applications/sage/local/var/tmp/sage/build/r-3.6.2.p0

* documentation: dochtml
  last build time: May 24 22:43
  log file:/Applications/sage/logs/pkgs/../dochtml.log

It is safe to delete any log files and build directories, but they
contain information that is helpful for debugging build problems.
WARNING: If you now run 'make' again, the build directory of the
same version of the package will, by default, be deleted. Set the
environment variable SAGE_KEEP_BUILT_SPKGS=yes to prevent this.

make[1]: *** [all-start] Error 1
make: *** [all] Error 2

 I can provide the log files if necessary.

Best,

Anne

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[sage-devel] trouble upgrading to latest stable version

[Anne Schilling]

Hi All,

I seem to have trouble upgrading my Sage to the latest stable version:

sage anne$ make
make -j4 build/make/Makefile --stop
./bootstrap -d
rm -rf config configure build/make/Makefile-auto.in
rm -f src/doc/en/installation/*.txt
src/doc/bootstrap:48: installing src/doc/en/installation/arch.txt and 
src/doc/en/installation/arch-optional.txt
src/doc/bootstrap:48: installing src/doc/en/installation/debian.txt and 
src/doc/en/installation/debian-optional.txt
src/doc/bootstrap:48: installing src/doc/en/installation/fedora.txt and 
src/doc/en/installation/fedora-optional.txt
src/doc/bootstrap:48: installing src/doc/en/installation/cygwin.txt and 
src/doc/en/installation/cygwin-optional.txt
src/doc/bootstrap:48: installing src/doc/en/installation/homebrew.txt and 
src/doc/en/installation/homebrew-optional.txt
gettext and the gettextize program must be installed and be in
your PATH. E.g. Homebrew installs them in /usr/local/opt/gettext/bin.
Bootstrap failed, downloading required files instead.
Attempting to download package 
configure-765c5cb3e24dd134708eca97e4c52e0221cd94ba.tar.gz from mirrors
Downloading the Sage mirror list
CRITICAL [mirror_list|_load:91]: Downloaded mirror list has syntax error: 
error code: 1010
Searching fastest mirror
ERROR [mirror_list|_rank_mirrors:145]: Could not reach any mirror directly 
and no proxy set

Traceback (most recent call last):
  File 
"/Applications/sage/build/bin/../sage_bootstrap/download/cmdline.py", line 
130, in run_safe
run()
  File 
"/Applications/sage/build/bin/../sage_bootstrap/download/cmdline.py", line 
112, in run
app.download_tarball(args.url_or_tarball, args.destination, 
args.allow_upstream)
  File "/Applications/sage/build/bin/../sage_bootstrap/download/app.py", 
line 41, in download_tarball
tarball.download(allow_upstream=allow_upstream)
  File "/Applications/sage/build/bin/../sage_bootstrap/tarball.py", line 
156, in download
for mirror in MirrorList():
  File 
"/Applications/sage/build/bin/../sage_bootstrap/download/mirror_list.py", 
line 69, in __init__
self._refresh()
  File 
"/Applications/sage/build/bin/../sage_bootstrap/download/mirror_list.py", 
line 185, in _refresh
self._rank_mirrors()
  File 
"/Applications/sage/build/bin/../sage_bootstrap/download/mirror_list.py", 
line 146, in _rank_mirrors
raise MirrorListException('Failed to connect to any mirror, probably no 
internet connection')
MirrorListException: Failed to connect to any mirror, probably no internet 
connection

Error: downloading 
configure-765c5cb3e24dd134708eca97e4c52e0221cd94ba.tar.gz failed
make[1]: *** [configure] Error 1
make: *** [base-toolchain] Error 2


Any idea why?

Best,

Anne

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Re: [sage-devel] Problems compiling sage

[Anne Schilling]

Thank you! That worked.

Anne

On Sunday, July 21, 2019 at 4:15:35 PM UTC-7, Dima Pasechnik wrote:
>
> On Sun, Jul 21, 2019 at 11:54 PM Anne Schilling 
> > wrote: 
> > 
> > Hi! 
> > 
> > I am have trouble building the latest version of Sage on MacOS 10.12.6. 
>
> I've seen something like this on OSX. 
> Try removing local/share/gap/ and local/lib/gap by hand and then 
> build again. 
>
> Hope this helps, 
> Dima 
>
>
> > 
> > 
> gap-4.10.2.p0/inst/Applications/sage/local/./share/gap/bin/x86_64-apple-darwin16.7.0-default64-kv3/src
>  
>
> >  
> > Error copying files for gap-4.10.2.p0. 
> >  
> > Please email sage-devel (http://groups.google.com/group/sage-devel) 
> > explaining the problem and including the log file 
> >   /Applications/sage/logs/pkgs/gap-4.10.2.p0.log 
> > Describe your computer, operating system, etc. 
> >  
> > 
> > See https://www.math.ucdavis.edu/~anne/gap-4.10.2.p0.log 
> > 
> > Any ideas? 
> > 
> > Anne 
> > 
> > -- 
> > 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-...@googlegroups.com . 
> > To view this discussion on the web visit 
> https://groups.google.com/d/msgid/sage-devel/9d8b9ed2-f791-41d8-873c-93220b048173%40googlegroups.com.
>  
>
>

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[sage-devel] Problems compiling sage

[Anne Schilling]

Hi!

I am have trouble building the latest version of Sage on MacOS 10.12.6.

gap-4.10.2.p0/inst/Applications/sage/local/./share/gap/bin/x86_64-apple-darwin16.7.0-default64-kv3/src

Error copying files for gap-4.10.2.p0.

Please email sage-devel (http://groups.google.com/group/sage-devel)
explaining the problem and including the log file
  /Applications/sage/logs/pkgs/gap-4.10.2.p0.log
Describe your computer, operating system, etc.


See https://www.math.ucdavis.edu/~anne/gap-4.10.2.p0.log

Any ideas?

Anne

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Re: [sage-devel] problem compiling the latest development version

[Anne Schilling]

Hi Dima,

I reinstalled xcode and now sage compiles again. Thanks for your help!

Anne

On Friday, April 19, 2019 at 12:09:35 PM UTC-7, Dima Pasechnik wrote:
>
> On Fri, Apr 19, 2019 at 7:20 PM Anne Schilling 
> > wrote: 
> > 
> > Thank you all for your suggestions! Dima's suggestion did not seem to 
> fix my problem. 
> > I did pull from develop again and now the elliptic problem is gone. But 
> the pillow problem 
> > is still there: 
>
> do you actually have /usr/lib/system/libsystem_darwin.dylib on your 
> system? 
> I suspect it must be present, or else it 
> > 
> > [sagelib-8.8.beta3] byte-compiling 
> /Applications/sage/local/lib/python2.7/site-packages/sage_setup/optional_extension.py
>  
> to optional_extension.pyc 
> > [sagelib-8.8.beta3] byte-compiling 
> /Applications/sage/local/lib/python2.7/site-packages/sage_setup/util.py to 
> util.pyc 
> > [sagelib-8.8.beta3] running install_egg_info 
> > [sagelib-8.8.beta3] Writing 
> /Applications/sage/local/lib/python2.7/site-packages/sage-8.8.beta3-py2.7.egg-info
>  
>
> > [sagelib-8.8.beta3] Cleaning up stale installed files 
> > [sagelib-8.8.beta3] - cleaning 
> /Applications/sage/local/lib/python2.7/site-packages 
> > [sagelib-8.8.beta3] - cleaning build/lib.macosx-10.9-x86_64-2.7 
> > [sagelib-8.8.beta3] Finished cleaning, time: 0.22 seconds. 
> > [sagelib-8.8.beta3] if [ "$UNAME" = "CYGWIN" ]; then 
> \ 
> > [sagelib-8.8.beta3] sage-rebase.sh "$SAGE_LOCAL" 2>/dev/null;   
>  \ 
> > [sagelib-8.8.beta3] fi 
> > [sagelib-8.8.beta3] 
> > [sagelib-8.8.beta3] real8m42.417s 
> > [sagelib-8.8.beta3] user31m53.513s 
> > [sagelib-8.8.beta3] sys0m58.010s 
> > make[2]: *** [all-start] Error 2 
> > 
> > real8m42.712s 
> > user32m26.636s 
> > sys1m9.140s 
> > *** 
> > Error building Sage. 
> > 
> > The following package(s) may have failed to build (not necessarily 
> > during this run of 'make all-start'): 
> > 
> > * package: pillow-5.3.0.p0 
> >   log file: /Applications/sage/logs/pkgs/pillow-5.3.0.p0.log 
> >   build directory: 
> /Applications/sage/local/var/tmp/sage/build/pillow-5.3.0.p0 
> > 
> > The build directory may contain configuration files and other 
> potentially 
> > helpful information. WARNING: if you now run 'make' again, the build 
> > directory will, by default, be deleted. Set the environment variable 
> > SAGE_KEEP_BUILT_SPKGS to 'yes' to prevent this. 
> > 
> > make[1]: *** [all-start] Error 1 
> > make: *** [all] Error 2 
> > 
> > https://www.math.ucdavis.edu/~anne/pillow-5.3.0.p0.log 
> What is the output of 
>
> otool -L /usr/lib/libSystem.B.dylib 
>
> On my OSX 10.14 system it includes /usr/lib/system/libsystem_darwin.dylib 
>
> (libSystem.B.dylib is a very important system library...) 
>
> Is  /usr/lib/system/libsystem_darwin.dylib present on your system? 
> If not, then you might need to reinstall your OS, or find this file 
> somewhere... 
>
> If yes, then it's not found by your ld, so you need to fix this somehow. 
> Probably something like 
>
> sudo update_dyld_shared_cache 
>
> HTH 
> Dima 
>
>
> Dima 
>
> > 
> > Best, 
> > 
> > Anne 
> > 
> > On Friday, April 19, 2019 at 9:26:34 AM UTC-7, E. Madison Bray wrote: 
> >> 
> >> On Fri, Apr 19, 2019 at 8:30 AM Dima Pasechnik  
> wrote: 
> >> > 
> >> > On Fri, Apr 19, 2019 at 7:33 AM Anne Schilling 
> >> >  wrote: 
> >> > > 
> >> > > This was after I ran 'make distclean'. You can view the logs here: 
> >> > > 
> >> > > https://www.math.ucdavis.edu/~anne/elliptic_curves-0.8.p0.log 
> >> > 
> >> > ImportError: No module named _sqlite3 
> >> > 
> >> > This look like a silent failure in building sqlite3, which is a 
> >> > standard package. 
> >> 
> >> I guess, besides the toolchain issue, it looks like having a working 
> >> _sqlite3 module is a dependency of the elliptic_curves package 
> >> install. 
> >> 
> >> In light of https://trac.sagemath.org/ticket/26899 we discussed at 
> >> some point adding zlib to the list of extension modules that Python 
> >> absolutely must build successfully.  But it seems that never got done. 
> >> I've opened a ticket for this and mentioned adding _sqlite3 to the 
> >> list as well: https://tra

Re: [sage-devel] problem compiling the latest development version

[Anne Schilling]

Thank you all for your suggestions! Dima's suggestion did not seem to fix 
my problem.
I did pull from develop again and now the elliptic problem is gone. But the 
pillow problem
is still there:

[sagelib-8.8.beta3] byte-compiling 
/Applications/sage/local/lib/python2.7/site-packages/sage_setup/optional_extension.py
 
to optional_extension.pyc
[sagelib-8.8.beta3] byte-compiling 
/Applications/sage/local/lib/python2.7/site-packages/sage_setup/util.py to 
util.pyc
[sagelib-8.8.beta3] running install_egg_info
[sagelib-8.8.beta3] Writing 
/Applications/sage/local/lib/python2.7/site-packages/sage-8.8.beta3-py2.7.egg-info
[sagelib-8.8.beta3] Cleaning up stale installed files
[sagelib-8.8.beta3] - cleaning 
/Applications/sage/local/lib/python2.7/site-packages
[sagelib-8.8.beta3] - cleaning build/lib.macosx-10.9-x86_64-2.7
[sagelib-8.8.beta3] Finished cleaning, time: 0.22 seconds.
[sagelib-8.8.beta3] if [ "$UNAME" = "CYGWIN" ]; 
then \
[sagelib-8.8.beta3] sage-rebase.sh "$SAGE_LOCAL" 
2>/dev/null;\
[sagelib-8.8.beta3] fi
[sagelib-8.8.beta3] 
[sagelib-8.8.beta3] real8m42.417s
[sagelib-8.8.beta3] user31m53.513s
[sagelib-8.8.beta3] sys0m58.010s
make[2]: *** [all-start] Error 2

real8m42.712s
user32m26.636s
sys1m9.140s
***
Error building Sage.

The following package(s) may have failed to build (not necessarily
during this run of 'make all-start'):

* package: pillow-5.3.0.p0
  log file: /Applications/sage/logs/pkgs/pillow-5.3.0.p0.log
  build directory: 
/Applications/sage/local/var/tmp/sage/build/pillow-5.3.0.p0

The build directory may contain configuration files and other potentially
helpful information. WARNING: if you now run 'make' again, the build
directory will, by default, be deleted. Set the environment variable
SAGE_KEEP_BUILT_SPKGS to 'yes' to prevent this.

make[1]: *** [all-start] Error 1
make: *** [all] Error 2

https://www.math.ucdavis.edu/~anne/pillow-5.3.0.p0.log

Best,

Anne

On Friday, April 19, 2019 at 9:26:34 AM UTC-7, E. Madison Bray wrote:
>
> On Fri, Apr 19, 2019 at 8:30 AM Dima Pasechnik  > wrote: 
> > 
> > On Fri, Apr 19, 2019 at 7:33 AM Anne Schilling 
> > > wrote: 
> > > 
> > > This was after I ran 'make distclean'. You can view the logs here: 
> > > 
> > > https://www.math.ucdavis.edu/~anne/elliptic_curves-0.8.p0.log 
> > 
> > ImportError: No module named _sqlite3 
> > 
> > This look like a silent failure in building sqlite3, which is a 
> > standard package. 
>
> I guess, besides the toolchain issue, it looks like having a working 
> _sqlite3 module is a dependency of the elliptic_curves package 
> install. 
>
> In light of https://trac.sagemath.org/ticket/26899 we discussed at 
> some point adding zlib to the list of extension modules that Python 
> absolutely must build successfully.  But it seems that never got done. 
> I've opened a ticket for this and mentioned adding _sqlite3 to the 
> list as well: https://trac.sagemath.org/ticket/27705 
>
> This would not immediately solve the problem Anne had  but at least 
> the root of the problem would be caught earlier.  Then, hopefully, the 
> solution Dima mentioned should work.  This seems to be more-or-less 
> the same problem as with zlib, and XCode no longer including standard 
> headers in /usr/include by default. 
>
>
>
> > > https://www.math.ucdavis.edu/~anne/pillow-5.3.0.p0.log 
> > this looks like a problem with your toolchain 
> > 
> > ld: file not found: /usr/lib/system/libsystem_darwin.dylib for 
> > architecture x86_64 
> > 
> > discussed e.g. on 
> > https://github.com/Homebrew/homebrew-php/issues/4590 
> > this and other similar places suggest to do 
> > 
> > sudo xcode-select -s /Library/Developer/CommandLineTools 
> > 
> > HTH 
> > Dima 
> > 
> > 
> > > 
> > > Anne 
> > > 
> > > On Thursday, April 18, 2019 at 10:07:28 PM UTC-7, Dima Pasechnik 
> wrote: 
> > >> 
> > >> How about posting logs of packages that failed to build? 
> > >> 
> > >> It would also be great to know whether it was a build from scratch. 
> > >> 
> > >> On Fri, 19 Apr 2019 07:03 Anne Schilling,  
> wrote: 
> > >>> 
> > >>> Hi! 
> > >>> 
> > >>> I have trouble compiling the latest development version of Sage on 
> MacOS 10.12.6: 
> > >>> 
> > >>> al/share/icons/hicolor/64x64/mimetypes 
> > >>> [giac-1.5.0.37.p1] mkdir 
> /Applications/sage/local/var/tmp/sage/build/giac-1.5.0.37.p1/inst/Applications/sage/local/share/i

Re: [sage-devel] problem compiling the latest development version

[Anne Schilling]

On Thursday, April 18, 2019 at 10:09:20 PM UTC-7, François Bissey wrote:
>
> And it has to be 8.8.beta2 or lower not beta3 which is the latest. 
> elliptic_curves has been 
> bumped to 0.8.1 in beta3. 
>

I did 

git pull
make distclean
make

in the develop branch. So I assumed it is the latest develop version.

Anne

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Re: [sage-devel] problem compiling the latest development version

[Anne Schilling]

This was after I ran 'make distclean'. You can view the logs here:

https://www.math.ucdavis.edu/~anne/elliptic_curves-0.8.p0.log
https://www.math.ucdavis.edu/~anne/pillow-5.3.0.p0.log

Anne

On Thursday, April 18, 2019 at 10:07:28 PM UTC-7, Dima Pasechnik wrote:
>
> How about posting logs of packages that failed to build?
>
> It would also be great to know whether it was a build from scratch.
>
> On Fri, 19 Apr 2019 07:03 Anne Schilling,  > wrote:
>
>> Hi!
>>
>> I have trouble compiling the latest development version of Sage on MacOS 
>> 10.12.6:
>>
>> al/share/icons/hicolor/64x64/mimetypes
>> [giac-1.5.0.37.p1] mkdir 
>> /Applications/sage/local/var/tmp/sage/build/giac-1.5.0.37.p1/inst/Applications/sage/local/share/icons/hicolor/32x32/mimetypes
>> [giac-1.5.0.37.p1] mkdir 
>> /Applications/sage/local/var/tmp/sage/build/giac-1.5.0.37.p1/inst/Applications/sage/local/share/icons/hicolor/16x16/mimetypes
>> [giac-1.5.0.37.p1] 
>> [giac-1.5.0.37.p1] real7m58.316s
>> [giac-1.5.0.37.p1] user24m11.636s
>> [giac-1.5.0.37.p1] sys0m54.736s
>> [giac-1.5.0.37.p1] Copying package files from temporary location 
>> /Applications/sage/local/var/tmp/sage/build/giac-1.5.0.37.p1/inst to 
>> /Applications/sage/local
>> [giac-1.5.0.37.p1] Successfully installed giac-1.5.0.37.p1
>> [giac-1.5.0.37.p1] Deleting temporary build directory
>> [giac-1.5.0.37.p1] 
>> /Applications/sage/local/var/tmp/sage/build/giac-1.5.0.37.p1
>> [giac-1.5.0.37.p1] Finished installing giac-1.5.0.37.p1.spkg
>> make[2]: *** [all-start] Error 2
>>
>> real9m56.979s
>> user33m21.853s
>> sys2m8.502s
>> ***
>> Error building Sage.
>>
>> The following package(s) may have failed to build (not necessarily
>> during this run of 'make all-start'):
>>
>> * package: elliptic_curves-0.8.p0
>>   log file: /Applications/sage/logs/pkgs/elliptic_curves-0.8.p0.log
>>   build directory: 
>> /Applications/sage/local/var/tmp/sage/build/elliptic_curves-0.8.p0
>>
>> * package: pillow-5.3.0.p0
>>   log file: /Applications/sage/logs/pkgs/pillow-5.3.0.p0.log
>>   build directory: 
>> /Applications/sage/local/var/tmp/sage/build/pillow-5.3.0.p0
>>
>> The build directory may contain configuration files and other potentially
>> helpful information. WARNING: if you now run 'make' again, the build
>> directory will, by default, be deleted. Set the environment variable
>> SAGE_KEEP_BUILT_SPKGS to 'yes' to prevent this.
>>
>> make[1]: *** [all-start] Error 1
>> make: *** [all] Error 2
>>
>> Does anyone know why?
>>
>> Thank you,
>>
>> Anne
>>
>> -- 
>> You received this message because you are subscribed to the Google Groups 
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>> To unsubscribe from this group and stop receiving emails from it, send an 
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>>
>

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[sage-devel] problem compiling the latest development version

[Anne Schilling]

Hi!

I have trouble compiling the latest development version of Sage on MacOS 
10.12.6:

al/share/icons/hicolor/64x64/mimetypes
[giac-1.5.0.37.p1] mkdir 
/Applications/sage/local/var/tmp/sage/build/giac-1.5.0.37.p1/inst/Applications/sage/local/share/icons/hicolor/32x32/mimetypes
[giac-1.5.0.37.p1] mkdir 
/Applications/sage/local/var/tmp/sage/build/giac-1.5.0.37.p1/inst/Applications/sage/local/share/icons/hicolor/16x16/mimetypes
[giac-1.5.0.37.p1] 
[giac-1.5.0.37.p1] real7m58.316s
[giac-1.5.0.37.p1] user24m11.636s
[giac-1.5.0.37.p1] sys0m54.736s
[giac-1.5.0.37.p1] Copying package files from temporary location 
/Applications/sage/local/var/tmp/sage/build/giac-1.5.0.37.p1/inst to 
/Applications/sage/local
[giac-1.5.0.37.p1] Successfully installed giac-1.5.0.37.p1
[giac-1.5.0.37.p1] Deleting temporary build directory
[giac-1.5.0.37.p1] 
/Applications/sage/local/var/tmp/sage/build/giac-1.5.0.37.p1
[giac-1.5.0.37.p1] Finished installing giac-1.5.0.37.p1.spkg
make[2]: *** [all-start] Error 2

real9m56.979s
user33m21.853s
sys2m8.502s
***
Error building Sage.

The following package(s) may have failed to build (not necessarily
during this run of 'make all-start'):

* package: elliptic_curves-0.8.p0
  log file: /Applications/sage/logs/pkgs/elliptic_curves-0.8.p0.log
  build directory: 
/Applications/sage/local/var/tmp/sage/build/elliptic_curves-0.8.p0

* package: pillow-5.3.0.p0
  log file: /Applications/sage/logs/pkgs/pillow-5.3.0.p0.log
  build directory: 
/Applications/sage/local/var/tmp/sage/build/pillow-5.3.0.p0

The build directory may contain configuration files and other potentially
helpful information. WARNING: if you now run 'make' again, the build
directory will, by default, be deleted. Set the environment variable
SAGE_KEEP_BUILT_SPKGS to 'yes' to prevent this.

make[1]: *** [all-start] Error 1
make: *** [all] Error 2

Does anyone know why?

Thank you,

Anne

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[sage-combinat-devel] Coding sprints at IMA

[Anne Schilling]

Dear All!

The IMA is soliciting applications for coding sprints for teams of 2-8 
participants to spend 3-5 days at the IMA
to work on Sage or Macaulay2. For details, see

https://www.ima.umn.edu/2018-2019/SW7.22-26.19

Please apply if you are interested!

Best wishes,

Anne

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[sage-devel] Coding Sprints at IMA

[Anne Schilling]

Dear All!

The IMA is soliciting applications for coding sprints for teams of 2-8 
participants to spend 3-5 days at the IMA
to work on Sage or Macaulay2. For details, see

https://www.ima.umn.edu/2018-2019/SW7.22-26.19

Please apply if you are interested!

Best wishes,

Anne

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[sage-combinat-devel] Re: Categories, Parents, Elements

[Anne Schilling]

Hi Bruce,
 

> For most combinatorial objects, the main things you want to implement are:
>
> - An __init__ for the parent that calls Parent.__init__(self, 
> category=cat), with cat either Sets(), EnumeratedSets(), 
> EnumeratedSets().Finite(), EnumeratedSets().Infinite(), etc.
> - An __init__ for the element that takes the parent as the first argument 
> that calls Element.__init__(self, parent) or whatever the reasonable base 
> class is.
> - Set the parent "Element" class level *attribute* to the corresponding 
> element class.
> - All elements with data D of a parent P you construct should be though 
> either P(D) or the more direct P.element_class(P, D).
> - An __iter__ for the parent if you know how to iterate over objects.
>
> The default _element_constructor_ is sufficient to handle the rest unless 
> you need some extra preprocessing that cannot be done in the element 
> class's __init__. However, see Simon's very good response for more specific 
> details.
>

Also, have a look at the implementation of k-tableaux in 
combinat/k_tableau.py. That should give an idea how to implement other 
kinds of tableaux.

Best,

Anne 

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[sage-devel] Re: Ribbon Tableaux

[Anne Schilling]

Hi Bruce,

I think this is very early code written by Mike Hansen and is not in the 
format that a lot of other code
in combinatorics is in. Since Franco Saliola and I actually recently ran 
into the same problems with this
code, I suggest that we make this a priority for the Sage Days at ICERM in 
July. Would you be able to
attend those?

Also, could you make a wishlist what you would want to do with ribbon 
tableaux?

Best wishes,

Anne

On Monday, May 14, 2018 at 11:30:38 AM UTC-7, Bruce Westbury wrote:
>
> Thanks Travis, i agree with your comments. My complaint is not just that 
> the functionality is not there (as you say, someone has to write it) but 
> that it has not been organised in a way that makes it simple for me to 
> implement the functionality I am interested in.
> Before I can start I have to figure out how to convert from the current 
> implementation to a chain of partitions. Apart from having a gripe, I 
> wanted to check it was not there and I hadn't found it. It seems it is not 
> implemented.
>
> I am confused about why this is a Tableau class if it doesn't implement 
> Tableau methods.
>
> On Sunday, 13 May 2018 23:38:22 UTC+1, Travis Scrimshaw wrote:
>>
>> Hi Bruce,
>>This is certainly an underdeveloped class in Sage. My understanding is 
>> that the implementation is primarily designed to compute (co)spin 
>> polynomials. However, there is documentation that probably should be added 
>> to the parent class. In particular, the 0's are all values that are 
>> uniquely determined by the values and positions of the non-0 entries and 
>> k-ribbon semistandardness, which is mentioned in the RibbonTableau doc 
>> (albeit a bit too briefly). +1 for adding more functionality, but it does 
>> need someone to add it.
>>
>> Best,
>> Travis
>>
>>
>> On Monday, May 14, 2018 at 3:55:18 AM UTC+10, Bruce Westbury wrote:
>>>
>>> I am finding the Ribbon Tableaux class frustrating. There seems to be no 
>>> functionality.
>>>
>>> If you create a ribbon tableau and look at it, it does not look like a 
>>> tableau
>>> and no interesting methods work because it does not look like a tableau 
>>> to sage.
>>>
>>> As far as I am concerned, a ribbon tableau is an increasing sequence of 
>>> partitions such that
>>> each difference is a ribbon shape. Although I can see how to get this 
>>> sequence by hand
>>> from the sage representation of a ribbon tableau I have not found any 
>>> way of getting sage
>>> to produce this list. Am I missing something?
>>>
>>

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[sage-devel] Error installing Sage

[Anne Schilling]

Hi!

With the latest development version of sage, I get the following error 
message when compiling on MacOS 10.12.6:

...
[gcc-5.4.0] user3m7.857s
[gcc-5.4.0] sys0m41.122s
[gcc-5.4.0] 

[gcc-5.4.0] Error installing package gcc-5.4.0
[gcc-5.4.0] 

[gcc-5.4.0] Please email sage-devel 
(http://groups.google.com/group/sage-devel)
[gcc-5.4.0] explaining the problem and including the log file
[gcc-5.4.0]   /Applications/sage/logs/pkgs/gcc-5.4.0.log
[gcc-5.4.0] Describe your computer, operating system, etc.
[gcc-5.4.0] If you want to try to fix the problem yourself, *don't* just cd 
to
[gcc-5.4.0] /Applications/sage/local/var/tmp/sage/build/gcc-5.4.0 and type 
'make' or whatever is appropriate.
[gcc-5.4.0] Instead, the following commands setup all environment variables
[gcc-5.4.0] correctly and load a subshell for you to debug the error:
[gcc-5.4.0]   (cd '/Applications/sage/local/var/tmp/sage/build/gcc-5.4.0' 
&& '/Applications/sage/sage' --sh)
[gcc-5.4.0] When you are done debugging, you can type "exit" to leave the 
subshell.
[gcc-5.4.0] 

make[2]: *** [/Applications/sage/local/var/lib/sage/installed/gcc-5.4.0] 
Error 1
make[1]: *** [all-toolchain] Error 2

real2m32.917s
user4m4.142s
sys1m2.171s
***
Error building Sage.

The following package(s) may have failed to build (not necessarily
during this run of 'make all'):

* package: gcc-5.4.0
  log file: /Applications/sage/logs/pkgs/gcc-5.4.0.log
  build directory: /Applications/sage/local/var/tmp/sage/build/gcc-5.4.0

The build directory may contain configuration files and other potentially
helpful information. WARNING: if you now run 'make' again, the build
directory will, by default, be deleted. Set the environment variable
SAGE_KEEP_BUILT_SPKGS to 'yes' to prevent this.

make: *** [all] Error 1

Any ideas?

Anne

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Re: [sage-devel] pip install on MacOS

[Anne Schilling]

Hi Nathan,

Thanks for the suggestion! I had tried this earlier and it had not worked 
(due to some network issues I had with the computer). But now I tried again 
and
it actually did work!

Thank you,

Anne

On Saturday, May 6, 2017 at 8:23:43 AM UTC-7, Nathan Dunfield wrote:
>
> On a good day, assuming the user has the Xcode command-line tools 
> installed, the following suffices to get pip working with the current 
> binary version of SageMath on macOS 10.12:
>
> sage -i openssl
> sage -f python2
>
> It would be great if the next release of SageMath had a working version of 
> pip on macOS as the current situation causes no end of trouble for a lot of 
> people. 
>
> Best, Nathan
>
>

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Re: [sage-devel] pip install on MacOS

[Anne Schilling]

Hi John,

Thank you, that worked!

It would still be interesting to understand whether the pip/ssl problem 
could be solved.

Best wishes,

Anne

On Friday, May 5, 2017 at 9:23:29 AM UTC-7, John H Palmieri wrote:
>
> This is not a solution to the pip/ssl problem, but for a single package 
> like snakeviz, you can go to https://pypi.python.org/pypi/snakeviz, 
> download the tar.gz file, and then do
>
>   sage -pip install /path/to/snakeviz-0.4.1.tar.gz
>
> -- 
> John
>

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[sage-devel] pip install

[Anne Schilling]

Hi!

I am having some trouble installing pip packages:

sage -pip install snakeviz
pip is configured with locations that require TLS/SSL, however the ssl 
module in Python is not available.
Collecting snakeviz
  Could not fetch URL https://pypi.python.org/simple/snakeviz/: There was a 
problem confirming the ssl certificate: Can't connect to HTTPS URL because 
the SSL module is not available. - skipping
  Could not find a version that satisfies the requirement snakeviz (from 
versions: )
No matching distribution found for snakeviz

When trying

make ssl
...
[pyopenssl]   Could not fetch URL https://pypi.python.org/simple/pyopenssl/: 
There was a problem confirming the ssl certificate: Can't connect to HTTPS URL 
because the SSL module is not available. -

I do have openssl installed:

openssl version -a
OpenSSL 1.1.0e  16 Feb 2017
built on: reproducible build, date unspecified
platform: darwin64-x86_64-cc
compiler: cc -DDSO_DLFCN -DHAVE_DLFCN_H -DNDEBUG -DOPENSSL_THREADS 
-DOPENSSL_NO_STATIC_ENGINE -DOPENSSL_PIC -DOPENSSL_IA32_SSE2 
-DOPENSSL_BN_ASM_MONT -DOPENSSL_BN_ASM_MONT5 -DOPENSSL_BN_ASM_GF2m -DSHA1_ASM 
-DSHA256_ASM -DSHA512_ASM -DRC4_ASM -DMD5_ASM -DAES_ASM -DVPAES_ASM -DBSAES_ASM 
-DGHASH_ASM -DECP_NISTZ256_ASM -DPADLOCK_ASM -DPOLY1305_ASM 
-DOPENSSLDIR="\"/usr/local/mac-dev-env/openssl-1.1.0e/ssl\"" 
-DENGINESDIR="\"/usr/local/mac-dev-env/openssl-1.1.0e/lib/engines-1.1\"" 
OPENSSLDIR: "/usr/local/mac-dev-env/openssl-1.1.0e/ssl"
ENGINESDIR: "/usr/local/mac-dev-env/openssl-1.1.0e/lib/engines-1.1"

Any ideas?

Anne

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Re: [sage-devel] Re: Trac slow

[Anne Schilling]

Thanks! I actually fixed my problem now. There was something broken with my 
openssl installation. Sorry for the noise!

Best,

Anne

On Friday, April 28, 2017 at 12:13:25 PM UTC-7, Volker Braun wrote:
>
> Did you run that from within UC Davis? There is quite a number of academic 
> networks that subscribe to the "if we filter out ICMP at the network border 
> we can't be hacked" fallacy. A better test would be:
>
>
> $ ssh g...@trac.sagemath.org 
> PTY allocation request failed on channel 0
> hello vbraun, this is git@trac running gitolite3 3.5.3.1-2 (Debian) on git 
> 1.9.1
>
>  R W gitolite-admin
>  R W sage
> Connection to trac.sagemath.org closed.
>
>
> PS: the github url is for releases, so if you want to work on tickets you 
> need to be able to connect to trac...
>
>

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Re: [sage-devel] Re: Trac slow

[Anne Schilling]

I am sorry if I posted in the wrong thread (should I open a new one?).

But for me this still does not work. I cannot even ping trac:

ping sine.math.ucdavis.edu
PING sine.math.ucdavis.edu (169.237.99.79): 56 data bytes
64 bytes from 169.237.99.79: icmp_seq=0 ttl=57 time=13.852 ms
64 bytes from 169.237.99.79: icmp_seq=1 ttl=57 time=16.273 ms


anne$ ping trac.sagemath.org
PING trac.sagemath.org (104.197.143.230): 56 data bytes
Request timeout for icmp_seq 0
Request timeout for icmp_seq 1
...

anne$ ping git.sagemath.org
PING trac.sagemath.org (104.197.143.230): 56 data bytes
Request timeout for icmp_seq 0
Request timeout for icmp_seq 1
...

Should I be using the github url 

url = git://github.com/sagemath/sage.git

This is not what my current set-up does (but it has always worked before):

anne$ git remote -v
origin  git://trac.sagemath.org/sage.git (fetch)
origin  git://trac.sagemath.org/sage.git (push)
tracgit://trac.sagemath.org/sage.git (fetch)
tracg...@trac.sagemath.org:sage.git (push)


Best,

Anne
On Friday, April 28, 2017 at 3:49:02 AM UTC-7, Kwankyu Lee wrote:
>
> Hi,
>
> For the remote origin, the usual configuration is 
>
> [remote "origin"]
> url = git://github.com/sagemath/sage.git
> fetch = +refs/heads/*:refs/remotes/origin/* 
>
> If the same fetch setting is used for the remote trac, then the git client 
> would try to download all heads from the trac. 
>
> I confess that I mistakenly committed this "crime" recently :-( and fixed 
> it as soon as I recognized it.
>
> Might this be a cause of the recent trac slowdown? By the way, I did not 
> experience it myself... I am not sure if this is related and/or makes 
> sense...
>
>
>

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Re: [sage-devel] Re: Trac slow

[Anne Schilling]

I just tried 

git fetch origin
fatal: unable to connect to trac.sagemath.org:
trac.sagemath.org[0: 104.197.143.230]: errno=Operation timed out

Is this related?

Anne

On Saturday, April 22, 2017 at 12:21:29 PM UTC-7, Michael Orlitzky wrote:
>
> On 04/21/2017 05:30 AM, Erik Bray wrote: 
> >> 
> >> Does this mean that we need some robots.txt somewhere, perhaps after 
> some 
> >> restructuring, 
> >> which would protect expensive resources from this sort of overload? 
> > 
> > There already is a robots.txt and this host was not respecting it. 
> > 
>
> If this becomes a bigger problem, one solution is to make sure the main 
> anonymous trac pages are cached plain HTML files, and to severely limit 
> e.g. the search function (with a CAPTCHA, rate limit, etc.) 
>
> One motivated person can still slow you down, but they'll have to at 
> least try -- I think most of these bot attacks are only accidentally a 
> denial of service. 
>
>

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Re: [sage-combinat-devel] How to cite properly if we use Schur and skew Schur functions?

[Anne Schilling]

You should cite Sage-combinat as described here

https://wiki.sagemath.org/combinat/CiteSageCombinat

and Sage as described here

https://wiki.sagemath.org/Publications_using_SageMath

Once your paper is on the arXiv and/or published, make sure to
list it on the publication site:

http://www.sagemath.org/library-publications-combinat.html

Best wishes,

Anne

On 4/11/17 1:03 AM, Egor Maximenko wrote:
> Dear Sage-Combinat developers, jointly with my colleagues we are using Sage 
> to test some formulas involving Schur and skew Schur functions.
> Principally we use SymmetricFunctions(QQ).s(), 
> SymmetricFunctions(QQ).s.skew_schur(), and algebraic operations in the Schur 
> basis.
> What would be the best way to acknowledge the developers?

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Re: [sage-combinat-devel] Re: combinat.sagemath.org

[Anne Schilling]

On 3/24/17 9:32 AM, Harald Schilly wrote:
> On Fri, Mar 24, 2017 at 5:47 AM, Anne Schilling <a...@math.ucdavis.edu> wrote:
>>> http://www.sagemath.org/library-publications-combinat.html
>>>
>>> ?
>>
>> Yes, thank you! I see that some references are outdated and some new
>> can be added. I will add those soon.
> 
> Well, a while ago nathan cohen submitted a few patches to get rid of
> those references from sagemath.org. Maybe I should add the entries
> back?
> 
> But anyways, submissions to the publication lists go through
> https://github.com/sagemath/publications
> I think it's good to collect all of them at a central place.
> 
> The sagemath/website repo references it as a submodule and uses the
> generated html files in its templates. There is no deep magic going
> on. I'm happy if someone helps with the publications repo. there are a
> couple of open tasks, etc.

Is just pushed a couple of updates to the references to the repository.
I hope you can see them.

I encourage everyone who knows of updates to do so as well!

Anne

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Re: [sage-combinat-devel] Re: combinat.sagemath.org

[Anne Schilling]

>> The Wiki page looks very different from before! It used to start with a list
>> of upcoming/recent events. Now it just has some links to disconnected
>> websites.
> 
> What is "the wiki page"?  https://wiki.sagemath.org/ still starts with
> a list of upcoming/recent events...

The wiki that was quoted in Nicolas' e-mail was

https://wiki.sagemath.org/Combinat/*

and it looks strange. I guess the correct address is

https://wiki.sagemath.org/combinat

Anne

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Re: [sage-combinat-devel] Re: combinat.sagemath.org

[Anne Schilling]

On 3/23/17 2:00 PM, Harald Schilly wrote:
> 
> 
> On Thursday, March 23, 2017 at 10:42:18 AM UTC+1, Anne Schilling wrote:
>> For example, we had
>> a list of all publications citing sage-combinat etc. there. This should be 
>> kept!
> 
> Do you mean these publications:
> 
> http://www.sagemath.org/library-publications-combinat.html
> 
> ?

Yes, thank you! I see that some references are outdated and some new
can be added. I will add those soon.

Are these references also incorporated into

http://www.sagemath.org/library-publications.html ?

Perhaps at some point it would be good to fuse the lists.

Anne

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[sage-combinat-devel] Re: combinat.sagemath.org

[Anne Schilling]

Hi!

The website http://combinat.sagemath.org/ seems to be down right now. I 
agree with Nicolas, that it would be good to keep this website. For 
example, we had 
a list of all publications citing sage-combinat etc. there. This should be 
kept!

The Wiki page looks very different from before! It used to start with a 
list of upcoming/recent events. Now it just has some links to disconnected 
websites.

Best,

Anne

On Wednesday, March 22, 2017 at 6:14:47 AM UTC-7, Matthew Rennekamp wrote:
>
> Hey, all.
> It's been awhile since this discussion. Are there any more Combinat people 
> that want these files open, or possibly the subdomain pointing to the 
> SageWiki page?
> I've changed my mind to support whoever administers the GitHub account to 
> move files on there, as long as there are more clear reasons for eg. forked 
> repos like MathJax, which seem to be there just because they can. So, if 
> there won't be a combinat.sagemath.org website, what does everyone on 
> this mailing list think of putting it all on GitHub?
>

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Re: [sage-combinat-devel] Re: strange convention for column words of (skew) tableaux

[Anne Schilling]

On 11/29/16 4:04 AM, Mike Zabrocki wrote:
> I agree that the two methods should not have the same name.
> My suggestion: deprecate one and call it 'to_word_by_column_reverse' 
> (although it seems weird to bother to include both).
> 
> Can SkewTableau inherit from Tableau and have 'to_word_by_column' there?

I would say the opposite: Tableau should inherit from SkewTableau since
every tableau is also a skew tableau, but not vice versa.

Anne

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Re: [sage-combinat-devel] Re: strange convention for column words of (skew) tableaux

[Anne Schilling]

Hi Andrew,

If someone had just copied the code from Tableaux to SkewTableaux,
then at least it would be consistent. I think it is really bad,
if a method changes convention with a parent, given that one
could be a subclass of the other.

Best,

Anne

On 11/28/16 1:23 PM, Andrew wrote:
> Hi Anne,
> 
> One of the problems with tableaux is that almost every possible variation of 
> any definition is used by some one. With this in mind we probably should 
> implement variations whenever possible. I don't
> know anything about the history of this particular method (git blame might 
> help), but I suspect that some one just copied the code from tableaux to skew 
> tableaux. I certainly have no objection either
> way as I don't use this method.
> 
> Andrew
> 
> On Tuesday, 29 November 2016 05:41:52 UTC+11, Anne Schilling wrote:
> 
> Hi Combinat developers,
> 
> Who came up with these conventions:
> 
> sage: s=Tableau([[4,5],[6,7],[7],[8]])
> sage: s.to_word_by_column()
> word: 876475
> sage: s=SkewTableau([[4,5],[6,7],[7],[8]])
> sage: s.to_word_by_column()
> word: 574678
> 
> The column word of a skew tableau is the reverse of that
> of a regular tableau. I think we should make the convention
> the same (using the tableau convention!!!).
> 
> What do you think?
> 
> Anne

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[sage-combinat-devel] strange convention for column words of (skew) tableaux

[Anne Schilling]

Hi Combinat developers,

Who came up with these conventions:

sage: s=Tableau([[4,5],[6,7],[7],[8]])
sage: s.to_word_by_column()
word: 876475
sage: s=SkewTableau([[4,5],[6,7],[7],[8]])
sage: s.to_word_by_column()
word: 574678

The column word of a skew tableau is the reverse of that
of a regular tableau. I think we should make the convention
the same (using the tableau convention!!!).

What do you think?

Anne

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Re: [sage-devel] trouble compiling latest sage development version

[Anne Schilling]

I reinstalled all of XCode now (not just the command line version) and sage 
compiles again! Yippieh! Thank you all for your help!

Anne

On Tuesday, October 11, 2016 at 9:18:22 PM UTC-7, François wrote:
>
> Ok the initial problem was with avx instructions. Either givaro gets 
> misconfigured in thinking you have avx or someone you get a broken 
> assembler. 
> Can you try 
> CXXFLAGS=“-Wa,-q” ./sage -i givaro 
>
> > On 12/10/2016, at 16:41, Anne Schilling <anne1.s...@gmail.com 
> > wrote: 
> > 
> > Wait, isn't this the error I started with before I upgraded to OSX 10.12 
> etc? I seem to be going in circles. 
> > Is this related to https://trac.sagemath.org/ticket/17635? 
> > 
> > Cheers, 
> > 
> > Anne 
> > 
> > On Tuesday, October 11, 2016 at 8:35:39 PM UTC-7, Anne Schilling wrote: 
> > Hi John, 
> > 
> > Thank you for the answer! I did what you suggested and this time, sage 
> started compiling and got to here: 
> > 
> >  
> > [gf2x-1.1.p1] make[5]: Nothing to be done for `install-exec-am'. 
> > [gf2x-1.1.p1] make[5]: Nothing to be done for `install-data-am'. 
> > [gf2x-1.1.p1] Making install in src 
> > [gf2x-1.1.p1] make  install-am 
> > [gf2x-1.1.p1] make[6]: Nothing to be done for `install-exec-am'. 
> > [gf2x-1.1.p1] make[6]: Nothing to be done for `install-data-am'. 
> > [gf2x-1.1.p1] 
> > [gf2x-1.1.p1] real4m35.653s 
> > [gf2x-1.1.p1] user4m21.480s 
> > [gf2x-1.1.p1] sys0m14.484s 
> > [gf2x-1.1.p1] Successfully installed gf2x-1.1.p1 
> > [gf2x-1.1.p1] Deleting temporary build directory 
> > [gf2x-1.1.p1] /Applications/sage/local/var/tmp/sage/build/gf2x-1.1.p1 
> > [gf2x-1.1.p1] Finished installing gf2x-1.1.p1.spkg 
> > make[1]: *** [all] Error 2 
> > 
> > real36m26.897s 
> > user95m0.211s 
> > sys12m51.527s 
> > *** 
> > Error building Sage. 
> > 
> > The following package(s) may have failed to build (not necessarily 
> > during this run of 'make all'): 
> > 
> > * package: givaro-4.0.2 
> >   log file: /Applications/sage/logs/pkgs/givaro-4.0.2.log 
> >   build directory: 
> /Applications/sage/local/var/tmp/sage/build/givaro-4.0.2 
> > 
> > The build directory may contain configuration files and other 
> potentially 
> > helpful information. WARNING: if you now run 'make' again, the build 
> > directory will, by default, be deleted. Set the environment variable 
> > SAGE_KEEP_BUILT_SPKGS to 'yes' to prevent this. 
> > 
> > make: *** [all] Error 1 
> > 
> > Any further ideas? 
> > 
> > Anne 
> >   
> > 
> > -- 
> > 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+...@googlegroups.com . 
> > To post to this group, send email to sage-...@googlegroups.com 
> . 
> > Visit this group at https://groups.google.com/group/sage-devel. 
> > For more options, visit https://groups.google.com/d/optout. 
>
>

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Re: [sage-devel] Re: trouble compiling latest sage development version

[Anne Schilling]

Wait, isn't this the error I started with before I upgraded to OSX 10.12 
etc? I seem to be going in circles.
Is this related to https://trac.sagemath.org/ticket/17635 
<https://www.google.com/url?q=https%3A%2F%2Ftrac.sagemath.org%2Fticket%2F17635=D=1=AFQjCNGuxdHtp6DEMGX9XeKzutigrXSMZA>
?

Cheers,

Anne

On Tuesday, October 11, 2016 at 8:35:39 PM UTC-7, Anne Schilling wrote:
>
> Hi John,
>
> Thank you for the answer! I did what you suggested and this time, sage 
> started compiling and got to here:
>
> 
> [gf2x-1.1.p1] make[5]: Nothing to be done for `install-exec-am'.
> [gf2x-1.1.p1] make[5]: Nothing to be done for `install-data-am'.
> [gf2x-1.1.p1] Making install in src
> [gf2x-1.1.p1] make  install-am
> [gf2x-1.1.p1] make[6]: Nothing to be done for `install-exec-am'.
> [gf2x-1.1.p1] make[6]: Nothing to be done for `install-data-am'.
> [gf2x-1.1.p1] 
> [gf2x-1.1.p1] real4m35.653s
> [gf2x-1.1.p1] user4m21.480s
> [gf2x-1.1.p1] sys0m14.484s
> [gf2x-1.1.p1] Successfully installed gf2x-1.1.p1
> [gf2x-1.1.p1] Deleting temporary build directory
> [gf2x-1.1.p1] /Applications/sage/local/var/tmp/sage/build/gf2x-1.1.p1
> [gf2x-1.1.p1] Finished installing gf2x-1.1.p1.spkg
> make[1]: *** [all] Error 2
>
> real36m26.897s
> user95m0.211s
> sys12m51.527s
> ***
> Error building Sage.
>
> The following package(s) may have failed to build (not necessarily
> during this run of 'make all'):
>
> * package: givaro-4.0.2
>   log file: /Applications/sage/logs/pkgs/givaro-4.0.2.log
>   build directory: /Applications/sage/local/var/tmp/sage/build/givaro-4.0.2
>
> The build directory may contain configuration files and other potentially
> helpful information. WARNING: if you now run 'make' again, the build
> directory will, by default, be deleted. Set the environment variable
> SAGE_KEEP_BUILT_SPKGS to 'yes' to prevent this.
>
> make: *** [all] Error 1
>
> Any further ideas?
>
> Anne
>  
>

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Re: [sage-devel] Re: trouble compiling latest sage development version

[Anne Schilling]

Hi John,

Thank you for the answer! I did what you suggested and this time, sage 
started compiling and got to here:


[gf2x-1.1.p1] make[5]: Nothing to be done for `install-exec-am'.
[gf2x-1.1.p1] make[5]: Nothing to be done for `install-data-am'.
[gf2x-1.1.p1] Making install in src
[gf2x-1.1.p1] make  install-am
[gf2x-1.1.p1] make[6]: Nothing to be done for `install-exec-am'.
[gf2x-1.1.p1] make[6]: Nothing to be done for `install-data-am'.
[gf2x-1.1.p1] 
[gf2x-1.1.p1] real4m35.653s
[gf2x-1.1.p1] user4m21.480s
[gf2x-1.1.p1] sys0m14.484s
[gf2x-1.1.p1] Successfully installed gf2x-1.1.p1
[gf2x-1.1.p1] Deleting temporary build directory
[gf2x-1.1.p1] /Applications/sage/local/var/tmp/sage/build/gf2x-1.1.p1
[gf2x-1.1.p1] Finished installing gf2x-1.1.p1.spkg
make[1]: *** [all] Error 2

real36m26.897s
user95m0.211s
sys12m51.527s
***
Error building Sage.

The following package(s) may have failed to build (not necessarily
during this run of 'make all'):

* package: givaro-4.0.2
  log file: /Applications/sage/logs/pkgs/givaro-4.0.2.log
  build directory: /Applications/sage/local/var/tmp/sage/build/givaro-4.0.2

The build directory may contain configuration files and other potentially
helpful information. WARNING: if you now run 'make' again, the build
directory will, by default, be deleted. Set the environment variable
SAGE_KEEP_BUILT_SPKGS to 'yes' to prevent this.

make: *** [all] Error 1

Any further ideas?

Anne
 

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Re: [sage-devel] Re: trouble compiling latest sage development version

[Anne Schilling]

Well, in fact now no matter what I do, I get this error. Even from the 
master branch:

make distclean
make -j4 build/make/Makefile
./bootstrap -d
rm -rf config configure build/make/Makefile-auto.in
./bootstrap: line 29: aclocal: command not found
Bootstrap failed, downloading required files instead.
Traceback (most recent call last):
  File "/Applications/sage/build/bin/sage-download-file", line 27, in 

from sage_bootstrap.download.cmdline import run_safe
  File 
"/Applications/sage/build/bin/../sage_bootstrap/download/__init__.py", line 
7, in 
from sage_bootstrap.download.transfer import Download
  File 
"/Applications/sage/build/bin/../sage_bootstrap/download/transfer.py", line 
23, in 
from sage_bootstrap.compat import urllib
  File "/Applications/sage/build/bin/../sage_bootstrap/compat/__init__.py", 
line 23, in 
import urllib
  File "/Applications/sage/local/lib/python/urllib.py", line 1414, in 

from _scproxy import _get_proxy_settings, _get_proxies
ImportError: No module named _scproxy
Error: downloading configure-176.tar.gz failed
make[1]: *** [configure] Error 1
make: *** [build-clean] Error 2


On Tuesday, October 11, 2016 at 12:10:32 PM UTC-7, Anne Schilling wrote:
>
> I guess I was overzealous upgrading to OSX10.12.
>
> Thanks John for your suggestions! With ticket 21567, I do not seem to get 
> very far:
>
> make
> make -j4 build/make/Makefile
> ./bootstrap -d
> rm -rf config configure build/make/Makefile-auto.in
> ./bootstrap: line 31: aclocal: command not found
> Bootstrap failed, downloading required files instead.
> Traceback (most recent call last):
>   File "/Applications/sage/build/bin/sage-download-file", line 27, in 
> 
> from sage_bootstrap.download.cmdline import run_safe
>   File 
> "/Applications/sage/build/bin/../sage_bootstrap/download/__init__.py", line 
> 7, in 
> from sage_bootstrap.download.transfer import Download
>   File 
> "/Applications/sage/build/bin/../sage_bootstrap/download/transfer.py", line 
> 23, in 
> from sage_bootstrap.compat import urllib
>   File 
> "/Applications/sage/build/bin/../sage_bootstrap/compat/__init__.py", line 
> 23, in 
> import urllib
>   File "/Applications/sage/local/lib/python/urllib.py", line 1414, in 
> 
> from _scproxy import _get_proxy_settings, _get_proxies
> ImportError: No module named _scproxy
> Error: downloading configure-183.tar.gz failed
> make[1]: *** [configure] Error 1
> make: *** [all] Error 2
>
> Best,
>
> Anne
>
>
> On Tuesday, October 11, 2016 at 11:50:30 AM UTC-7, John H Palmieri wrote:
>>
>>
>>
>> On Tuesday, October 11, 2016 at 11:35:18 AM UTC-7, Anne Schilling wrote:
>>>
>>> Hi Volker,
>>>
>>> Thanks for the suggestion. I upgraded to OSX 10.12 and installed the 
>>> latest version command line xcode. Now I get the following
>>> error (even when compiling the latest stable release of sage):
>>>
>>
>> Volker actually suggested upgrading to OS X 10.11. Sage does not build 
>> out of the box on OS X 10.12 yet, but there is a branch at 
>> https://trac.sagemath.org/ticket/21567 which works for me. You may need 
>> to do "sage -f python2" to force it to reinstall Python, since on OS X 
>> 10.12, Sage fails to build Python correctly (although it thinks it has). 
>> So: (1) get the branch from #21567, (2) do "sage -f python2", and then 
>> "make", or (2') do "make distclean" followed by "make". And keep your 
>> fingers crossed.
>>
>>   John
>>
>>  
>>
>>>
>>> ...
>>> [maxima-5.35.1.p2]  /usr/bin/install -c -m 644 
>>> ./z_transform/rtest_z_transform.mac 
>>> /Applications/sage/local/share/maxima/5.35.1/share/z_transform/rtest_z_transform.mac
>>> [maxima-5.35.1.p2]  /usr/bin/install -c -m 644 
>>> ./z_transform/z_transform.mac 
>>> /Applications/sage/local/share/maxima/5.35.1/share/z_transform/z_transform.mac
>>> [maxima-5.35.1.p2] Making install in demo
>>> [maxima-5.35.1.p2] make[5]: Nothing to be done for `install-exec-am'.
>>> [maxima-5.35.1.p2] /bin/sh 
>>> /Applications/sage/local/var/tmp/sage/build/maxima-5.35.1.p2/src/install-sh 
>>> -d 
>>> [maxima-5.35.1.p2] test -z 
>>> "/Applications/sage/local/share/maxima/5.35.1/demo" || .././install-sh -c 
>>> -d "/Applications/sage/local/share/maxima/5.35.1/demo"
>>> [maxima-5.35.1.p2]  /usr/bin/install -c -m 644 cf.dem demo.dem 
>>> eaton1.dem eaton2.dem ezgcd.dem hypgeo.dem macex.dem macro.dem newfac.dem 
&

Re: [sage-devel] Re: trouble compiling latest sage development version

[Anne Schilling]

I guess I was overzealous upgrading to OSX10.12.

Thanks John for your suggestions! With ticket 21567, I do not seem to get 
very far:

make
make -j4 build/make/Makefile
./bootstrap -d
rm -rf config configure build/make/Makefile-auto.in
./bootstrap: line 31: aclocal: command not found
Bootstrap failed, downloading required files instead.
Traceback (most recent call last):
  File "/Applications/sage/build/bin/sage-download-file", line 27, in 

from sage_bootstrap.download.cmdline import run_safe
  File 
"/Applications/sage/build/bin/../sage_bootstrap/download/__init__.py", line 
7, in 
from sage_bootstrap.download.transfer import Download
  File 
"/Applications/sage/build/bin/../sage_bootstrap/download/transfer.py", line 
23, in 
from sage_bootstrap.compat import urllib
  File "/Applications/sage/build/bin/../sage_bootstrap/compat/__init__.py", 
line 23, in 
import urllib
  File "/Applications/sage/local/lib/python/urllib.py", line 1414, in 

from _scproxy import _get_proxy_settings, _get_proxies
ImportError: No module named _scproxy
Error: downloading configure-183.tar.gz failed
make[1]: *** [configure] Error 1
make: *** [all] Error 2

Best,

Anne


On Tuesday, October 11, 2016 at 11:50:30 AM UTC-7, John H Palmieri wrote:
>
>
>
> On Tuesday, October 11, 2016 at 11:35:18 AM UTC-7, Anne Schilling wrote:
>>
>> Hi Volker,
>>
>> Thanks for the suggestion. I upgraded to OSX 10.12 and installed the 
>> latest version command line xcode. Now I get the following
>> error (even when compiling the latest stable release of sage):
>>
>
> Volker actually suggested upgrading to OS X 10.11. Sage does not build out 
> of the box on OS X 10.12 yet, but there is a branch at 
> https://trac.sagemath.org/ticket/21567 which works for me. You may need 
> to do "sage -f python2" to force it to reinstall Python, since on OS X 
> 10.12, Sage fails to build Python correctly (although it thinks it has). 
> So: (1) get the branch from #21567, (2) do "sage -f python2", and then 
> "make", or (2') do "make distclean" followed by "make". And keep your 
> fingers crossed.
>
>   John
>
>  
>
>>
>> ...
>> [maxima-5.35.1.p2]  /usr/bin/install -c -m 644 
>> ./z_transform/rtest_z_transform.mac 
>> /Applications/sage/local/share/maxima/5.35.1/share/z_transform/rtest_z_transform.mac
>> [maxima-5.35.1.p2]  /usr/bin/install -c -m 644 
>> ./z_transform/z_transform.mac 
>> /Applications/sage/local/share/maxima/5.35.1/share/z_transform/z_transform.mac
>> [maxima-5.35.1.p2] Making install in demo
>> [maxima-5.35.1.p2] make[5]: Nothing to be done for `install-exec-am'.
>> [maxima-5.35.1.p2] /bin/sh 
>> /Applications/sage/local/var/tmp/sage/build/maxima-5.35.1.p2/src/install-sh 
>> -d 
>> [maxima-5.35.1.p2] test -z 
>> "/Applications/sage/local/share/maxima/5.35.1/demo" || .././install-sh -c 
>> -d "/Applications/sage/local/share/maxima/5.35.1/demo"
>> [maxima-5.35.1.p2]  /usr/bin/install -c -m 644 cf.dem demo.dem eaton1.dem 
>> eaton2.dem ezgcd.dem hypgeo.dem macex.dem macro.dem newfac.dem romberg.dem 
>> sumcon.dem trgsmp.dem manual.demo plots.mac 
>> '/Applications/sage/local/share/maxima/5.35.1/demo'
>> [maxima-5.35.1.p2] Making install in plotting
>> [maxima-5.35.1.p2] test -z 
>> "/Applications/sage/local/libexec/maxima/5.35.1" || .././install-sh -c -d 
>> "/Applications/sage/local/libexec/maxima/5.35.1"
>> [maxima-5.35.1.p2] /bin/sh 
>> /Applications/sage/local/var/tmp/sage/build/maxima-5.35.1.p2/src/install-sh 
>> -d 
>> [maxima-5.35.1.p2]  /usr/bin/install -c mgnuplot 
>> '/Applications/sage/local/libexec/maxima/5.35.1'
>> [maxima-5.35.1.p2] make[5]: Nothing to be done for `install-exec-am'.
>> [maxima-5.35.1.p2] /bin/sh 
>> /Applications/sage/local/var/tmp/sage/build/maxima-5.35.1.p2/src/install-sh 
>> -d 
>> [maxima-5.35.1.p2] 
>> [maxima-5.35.1.p2] Now installing the Maxima library as 
>> '/Applications/sage/local/lib/ecl//maxima.fas'...
>> [maxima-5.35.1.p2] 
>> [maxima-5.35.1.p2] real5m29.945s
>> [maxima-5.35.1.p2] user4m48.551s
>> [maxima-5.35.1.p2] sys0m36.527s
>> [maxima-5.35.1.p2] Successfully installed maxima-5.35.1.p2
>> [maxima-5.35.1.p2] Deleting temporary build directory
>> [maxima-5.35.1.p2] 
>> /Applications/sage/local/var/tmp/sage/build/maxima-5.35.1.p2
>> [maxima-5.35.1.p2] Finished installing maxima-5.35.1.p2.spkg
>> make[1]: *** [all] Error 2
>>
>> real49m54.858s
>> user145m38.154s
>> sys18m47.495s
>> **

Re: [sage-devel] Re: trouble compiling latest sage development version

[Anne Schilling]

Hi Volker,

Thanks for the suggestion. I upgraded to OSX 10.12 and installed the latest 
version command line xcode. Now I get the following
error (even when compiling the latest stable release of sage):

...
[maxima-5.35.1.p2]  /usr/bin/install -c -m 644 
./z_transform/rtest_z_transform.mac 
/Applications/sage/local/share/maxima/5.35.1/share/z_transform/rtest_z_transform.mac
[maxima-5.35.1.p2]  /usr/bin/install -c -m 644 
./z_transform/z_transform.mac 
/Applications/sage/local/share/maxima/5.35.1/share/z_transform/z_transform.mac
[maxima-5.35.1.p2] Making install in demo
[maxima-5.35.1.p2] make[5]: Nothing to be done for `install-exec-am'.
[maxima-5.35.1.p2] /bin/sh 
/Applications/sage/local/var/tmp/sage/build/maxima-5.35.1.p2/src/install-sh 
-d 
[maxima-5.35.1.p2] test -z 
"/Applications/sage/local/share/maxima/5.35.1/demo" || .././install-sh -c 
-d "/Applications/sage/local/share/maxima/5.35.1/demo"
[maxima-5.35.1.p2]  /usr/bin/install -c -m 644 cf.dem demo.dem eaton1.dem 
eaton2.dem ezgcd.dem hypgeo.dem macex.dem macro.dem newfac.dem romberg.dem 
sumcon.dem trgsmp.dem manual.demo plots.mac 
'/Applications/sage/local/share/maxima/5.35.1/demo'
[maxima-5.35.1.p2] Making install in plotting
[maxima-5.35.1.p2] test -z "/Applications/sage/local/libexec/maxima/5.35.1" 
|| .././install-sh -c -d "/Applications/sage/local/libexec/maxima/5.35.1"
[maxima-5.35.1.p2] /bin/sh 
/Applications/sage/local/var/tmp/sage/build/maxima-5.35.1.p2/src/install-sh 
-d 
[maxima-5.35.1.p2]  /usr/bin/install -c mgnuplot 
'/Applications/sage/local/libexec/maxima/5.35.1'
[maxima-5.35.1.p2] make[5]: Nothing to be done for `install-exec-am'.
[maxima-5.35.1.p2] /bin/sh 
/Applications/sage/local/var/tmp/sage/build/maxima-5.35.1.p2/src/install-sh 
-d 
[maxima-5.35.1.p2] 
[maxima-5.35.1.p2] Now installing the Maxima library as 
'/Applications/sage/local/lib/ecl//maxima.fas'...
[maxima-5.35.1.p2] 
[maxima-5.35.1.p2] real5m29.945s
[maxima-5.35.1.p2] user4m48.551s
[maxima-5.35.1.p2] sys0m36.527s
[maxima-5.35.1.p2] Successfully installed maxima-5.35.1.p2
[maxima-5.35.1.p2] Deleting temporary build directory
[maxima-5.35.1.p2] 
/Applications/sage/local/var/tmp/sage/build/maxima-5.35.1.p2
[maxima-5.35.1.p2] Finished installing maxima-5.35.1.p2.spkg
make[1]: *** [all] Error 2

real49m54.858s
user145m38.154s
sys18m47.495s
***
Error building Sage.

The following package(s) may have failed to build (not necessarily
during this run of 'make all'):

The build directory may contain configuration files and other potentially
helpful information. WARNING: if you now run 'make' again, the build
directory will, by default, be deleted. Set the environment variable
SAGE_KEEP_BUILT_SPKGS to 'yes' to prevent this.

make: *** [all] Error 1


Any further suggestions?

Anne

On Saturday, October 1, 2016 at 1:16:02 AM UTC-7, Volker Braun wrote:
>
> My suggestion would be to upgrade to xcode 10.11, and then to the newer 
> xcode that is available on osx 10.11 only. That linker should then properly 
> support AVX instructions. Thats also the only OS/compiler version that we 
> have a buildbot for (or receives updates from Apple for that matter).
>
>
>
> On Saturday, October 1, 2016 at 5:20:43 AM UTC+2, Anne Schilling wrote:
>>
>> I am not sure. I just compiled sage-7.3 released 2016-8-04 and it went 
>> fine, so I think it must be related
>> to some new patches in the new development branch ...
>>
>> Anne
>>
>> On Friday, September 30, 2016 at 7:08:35 PM UTC-7, François wrote:
>>>
>>> Does the ntl failure look like anything reported at 
>>> https://trac.sagemath.org/ticket/20779 ? 
>>>
>>> François 
>>>
>>> > On 1/10/2016, at 14:52, Travis Scrimshaw <tsc...@ucdavis.edu> wrote: 
>>> > 
>>> > Perhaps this is from the same error as stack overflow post? I remember 
>>> we had to have something with '-march=native' (on OSX?) in the past. 
>>> > 
>>> > Best, 
>>> > Travis 
>>> > 
>>> > 
>>> > -- 
>>> > 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+...@googlegroups.com. 
>>> > To post to this group, send email to sage-...@googlegroups.com. 
>>> > Visit this group at https://groups.google.com/group/sage-devel. 
>>> > For more options, visit https://groups.google.com/d/optout. 
>>>
>>>

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Re: [sage-devel] Re: trouble compiling latest sage development version

[Anne Schilling]

I am not sure. I just compiled sage-7.3 released 2016-8-04 and it went 
fine, so I think it must be related
to some new patches in the new development branch ...

Anne

On Friday, September 30, 2016 at 7:08:35 PM UTC-7, François wrote:
>
> Does the ntl failure look like anything reported at 
> https://trac.sagemath.org/ticket/20779 ? 
>
> François 
>
> > On 1/10/2016, at 14:52, Travis Scrimshaw  > wrote: 
> > 
> > Perhaps this is from the same error as stack overflow post? I remember 
> we had to have something with '-march=native' (on OSX?) in the past. 
> > 
> > Best, 
> > Travis 
> > 
> > 
> > -- 
> > 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 
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[sage-devel] Re: trouble compiling latest sage development version

[Anne Schilling]

Hi John,

Thanks for your answer, but my git seems to work fine.

Even after 'make distclean && make' I still get an error.
Here is the log. Any idea? Might this be related to
https://trac.sagemath.org/ticket/17635

Best,

Anne

-
Found local metadata for givaro-4.0.2
Using cached file /Applications/sage/upstream/givaro-4.0.2.tar.gz
givaro-4.0.2

Setting up build directory for givaro-4.0.2
Finished extraction

Host system:
Darwin lolita.local 14.5.0 Darwin Kernel Version 14.5.0: Wed Jul 29 02:26:53 
PDT 2015; root:xnu-2782.40.9~1/RELEASE_X86_64 x86_64

C compiler: gcc
C compiler version:
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=/Applications/sage/local/libexec/gcc/x86_64-apple-darwin14.5.0/4.9.3/lto-wrapper
Target: x86_64-apple-darwin14.5.0
Configured with: ../src/configure --prefix=/Applications/sage/local 
--with-local-prefix=/Applications/sage/local 
--with-gmp=/Applications/sage/local --with-mpfr=/Applications/sage/local
--with-mpc=/Applications/sage/local --with-system-zlib --disable-multilib 
--disable-nls --enable-languages=c,c++,fortran --disable-libitm 
--with-build-config=bootstrap-debug --without-isl
--without-cloog
Thread model: posix
gcc version 4.9.3 (GCC)

checking build system type... x86_64-apple-darwin14.5.0
checking host system type... x86_64-apple-darwin14.5.0
checking target system type... x86_64-apple-darwin14.5.0
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... build-aux/install-sh -c -d
checking for gawk... no
checking for mawk... no
checking for nawk... no
checking for awk... awk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking for rm... /bin/rm
checking whether to enable maintainer-specific portions of Makefiles... no
---
checking whether to enable debugging options in the library... no
checking whether to enable profiling everything in the library... no
checking whether to enable warnings when compiling the library... no
checking whether to inline or not most of the code ?... no

---
checking whether the C++ compiler works... yes
checking for C++ compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking for family name of compiler... gcc (GCC) 4.9.3
checking whether g++ supports C++11 features by default... no
checking whether g++ supports C++11 features with -std=gnu++11... yes
checking how to run the C++ preprocessor... g++ -E
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for ANSI C header files... yes
checking how to print strings... printf
checking for gcc... gcc
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking whether gcc understands -c and -o together... yes
checking for a sed that does not truncate output... /usr/bin/sed
checking for fgrep... /usr/bin/grep -F
checking for ld used by gcc... ld
checking if the linker (ld) is GNU ld... no
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm
checking the name lister (/usr/bin/nm) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 196608
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking how to convert x86_64-apple-darwin14.5.0 file names to 
x86_64-apple-darwin14.5.0 format... func_convert_file_noop
checking how to convert x86_64-apple-darwin14.5.0 file names to toolchain 
format... func_convert_file_noop
checking for ld option to reload object files... -r
checking for objdump... no
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for archiver @FILE support... no
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm output from gcc object... ok
checking for sysroot... no
checking for mt... no
checking if : is a manifest tool... no
checking for dsymutil... dsymutil
checking for nmedit... nmedit
checking for lipo... lipo
checking for otool... otool
checking for otool64... no
checking for -single_module linker flag... yes
checking for -exported_symbols_list linker flag... yes
checking for -force_load linker flag... yes
checking for sys/types.h... yes
checking for 

[sage-devel] trouble compiling latest sage development version

[Anne Schilling]

Hi!

I am having trouble compiling the latest sage development branch:

...
[openblas-0.2.15] correctly and load a subshell for you to debug the error:
[openblas-0.2.15]   (cd 
'/Applications/sage/local/var/tmp/sage/build/openblas-0.2.15' && 
'/Applications/sage/sage' --sh)
[openblas-0.2.15] When you are done debugging, you can type "exit" to leave 
the subshell.
[openblas-0.2.15] 

make[2]: *** 
[/Applications/sage/local/var/lib/sage/installed/openblas-0.2.15] Error 1
make[1]: *** [all] Error 2

real1m11.086s
user6m22.998s
sys1m31.258s
***
Error building Sage.

The following package(s) may have failed to build (not necessarily
during this run of 'make all'):

* package: givaro-4.0.2
  log file: /Applications/sage/logs/pkgs/givaro-4.0.2.log
  build directory: /Applications/sage/local/var/tmp/sage/build/givaro-4.0.2

* package: ntl-9.8.1.p0
  log file: /Applications/sage/logs/pkgs/ntl-9.8.1.p0.log
  build directory: /Applications/sage/local/var/tmp/sage/build/ntl-9.8.1.p0

* package: openblas-0.2.15
  log file: /Applications/sage/logs/pkgs/openblas-0.2.15.log
  build directory: 
/Applications/sage/local/var/tmp/sage/build/openblas-0.2.15

* package: sage-7.1.rc0
  log file: /Applications/sage/logs/pkgs/sage-7.1.rc0.log
  build directory: /Applications/sage/local/var/tmp/sage/build/sage-7.1.rc0

* documentation: dochtml
  log file: /Applications/sage/logs/pkgs/../dochtml.log

The build directory may contain configuration files and other potentially
helpful information. WARNING: if you now run 'make' again, the build
directory will, by default, be deleted. Set the environment variable
SAGE_KEEP_BUILT_SPKGS to 'yes' to prevent this.

make: *** [all] Error 1

This is running on OSX 10.10.5.

Any idea what the problem might be?

Best,

Anne

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Re: [sage-devel] java/jmol problem

[Anne Schilling]

Hi Justin,

Thank you for your answer! There was indeed a problem with my java 
installation, which I now fixed
and it works now from within Sage!

Best wishes,

Anne

On Monday, August 15, 2016 at 7:04:42 PM UTC-7, Justin C. Walker wrote:
>
>
> On Aug 15, 2016, at 14:36 , Anne Schilling wrote: 
>
> > Hi! 
> > 
> > I get the following bug with 
> > sage: version() 
> > 'SageMath version 7.3, Release Date: 2016-08-04' 
> > 
> > Any idea what the problem might be? I installed jmol with sage -f jmol 
> > and do have java installed. 
> [snip] 
> > sage: RootSystem(['A',3]).ambient_space().plot() 
> > 
> --- 
> > RuntimeError  Traceback (most recent call 
> last) 
> [snip] 
> > 
> /Applications/sage/local/lib/python2.7/site-packages/sage/repl/rich_output/backend_ipython.py
>  
>
> > in launch_jmol(self, output_jmol, plain_text) 
> >363 jdata = JmolData() 
> >364 if not jdata.is_jvm_available() and not DOCTEST_MODE: 
> > --> 365 raise RuntimeError('jmol cannot run, no suitable 
> java 
> > version found') 
> >366 launch_script = output_jmol.launch_script_filename() 
> >367 from sage.env import SAGE_LOCAL 
> > 
> > RuntimeError: jmol cannot run, no suitable java version found 
>
> FWIW, I get the same error, but I definitely do not have java installed. 
>  Do you also get, as I do, an alert saying 
>"To use the "java" command-line tool you need to install a JDK." 
>
> If not, it may be that your java install is not accessible.  I assume this 
> is the command-line version of sage that you are running.  Can you run java 
> from the command-line, independent of sage? 
>
> Justin 
>
> -- 
> Justin C. Walker, Curmudgeon at Large 
> Director 
> Institute for the Enhancement of the Director's income 
> --- 
> Question 43: 
> What if the hokey pokey 
> really *is* what it’s all about? 
> -- 
>
>

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[sage-devel] java/jmol problem

[Anne Schilling]

Hi!

I get the following bug with
sage: version()
'SageMath version 7.3, Release Date: 2016-08-04'

Any idea what the problem might be? I installed jmol with sage -f jmol
and do have java installed.

Thank you!

Anne


sage: RootSystem(['A',3]).ambient_space().plot()
---
RuntimeError  Traceback (most recent call last)
 in ()
> 1 RootSystem(['A',Integer(3)]).ambient_space().plot()

/Applications/sage/local/lib/python2.7/site-packages/IPython/core/displayhook.py
 
in __call__(self, result)
244 self.start_displayhook()
245 self.write_output_prompt()
--> 246 format_dict, md_dict = self.compute_format_data(result)
247 self.update_user_ns(result)
248 self.fill_exec_result(result)

/Applications/sage/local/lib/python2.7/site-packages/IPython/core/displayhook.py
 
in compute_format_data(self, result)
150 
151 """
--> 152 return self.shell.display_formatter.format(result)
153 
154 def write_format_data(self, format_dict, md_dict=None):

/Applications/sage/local/lib/python2.7/site-packages/sage/repl/display/formatter.py
 
in format(self, obj, include, exclude)
148 # First, use Sage rich output if there is any
149 PLAIN_TEXT = u'text/plain'
--> 150 sage_format, sage_metadata = self.dm.displayhook(obj)
151 assert PLAIN_TEXT in sage_format, 'plain text is always 
present'
152 if sage_format.keys() != [PLAIN_TEXT]:

/Applications/sage/local/lib/python2.7/site-packages/sage/repl/rich_output/display_manager.py
 
in displayhook(self, obj)
764 self._backend.set_underscore_variable(obj)
765 plain_text, rich_output = self._rich_output_formatter(obj, 
dict())
--> 766 return self._backend.displayhook(plain_text, rich_output)
767 
768 def display_immediately(self, obj, **rich_repr_kwds):

/Applications/sage/local/lib/python2.7/site-packages/sage/repl/rich_output/backend_ipython.py
 
in displayhook(self, plain_text, rich_output)
264 return ({u'text/plain': msg}, {})
265 elif isinstance(rich_output, OutputSceneJmol):
--> 266 msg = self.launch_jmol(rich_output, 
plain_text.text.get_unicode())
267 return ({u'text/plain': msg}, {})
268 elif isinstance(rich_output, OutputSceneWavefront):

/Applications/sage/local/lib/python2.7/site-packages/sage/repl/rich_output/backend_ipython.py
 
in launch_jmol(self, output_jmol, plain_text)
363 jdata = JmolData()
364 if not jdata.is_jvm_available() and not DOCTEST_MODE:
--> 365 raise RuntimeError('jmol cannot run, no suitable java 
version found')
366 launch_script = output_jmol.launch_script_filename()
367 from sage.env import SAGE_LOCAL

RuntimeError: jmol cannot run, no suitable java version found

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[sage-combinat-devel] update sage-combinat references

[Anne Schilling]

Dear All!

It is time to submit the final report for the Sage-combinat grant to the NSF.

It would be great if everyone could take a moment to update all the references
that cite sage-combinat, see

http://www.sagemath.org/library-publications-combinat.html

You can edit the file

http://sagemath.org/files/Sage-Combinat.bib

directly and ask Harald Schilly for a pull request. Alternatively, send me
a bibtex entry.

Thanks everyone!

Anne

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Re: [sage-devel] Product of immutable matrices are mutable...

[Anne Schilling]

Hi Florent,

I usually define 

def prod_m(x,y):
 z=x*y
 z.set_immutable()
 return z

and then pass this new product to the monoid/semigroup I am using!

Best,

Anne

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Re: [sage-devel] trouble with packages

[Anne Schilling]

I do not know anything about the pexpect upgrade. Will someone be looking 
into this?
Which version of sage can I downgrade to to make it run again (I really 
need this feature).

Thanks,

Anne

On Monday, December 28, 2015 at 2:08:23 PM UTC+11, François wrote:
>
> I am guessing that the pexpect upgrade is behind this particular problem. 
> `sage/interface/gap.py` will probably need to be inspected for the case 
> of gap3. 
>
> François 
>
> > On 28/12/2015, at 11:19, Anne Schilling <anne1.s...@gmail.com 
> > wrote: 
> > 
> > Hi! 
> > 
> > I upgraded to the newest development version of sage and I am now having 
> trouble with 
> > many of the packages I was using before (and now do not seem to work any 
> longer). 
> > 
> > Most importantly, the following worked for me before and now raises an 
> error: 
> > 
> > sage: gap=Gap3('/Applications/gap3r4p4/bin/gap') 
> > sage: gap.RequirePackage('"specht"') 
> > 
> --- 
> > RuntimeError  Traceback (most recent call 
> last) 
> >  in () 
> > > 1 gap.RequirePackage('"specht"') 
> > 
> > 
> /Applications/sage/local/lib/python2.7/site-packages/sage/interfaces/interface.pyc
>  
> in __call__(self, *args, **kwds) 
> > 605 
> > 606 def __call__(self, *args, **kwds): 
> > --> 607 return self._parent.function_call(self._name, 
> list(args), kwds) 
> > 608 
> > 609 def _sage_doc_(self): 
> > 
> > 
> /Applications/sage/local/lib/python2.7/site-packages/sage/interfaces/gap.pyc 
> in function_call(self, function, args, kwds) 
> > 919 self.eval(marker) 
> > 920 res = self.eval(cmd) 
> > --> 921 if self.eval('IsIdenticalObj(last,__SAGE_LAST__)') != 
> 'true': 
> > 922 return self.new('last2;') 
> > 923 else: 
> > 
> > 
> /Applications/sage/local/lib/python2.7/site-packages/sage/interfaces/gap.pyc 
> in eval(self, x, newlines, strip, split_lines, **kwds) 
> > 567 if not input_line.endswith(';'): 
> > 568 input_line += ';' 
> > --> 569 result = Expect.eval(self, input_line, **kwds) 
> > 570 if not newlines: 
> > 571 result = result.replace("\\\n","") 
> > 
> > 
> /Applications/sage/local/lib/python2.7/site-packages/sage/interfaces/expect.pyc
>  
> in eval(self, code, strip, synchronize, locals, allow_use_file, 
> split_lines, **kwds) 
> >1237 elif split_lines: 
> >1238 return '\n'.join([self._eval_line(L, 
> allow_use_file=allow_use_file, **kwds) 
> > -> 1239 for L in 
> code.split('\n') if L != '']) 
> >1240 else: 
> >1241 return self._eval_line(code, 
> allow_use_file=allow_use_file, **kwds) 
> > 
> > 
> /Applications/sage/local/lib/python2.7/site-packages/sage/interfaces/gap.pyc 
> in _eval_line(self, line, allow_use_file, wait_for_prompt, 
> restart_if_needed) 
> > 765 return '' 
> > 766 else: 
> > --> 767 raise RuntimeError(message) 
> > 768 
> > 769 except KeyboardInterrupt: 
> > 
> > RuntimeError: Gap3 produced error output 
> > Error, Variable: 'IsIdenticalObj' must have a value 
> > 
> >executing IsIdenticalObj(last,__SAGE_LAST__); 
> > 
> > What do I need to do? 
> > 
> > Also, I had many other packages installed and some are not yet in the 
> new format. How do I install them 
> > (since I really need them)? 
> > 
> > Thanks! 
> > 
> > Anne 
> > 
> > -- 
> > You received this message because you are subscribed to the Google 
> Groups "sage-devel" group. 
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>
>

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[sage-devel] Re: trouble with packages

[Anne Schilling]

On Monday, December 28, 2015 at 8:15:48 PM UTC+11, Volker Braun wrote:
>
> On Monday, December 28, 2015 at 2:25:15 AM UTC+1, Anne Schilling wrote:
>>
>> sage -i sage-mode 
>> does not work.
>>
>  
> It just freezes your computer so you do not get any helpful error messages?
>

Well, it says that it installed it successfully, but where? I cannot find 
it anywhere

anne$ sage -p sage-mode
Found package sage-mode in /Applications/sage/upstream/sage-mode-0.6.spkg
sage-mode-0.6

Extracting package /Applications/sage/upstream/sage-mode-0.6.spkg
-rw-r--r--  1 anne  admin  259682 Mar 18  2015 
/Applications/sage/upstream/sage-mode-0.6.spkg
Finished extraction

Host system:
Darwin lolita.local 14.5.0 Darwin Kernel Version 14.5.0: Wed Jul 29 
02:26:53 PDT 2015; root:xnu-2782.40.9~1/RELEASE_X86_64 x86_64

C compiler: gcc
C compiler version:
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=/Applications/sage/local/libexec/gcc/x86_64-apple-darwin14.5.0/4.9.2/lto-wrapper
Target: x86_64-apple-darwin14.5.0
Configured with: ../src/configure --prefix=/Applications/sage/local 
--with-local-prefix=/Applications/sage/local 
--with-gmp=/Applications/sage/local --with-mpfr=/Applications/sage/local 
--with-mpc=/Applications/sage/local --with-system-zlib --disable-multilib 
--disable-nls --enable-languages=c,c++,fortran --disable-libitm 
--with-build-config=bootstrap-debug --without-isl --without-cloog  
Thread model: posix
gcc version 4.9.2 (GCC) 

running build
running build_py
creating build
creating build/lib
copying xreload.py -> build/lib
copying sage_emacs.py -> build/lib
running install
running build
running build_py
running install_lib
byte-compiling 
/Applications/sage/local/lib/python2.7/site-packages/sage_emacs.py to 
sage_emacs.pyc
byte-compiling 
/Applications/sage/local/lib/python2.7/site-packages/xreload.py to 
xreload.pyc
running install_egg_info
Removing 
/Applications/sage/local/lib/python2.7/site-packages/sage_mode-0.1-py2.7.egg-info
Writing 
/Applications/sage/local/lib/python2.7/site-packages/sage_mode-0.1-py2.7.egg-info
rm: /emacs: Permission denied


A basic install might include the following Emacs Lisp in your .emacs:

(add-to-list 'load-path (expand-file-name "/emacs"))
(require 'sage "sage")
(setq sage-command "/Applications/sage/sage")

;; If you want sage-view to typeset all your output and have plot()
;; commands inline, uncomment the following line and configure sage-view:
;; (require 'sage-view "sage-view")
;; (add-hook 'sage-startup-hook 'sage-view)
;; You can use commands like
;; (add-hook 'sage-startup-hook 'sage-view
;; 'sage-view-disable-inline-output 'sage-view-disable-inline-plots)
;; to have some combination of features.  In future, the customize interface
;; will make this simpler... hint, hint!



real0m0.086s
user0m0.044s
sys0m0.038s
Successfully installed sage-mode-0.6
Deleting temporary build directory
/Applications/sage/local/var/tmp/sage/build/sage-mode-0.6
Finished installing sage-mode-0.6.spkg

Warning: it might be needed to update the Sage library before
installed packages work: you should run 'make' from $SAGE_ROOT
before running Sage.


Before it was in 
`/Applications/sage/local/share/emacs/site-lisp/sage-mode`, but that is 
gone!

Thanks,

Anne 

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[sage-devel] Re: trouble with packages

[Anne Schilling]

On Tuesday, December 29, 2015 at 10:13:55 AM UTC+11, Volker Braun wrote:
>
> On Monday, December 28, 2015 at 10:54:27 PM UTC+1, Anne Schilling wrote:
>>
>> byte-compiling 
>> /Applications/sage/local/lib/python2.7/site-packages/sage_emacs.py to 
>> sage_emacs.pyc
>> byte-compiling 
>> /Applications/sage/local/lib/python2.7/site-packages/xreload.py to 
>> xreload.pyc
>> running install_egg_info
>> Removing 
>> /Applications/sage/local/lib/python2.7/site-packages/sage_mode-0.1-py2.7.egg-info
>> Writing 
>> /Applications/sage/local/lib/python2.7/site-packages/sage_mode-0.1-py2.7.egg-info
>> rm: /emacs: Permission denied
>>
>
> Looks like thats the issue
>
> I made http://trac.sagemath.org/ticket/19794
>
> Do you have SAGE_MODE environment variable set?  Output of 
>
> env | grep SAGE_DATA
>


I guess not. The output to this is empty for me. 

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[sage-devel] Re: trouble with packages

[Anne Schilling]

Also, how do I now install old packages that I still need? For example

sage -i sage-mode 

does not work.

Thank you!

Anne

On Monday, December 28, 2015 at 12:02:11 PM UTC+11, Anne Schilling wrote:
>
> I can run
>
> sage: gap=Gap3('/Applications/gap3r4p4/bin/gap')
> sage: gap.an_element()
> 2
>
> Is that what you meant?
>
> On Monday, December 28, 2015 at 10:35:32 AM UTC+11, Volker Braun wrote:
>>
>> Can you run gap3 on the command line?
>>
>

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[sage-devel] trouble with packages

[Anne Schilling]

Hi!

I upgraded to the newest development version of sage and I am now having 
trouble with
many of the packages I was using before (and now do not seem to work any 
longer).

Most importantly, the following worked for me before and now raises an 
error:

sage: gap=Gap3('/Applications/gap3r4p4/bin/gap')
sage: gap.RequirePackage('"specht"')
---
RuntimeError  Traceback (most recent call last)
 in ()
> 1 gap.RequirePackage('"specht"')

/Applications/sage/local/lib/python2.7/site-packages/sage/interfaces/interface.pyc
 
in __call__(self, *args, **kwds)
605 
606 def __call__(self, *args, **kwds):
--> 607 return self._parent.function_call(self._name, list(args), 
kwds)
608 
609 def _sage_doc_(self):

/Applications/sage/local/lib/python2.7/site-packages/sage/interfaces/gap.pyc 
in function_call(self, function, args, kwds)
919 self.eval(marker)
920 res = self.eval(cmd)
--> 921 if self.eval('IsIdenticalObj(last,__SAGE_LAST__)') != 
'true':
922 return self.new('last2;')
923 else:

/Applications/sage/local/lib/python2.7/site-packages/sage/interfaces/gap.pyc 
in eval(self, x, newlines, strip, split_lines, **kwds)
567 if not input_line.endswith(';'):
568 input_line += ';'
--> 569 result = Expect.eval(self, input_line, **kwds)
570 if not newlines:
571 result = result.replace("\\\n","")

/Applications/sage/local/lib/python2.7/site-packages/sage/interfaces/expect.pyc 
in eval(self, code, strip, synchronize, locals, allow_use_file, 
split_lines, **kwds)
   1237 elif split_lines:
   1238 return '\n'.join([self._eval_line(L, 
allow_use_file=allow_use_file, **kwds)
-> 1239 for L in code.split('\n') 
if L != ''])
   1240 else:
   1241 return self._eval_line(code, 
allow_use_file=allow_use_file, **kwds)

/Applications/sage/local/lib/python2.7/site-packages/sage/interfaces/gap.pyc 
in _eval_line(self, line, allow_use_file, wait_for_prompt, 
restart_if_needed)
765 return ''
766 else:
--> 767 raise RuntimeError(message)
768 
769 except KeyboardInterrupt:

RuntimeError: Gap3 produced error output
Error, Variable: 'IsIdenticalObj' must have a value

   executing IsIdenticalObj(last,__SAGE_LAST__);

What do I need to do?

Also, I had many other packages installed and some are not yet in the new 
format. How do I install them
(since I really need them)?

Thanks!

Anne

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[sage-devel] Re: trouble with packages

[Anne Schilling]

I can run

sage: gap=Gap3('/Applications/gap3r4p4/bin/gap')
sage: gap.an_element()
2

Is that what you meant?

On Monday, December 28, 2015 at 10:35:32 AM UTC+11, Volker Braun wrote:
>
> Can you run gap3 on the command line?
>

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Re: [sage-combinat-devel] Re: Skew partitions for symmetric functions

[Anne Schilling]

Hi Travis and Mike,

I would also say (B). But why is skew_schur needed if the usual
Schur function already takes a skew partition as an input?

Best,

Anne

On 9/13/15 7:30 PM, Mike Zabrocki wrote:
> Hi Travis,
> 
> I would say that the skew partition input into bases (other than Schur 
> functions, and for Schurs the documentation is insufficient...see sf.html) is 
> undocumented and so the output should be suspect
> (and not what one would hope).
> 
> For Schur functions, I think the output is what I would expect and so of (A), 
> (B) and (C), I think that (B) is the way to go and it should be better 
> documented.
> 
> I can add a fourth option:
> if sp is a skew partition then
> (D) basis(sp) returns basis(sp[0]).skew_by(basis.dual_basis()(sp[1]))
> This agrees with the definition of the Schur function indexed by a skew 
> partition and would probably be the most natural analogue of the notation 
> basis(sp)
> I can see two problems with this approach:
> (a) I don't know how often "dual_basis" is implemented and
> (b) one would need to document and mathematically motivate this notation and 
> I could see an argument being made for another definition.
> 
> Hence I still say (B).
> 
> Where are you planning to add the method skew_schur()?  Would this go as a 
> method of the Schur basis or of the symmetric functions?
> 
> -Mike
> 
> On Sunday, 13 September 2015 16:22:24 UTC-4, Travis Scrimshaw wrote:
> 
> While looking into the code on skew Schur functions, I noticed this:
> 
> |
> elifx insage.combinat.skew_partition.SkewPartitions():
> importsage.libs.lrcalc.lrcalc aslrcalc|
> |skewschur =lrcalc.skew(x[0],x[1])
> returnself._from_dict(skewschur)
> |
> 
> This has the following result:
> 
> |
> sage:s =SymmetricFunctions(QQ).s()
> sage:e =SymmetricFunctions(QQ).e()
> sage:sp =SkewPartition([[5,3,3,1],[3,2,1]])
> sage:e(s(sp))
> e[2,1,1,1,1]-e[2,2,1,1]-e[3,1,1,1]+e[3,2,1]
> sage:e(sp)
> 
> e[2,2,1,1]+e[2,2,2]+e[3,1,1,1]+3*e[3,2,1]+e[3,3]+2*e[4,1,1]+2*e[4,2]+e[5,1]
> |
> 
> The skew() function of lrcalc returns the corresponding skew Schur 
> function, so the above is a bug. My question is should we
> 
> (A) raise an error for skew shapes on all bases,
> (B) allow only of the Schur basis, or
> (C) construct the skew Schur function and convert to the corresponding 
> basis.
> 
> I'm not so sure about (C) because this would mean skew partitions behave 
> very differently than for partitions. I'm leaning towards (B). Thoughts?
> 
> I'm also going to add a method skew_schur() which constructs the skew 
> Schur function, as to make getting at skew Schur functions easier (there is 
> also right now the skew_by method, but that acts
> on elements).
> 
> Best,
> Travis

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Re: [sage-combinat-devel] GAP3 spkg

[Anne Schilling]

Hi Travis,

I get the following error message when installing the latest development version
even after 'make docclean'

[repl ] reading sources... [  2%] environ
[tensor_fr] reading sources... [ 17%] morphisms
[tensor_fr] reading sources... [ 23%] sage/tensor/modules/comp
[repl ] reading sources... [  5%] index
Error building the documentation.

Note: incremental documentation builds sometimes cause spurious
error messages. To be certain that these are real errors, run
"make doc-clean" first and try again.
Traceback (most recent call last):
  File "/Applications/sage/src/doc/common/builder.py", line 1626, in 
getattr(get_builder(name), type)()
  File "/Applications/sage/src/doc/common/builder.py", line 292, in _wrapper
getattr(get_builder(document), 'inventory')(*args, **kwds)
  File "/Applications/sage/src/doc/common/builder.py", line 503, in _wrapper
x.get(9)
  File "/Applications/sage/local/lib/python/multiprocessing/pool.py", line 558, 
in get
raise self._value
OSError: [polynomia] 
/Applications/sage/src/doc/en/reference/polynomial_rings/index.rst:7: WARNING: 
toctree contains reference to nonexisting document 
u'sage/rings/polynomial/polynomial_ring_constructor'

make[2]: *** [doc-html] Error 1
make[1]: *** [all] Error 2

real0m8.326s
user0m5.805s
sys 0m2.486s
***
Error building Sage.

The following package(s) may have failed to build (not necessarily
during this run of 'make all'):

* package: gap-database
  log file: /Applications/sage/logs/pkgs/gap-database.log
  build directory: /Applications/sage/local/var/tmp/sage/build/gap-database

* package: gap_database
  log file: /Applications/sage/logs/pkgs/gap_database.log
  build directory: /Applications/sage/local/var/tmp/sage/build/gap_database

* documentation: dochtml
  log file: /Applications/sage/logs/pkgs/../dochtml.log

The build directory may contain configuration files and other potentially
helpful information. WARNING: if you now run 'make' again, the build
directory will, by default, be deleted. Set the environment variable
SAGE_KEEP_BUILT_SPKGS to 'yes' to prevent this.

make: *** [all] Error 1


Then for gap3

lolita:sage anne$ sage -i gap3
Forcing sage-location, probably because a new package was installed.
Updating various hardcoded paths...
(Please wait at most a few minutes.)
DO NOT INTERRUPT THIS.
Done updating paths.
Found local metadata for gap3-jm5.p0
Attempting to download package gap3-jm5.tar.gz from mirrors
http://mirrors.xmission.com/sage/spkg/upstream/gap3/gap3-jm5.tar.gz
[..]
Traceback (most recent call last):
  File "/Applications/sage/build/bin/sage-download-file", line 28, in 
SageDownloadFileApplication().run()
  File "/Applications/sage/build/bin/../sage_bootstrap/cmdline.py", line 193, 
in run
tarball.download()
  File "/Applications/sage/build/bin/../sage_bootstrap/tarball.py", line 160, 
in download
raise ChecksumError('checksum does not match')
sage_bootstrap.tarball.ChecksumError: checksum does not match

Best,

Anne


On 9/8/15 6:48 AM, Travis Scrimshaw wrote:
> Hey combinat,
>Has anyone tried to install the now included optional GAP3 spkg? I get a 
> checksum error when I do.
> 
> Best,
> Travis

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Re: [sage-combinat-devel] weird behavior under combining remove and for loop

[Anne Schilling]

Hi Nicolas B.,

Thank you for your explanations! It was a little difficult
to find this bug since in some cases it actually works
{{{
sage: positions=[1,2,3,4,5,6]
sage: for j in positions:
if is_even(j):
positions.remove(j)
:
sage: positions
[1, 3, 5]
}}}
{{{
sage: positions=[1,2,3,4,5,6]
sage: for j in positions:
if is_odd(j):
positions.remove(j)
:
sage: positions
[2, 4, 6]
}}}
So I agree with Simon that really it should throw an Error.

I guess a better way to do this is
{{{
sage: positions=[1,2,3,4,5,6]
sage: [i for i in positions if not i in positions]
[]
}}}

Best,

Anne

On 6/28/15 1:07 AM, Nicolas Borie wrote:
 Le 28/06/2015 06:55, Anne Schilling a écrit :
 Hi!

 Is this what I should expect from this code:

 sage: positions=[1,2,3,4,5,6]
 sage: for j in positions:
 : positions.remove(j)
 :
 sage: positions
 [2, 4, 6]
 Wha this one will increase my collection of tricky examples... There 
 is a war in my university : C language against Python language, what is 
 the best for computer sciences education ?
 
 This is pure Python code and Python comes from C...
 
 A C for loop works like that : for ( initialization ; stopping condition 
 ; incrementation ). But in python, everything is objects, thus is 
 manipulated with a pointer (an address) to a real part of the memory... 
  From that when you iterate over a list, I would be not surprise that 
 the python iteration over a list is translated into a C for loop that do 
 : for ( first address of the tableau ; end of the tableau ; go an 
 address more far). From that, finally, you see only half of the element 
 of the list since you delete the first ones...
 
 In C, there is a rule that say : NEVER MORE THAN A SINGLE SIDE EFFECT 
 BETWEEN TWO SEQUENCE POINTS. This means, in particular, you can't use 
 and modify (several times) the same part of the memory is a single 
 instruction (like a for loop using and modifying the same list)...
 
 In Python, I don't know exactly, and the piece of Python code you 
 present chocks my intuition but Python is tricky... (A lot of things can 
 be written as we think them, but just sometimes, it does not what we 
 think). I will be not surprised if the Python references includes 
 something like :
 
 for elem in List:
   NO SIDE EFFECT ON THE List ALLOWED 
 
 Tricky piece of code but probably correct with a big flag : Don't do that!
 Cheers,
 Nicolas B.
 
 PS: The last entry of my collection of Python tricky codes was danger 
 from free variables :  (MAKE A LIST OF FIRST POWER FUNCTION (1, X, X^2, 
 X^3, X^4))
   L = [lambda x : x**i for i in range(5)] # BAD
   [L[j](2) for j in range(5)]
 [16, 16, 16, 16, 16]
   L = [lambda x, i=i : x**i for i in range(5)] # THE FIX IS HORRIBLE
   [L[j](2) for j in range(5)]
 [1, 2, 4, 8, 16]

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[sage-combinat-devel] weird behavior under combining remove and for loop

[Anne Schilling]

Hi!

Is this what I should expect from this code:

sage: positions=[1,2,3,4,5,6]
sage: for j in positions:
: positions.remove(j)
:
sage: positions
[2, 4, 6]

Shouldn't I expect the empty list at the end? Of course, I agree
the code is a little weird since it is running through a list
whilst changing it.

Best,

Anne

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Re: [sage-combinat-devel] Symmetric functions --- HopfAlgebras(...) or not?

[Anne Schilling]

Hi Simon,

 The following is a problem for my work at #18758, which aims at making
 arithmetic operations faster that are defined via category
 element/parent classes:
 
 sage: Sym = SymmetricFunctions(FractionField(QQ['t']))
 sage: ks3 = Sym.kschur(3)
 sage: ks5 = Sym.kschur(5)
 sage: a = ks5(ks3[2])
 sage: a.parent() in Rings()
 False
 sage: Sym in Rings()
 True
 
 Is it not the case that
 sage: a.parent()
 5-bounded Symmetric Functions over Fraction Field of Univariate Polynomial
 Ring in t over Rational Field in the 5-Schur basis
 forms a ring? Or at least a magma?

That is correct: the parent of `a` is not a ring. See also Section 4.7
of Chapter 1 in http://arxiv.org/pdf/1301.3569v2.pdf

We view the k-Schur functions with a `t` as living in a subspace of
the ring of symmetric functions (when `t=1` it is a ring). Sym itself
is a ring, but note that the parent of `a` is not Sym. If you
view `a` as living inside Sym, rather than the subspace, then
you can of course multiply. That is why

sage: b = ks3[1]*ks3[2,1]; b
s[2, 1, 1] + s[2, 2] + s[3, 1]
sage: b.parent()
Symmetric Functions over Fraction Field of Univariate Polynomial Ring in t over 
Rational Field in the Schur basis

lives in Sym rather than the parent of ks3[1].

Best,

Anne

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[sage-devel] Trouble installing sage on combinat

[Anne Schilling]

Hi!

I am trying to build sage on the combinat.math.washington.edu server and get 
the following error:


.
../lib -L/usr/lib/gcc/x86_64-linux-gnu/4.6/../../.. -lstdc++ -lm -lc -lgcc_s 
/usr/lib/gcc/x86_64-linux-gnu/4.6/crtendS.o 
/usr/lib/gcc/x86_64-linux-gnu/4.6/../../../x86_64-linux-gnu/crtn.o  -O3
-Wl,-soname -Wl,libec.so.2 -o .libs/libec.so.2.0.1
adlibtool: link: (cd .libs  rm -f libec.so.2  ln -s libec.so.2.0.1 
libec.so.2)
libtool: link: (cd .libs  rm -f libec.so  ln -s libec.so.2.0.1 
libec.so)
libtool: link: ar cru .libs/libec.a  interface.o unimod.o arith.o marith.o 
gpslave.o compproc.o vector.o matrix.o subspace.o kbessel.o mvector.o mmatrix.o 
msubspace.o svector.o smatrix.o
smatrix_elim.o xsplit.o conic.o legendre.o quadratic.o illl.o hilbert.o timer.o 
cubic.o polys.o realroots.o parifact.o p2points.o gf.o xsplit_data.o 
threadpool.o logger.o curve.o curvedata.o
curvered.o points.o cperiods.o isogs.o heights.o mwprocs.o lambda.o sifter.o 
sieve_search.o htconst.o egr.o saturate.o divpol.o pointsmod.o curvemod.o 
ffmod.o tlss.o elog.o getcurve.o mequiv.o
mrank1.o mlocsol.o mglobsol.o mquartic.o mrank2.o qc.o sqfdiv.o version.o 
minim.o reduce.o transform.o desc2.o bitspace.o GetOpt.o twoadic.o descent.o 
newforms.o symb.o homspace.o cusp.o oldforms.o
fixc6.o periods.o moddata.o pcprocs.o nfd.o curvesort.o
libtool: link: ranlib .libs/libec.a
/bin/sed: can't read /home/anne/sage/local/lib/libgmp.la: No such file or 
directory
libtool: link: `/home/anne/sage/local/lib/libgmp.la' is not a valid libtool 
archive
make[4]: *** [libec.la] Error 1
make[4]: Leaving directory 
`/home/anne/sage-6.4.1/local/var/tmp/sage/build/eclib-20150510/src/libsrc'
make[3]: *** [all-recursive] Error 1
make[3]: Leaving directory 
`/home/anne/sage-6.4.1/local/var/tmp/sage/build/eclib-20150510/src'
Error building eclib.

real8m14.579s
user7m26.332s
sys 0m28.626s

Error installing package eclib-20150510

Please email sage-devel (http://groups.google.com/group/sage-devel)
explaining the problem and including the relevant part of the log file
  /home/anne/sage-6.4.1/logs/pkgs/eclib-20150510.log
Describe your computer, operating system, etc.
If you want to try to fix the problem yourself, *don't* just cd to
/home/anne/sage-6.4.1/local/var/tmp/sage/build/eclib-20150510 and type 'make' 
or whatever is appropriate.
Instead, the following commands setup all environment variables
correctly and load a subshell for you to debug the error:
  (cd '/home/anne/sage-6.4.1/local/var/tmp/sage/build/eclib-20150510'  
'/home/anne/sage-6.4.1/sage' --sh)
When you are done debugging, you can type exit to leave the subshell.

make[2]: *** 
[/home/anne/sage-6.4.1/local/var/lib/sage/installed/eclib-20150510] Error 1
make[2]: Leaving directory `/home/anne/sage-6.4.1/build'
make[1]: *** [all] Error 2
make[1]: Leaving directory `/home/anne/sage-6.4.1/build'

real8m16.188s
user7m27.032s
sys 0m29.082s
***
Error building Sage.

The following package(s) may have failed to build:

package: eclib-20150510
log file: /home/anne/sage-6.4.1/logs/pkgs/eclib-20150510.log
build directory: /home/anne/sage-6.4.1/local/var/tmp/sage/build/eclib-20150510

The build directory may contain configuration files and other potentially
helpful information. WARNING: if you now run 'make' again, the build
directory will, by default, be deleted. Set the environment variable
SAGE_KEEP_BUILT_SPKGS to 'yes' to prevent this.

make: *** [build] Error 1

Any idea why?

Anne

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[sage-combinat-devel] Re: Copying installations on SMC

[Anne Schilling]

 I posted something on the SMC wiki (with a link to it in the FAQ). It is the 
 result of a few iterations of the process.
 
 
 https://github.com/sagemathinc/smc/wiki/SageMath-Development-on-SageMathCloud

I just followed the steps there and everything worked great!
Thanks to everyone who made this possible.

Anne

PS: I will keep developing on my private machine, but this is a great resource 
when something goes wrong there
or for newcomers.

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[sage-devel] Re: Copying installations on SMC

[Anne Schilling]

 I posted something on the SMC wiki (with a link to it in the FAQ). It is the 
 result of a few iterations of the process.
 
 
 https://github.com/sagemathinc/smc/wiki/SageMath-Development-on-SageMathCloud

I just followed the steps there and everything worked great!
Thanks to everyone who made this possible.

Anne

PS: I will keep developing on my private machine, but this is a great resource 
when something goes wrong there
or for newcomers.

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[sage-combinat-devel] Re: Copying installations on SMC

[Anne Schilling]

Hi Darij,

 Step 3: maybe explain how to tell when the copying is complete? I
 think it took more than 3min for me (I used du -s to check on it).
 
 Step 4:
 IOError: [Errno 122] Disk quota exceeded
 
 What should I do?

Perhaps you skipped Step 1??

1. Open the SMC project that you intend to use for development, or create a new 
project. Send an email with THE LINK TO YOUR PROJECT (under Settings) to 
h...@sagemath.com and say that you are using
this project for legit Sage development. Wait for the reply before continuing. 
You MUST DO THIS SINCE DEFAULT PROJECTS DO NOT HAVE SUFFICIENT DISK SPACE.

Best,

Anne

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[sage-devel] Re: Copying installations on SMC

[Anne Schilling]

Hi Darij,

 Step 3: maybe explain how to tell when the copying is complete? I
 think it took more than 3min for me (I used du -s to check on it).
 
 Step 4:
 IOError: [Errno 122] Disk quota exceeded
 
 What should I do?

Perhaps you skipped Step 1??

1. Open the SMC project that you intend to use for development, or create a new 
project. Send an email with THE LINK TO YOUR PROJECT (under Settings) to 
h...@sagemath.com and say that you are using
this project for legit Sage development. Wait for the reply before continuing. 
You MUST DO THIS SINCE DEFAULT PROJECTS DO NOT HAVE SUFFICIENT DISK SPACE.

Best,

Anne

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[sage-devel] Re: [sage-combinat-devel] Sage Days 65 mini report

[Anne Schilling]

Actually, Peter Tingley's Sage was not working due to some git problems 
(committing on top of the develop branch)! That has been fixed. So it was not 
really an install problem.

The SageMathCloud was great for those who had trouble installing Sage on their 
own computer. Sometimes we had connection issues to the SMC (the wheel was just 
spinning). Franco gave a nice talk on how to copy the latest version onto one's 
own Sage developer project. That saves to actually run the install (so Darij, 
your complaints are not really valid since copying only takes a few minutes).

Best,

Anne



 On Jun 12, 2015, at 18:26, William Stein wst...@gmail.com wrote:
 
 On Fri, Jun 12, 2015 at 1:28 PM, Franco Saliola sali...@gmail.com wrote:
 
 Here is a mini report on Sage Day 65. I'm not an organizer so this is not
 official.
 Thanks to Anne Schilling for helping to prepare this.
 
 - 24 tickets on trac are tagged with `sagedays65` or `sd65`. Some of these
 have
  been positively reviewed and marked as fixed. Some are waiting for review
  (hint, hint). Several of these tickets include contributions from new
 users.
 
 - Installation troubles:
 
- several people had a hard difficult time installing Sage on their
  machines (8-10 people)
 
- there were people who did not have a working development version on
 their
  machines by the end of the week (4-5 people); two of these people were
  the organizers of the Sage Days
 
 This is a bummer.  It gives me even more motivation to make
 SageMathCloud Sage-developer friendly.I'm also curious if anybody
 has any -- possibly *radical* -- suggestions about how to address this
 problem using new ideas.
 
 
 
- number of participants: 40
 
- some thing that really helped was the Sage Development Images project
 
 - A possible warning to future organizers of Sage Days: We had good internet
  access, but the university network blocked all ssh connections! This was
  mainly resolved on the first day, but there were still some issues with
  pulling/pushing through the `git trac` command.
 
 Franco
 
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Re: [sage-combinat-devel] Sage Days 65 mini report

[Anne Schilling]

Actually, Peter Tingley's Sage was not working due to some git problems 
(committing on top of the develop branch)! That has been fixed. So it was not 
really an install problem.

The SageMathCloud was great for those who had trouble installing Sage on their 
own computer. Sometimes we had connection issues to the SMC (the wheel was just 
spinning). Franco gave a nice talk on how to copy the latest version onto one's 
own Sage developer project. That saves to actually run the install (so Darij, 
your complaints are not really valid since copying only takes a few minutes).

Best,

Anne



 On Jun 12, 2015, at 18:26, William Stein wst...@gmail.com wrote:
 
 On Fri, Jun 12, 2015 at 1:28 PM, Franco Saliola sali...@gmail.com wrote:
 
 Here is a mini report on Sage Day 65. I'm not an organizer so this is not
 official.
 Thanks to Anne Schilling for helping to prepare this.
 
 - 24 tickets on trac are tagged with `sagedays65` or `sd65`. Some of these
 have
  been positively reviewed and marked as fixed. Some are waiting for review
  (hint, hint). Several of these tickets include contributions from new
 users.
 
 - Installation troubles:
 
- several people had a hard difficult time installing Sage on their
  machines (8-10 people)
 
- there were people who did not have a working development version on
 their
  machines by the end of the week (4-5 people); two of these people were
  the organizers of the Sage Days
 
 This is a bummer.  It gives me even more motivation to make
 SageMathCloud Sage-developer friendly.I'm also curious if anybody
 has any -- possibly *radical* -- suggestions about how to address this
 problem using new ideas.
 
 
 
- number of participants: 40
 
- some thing that really helped was the Sage Development Images project
 
 - A possible warning to future organizers of Sage Days: We had good internet
  access, but the university network blocked all ssh connections! This was
  mainly resolved on the first day, but there were still some issues with
  pulling/pushing through the `git trac` command.
 
 Franco
 
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 -- 
 William (http://wstein.org)
 
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[sage-devel] Error compiling MPFR on development version install

[Anne Schilling]

Hello,

Aaron Lauve at Sage Days 65 is having trouble installing development version of 
Sage on my Mac.
(OSX10.9.5, with CommandLineTools for XCode 6.1.1 installed)

The error is Error installing package mpfr-3.1.2.p0

Here is the tail of the log file created, which seems to point to not finding 
float.h
(But it can be located on my machine with locate float.h from / directory.)

~~~

checking for limits.h... yes

checking float.h usability... no

checking float.h presence... no

checking for float.h... no

configure: error: float.h not found

Error configuring MPFR.

See above for the options passed to it, and the file

  /Users/lauve/sage-git/local/var/tmp/sage/build/mpfr-3.1.2.p0/src/config.log

for details.


real0m15.066s

user0m6.600s

sys 0m5.934s



Error installing package mpfr-3.1.2.p0



Please email sage-devel (http://groups.google.com/group/sage-devel)

explaining the problem and including the relevant part of the log file

  /Users/lauve/sage-git/logs/pkgs/mpfr-3.1.2.p0.log

Describe your computer, operating system, etc.

If you want to try to fix the problem yourself, *don't* just cd to

/Users/lauve/sage-git/local/var/tmp/sage/build/mpfr-3.1.2.p0 and type 'make' or 
whatever is appropriate.

Instead, the following commands setup all environment variables

correctly and load a subshell for you to debug the error:

  (cd '/Users/lauve/sage-git/local/var/tmp/sage/build/mpfr-3.1.2.p0'  
'/Users/lauve/sage-git/sage' --sh)

When you are done debugging, you can type exit to leave the subshell.



Any suggestions?

Best,

Anne

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[sage-combinat-devel] List of methods at beginning of files

[Anne Schilling]

Hi!

Some of us at Sage Days 65 are looking at the long list of methods that exist
for certain objects, for example in the Permutation

http://doc.sagemath.org/html/en/reference/combinat/sage/combinat/permutation.html#sage-combinat-permutation

We like the list, but it appears in some arbitrary order. Also, is it 
maintained by hand? This seems pretty
inconvenient since it will very quickly be out of order.

Could this be automatized?

Best,

Anne

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[sage-devel] List of methods at beginning of files

[Anne Schilling]

Hi!

Some of us at Sage Days 65 are looking at the long list of methods that exist
for certain objects, for example in the Permutation

http://doc.sagemath.org/html/en/reference/combinat/sage/combinat/permutation.html#sage-combinat-permutation

We like the list, but it appears in some arbitrary order. Also, is it 
maintained by hand? This seems pretty
inconvenient since it will very quickly be out of order.

Could this be automatized?

Best,

Anne

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Re: [sage-combinat-devel] Re: remove combinat/mupad from sagemath website

[Anne Schilling]

On Sunday, June 7, 2015 at 4:21:39 PM UTC-5, Nicolas M. Thiery wrote:

 On Sun, Jun 07, 2015 at 11:07:44PM +0200, Nathann Cohen wrote: 
   - The MuPAD-Combinat citation list is unlikely to evolve much more. I 
 agree that there is no compelling reason to have a link sagemath.org 
 - Library - Citations MuPAD; so if you want to remove that link, 
 that's fine with me. On the other hand, there probably isn't much 
 cost nor confusion involved in keeping the page: 
   
   http://www.sagemath.org/library-publications-mupad.html 
   
 just to save the time on relocating it elsewhere. Also I would find 
 natural to have a link from the Sage-Combinat list to that list, 
 with a word of explanation. 
  
  So you agree with my proposal. 

 With the amendments I mention above, I am ok with it. 

 Other opinions anyone? 


The sage-combinat publication list is used as one of the deliverables for 
each annual report for the NSF combinatorics grant. So it needs to stay as
long as the grant is active (which it currently is).

Best,

Anne 

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Re: [sage-devel] Re: Is Sage living in a state of emergency ?

[Anne Schilling]

On Tuesday, May 19, 2015 at 5:09:43 PM UTC-4, William wrote:

 On Tue, May 19, 2015 at 5:16 AM, William Stein wst...@gmail.com 
 javascript: wrote: 
  On Tue, May 19, 2015 at 5:04 AM, Dr. David Kirkby (Kirkby Microwave 
  I can't help feeling you could (should) have made some direct inquires 
  
  I have.   These things can take a while. 

 Hi, 

 I just sat down with the executive director of University of 
 Washington's Internal Audit office and some of his staff.  They 
 have years of experience with ethics audits in practice, how the rules 
 are interpreted, and who is liable when problems arise. 

 It will be possible to use the computers at UW to support Sage 
 development and other related open source projects and in support of 
 mathematical research.   There will be several official steps that 
 need to happen to formalize this, and the details aren't sorted out 
 yet.But they will be. 

 Things like sagenb, sagemathcloud, and the sage cell server are not 
 ok, since there is so little constraint on the actual users and usage. 
 However, things like trac, the wiki, hosting the sage downloads, etc., 
 which directly benefit the Sage/math community, and benefit everybody 
 equally (since they are open source) are going to be encouraged, as 
 long as we take appropriate care in who gets accounts.   Moreover, the 
 20 16-core computers (with lots of RAM and SSD's) that were used for 
 SageMathCloud will be repurposed for build/testing of Sage (and other 
 open source software) and for math research computations -- this is 
 actually quite a lot of hardware. 

 So we can end the state of emergency.  :-) 


This is great news! I am glad to hear that trac, the wiki etc will remain at
a University!

Do you know already what will happen to the combinat server? It would be
great if that could remain in use for research related computations as well.

Best,

Anne 

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Re: [sage-combinat-devel] Re: Sage Days in Chicago

[Anne Schilling]

On 5/5/15, 6:36 AM, Simon King wrote:
 Hi!
 
 On 2014-03-11, Anne Schilling a...@math.ucdavis.edu wrote:
 Aaron Lauve and Peter Tingley are planning to host Sage Days in Chicago 
 during the
 summer of 2015 (not 2014!!). This will focus on representation theory, 
 crystals,
 and combinatorics.
 
 When does it take place?

June 8-12, 2015 in Chicago, see

http://gauss.math.luc.edu/sagedays/

Best wishes,

Anne

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[sage-combinat-devel] Citation list

[Anne Schilling]

Dear All!

I am in the process of writing the annual report for the NSF Sage grant
(that funded the various Sage-combinat Days).

It would be great if everyone could take a moment to update all the references
that cite sage-combinat, see

http://www.sagemath.org/library-publications-combinat.html

It would be best to ask Harald Schilly for the git repository and make
changes directly there. If that is too complicated, please send me the 
updated/new
bibtex entry. The current bibtex file that is used for the website can be found
here:

http://sagemath.org/files/Sage-Combinat.bib

Thanks everyone!

Anne

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Re: [sage-combinat-devel] Re: Order of Partitions()

[Anne Schilling]

Dear Jeroen,

The order of strong order tableaux does not really matter.

One place where it might slightly matter might be in character
tables of the symmetric group. As far as I remember they are just
matrices where rows and columns are indexed by integers rather than
by partitions. In this case the meaning might change.

Anne

On 3/15/15 4:36 AM, Samuel Lelievre wrote:
 cc: sage-combinat-devel
 
 2015-03-15 11:27:33 UTC+1, Jeroen Demeyer:
 
 Hello,
 
 currently in Sage, Partitions() are returned in reverse-lexicographic
 order. But is this order (which is nowhere documented as far as I can
 tell) really important? I am trying to fix Partitions and other related
 functions in #17920. This works fine but the order of the output is
 changed, leading to various doctest failures like
 
 **
 File src/sage/combinat/k_tableau.py, line 4082, in
 sage.combinat.k_tableau.StrongTableaux.__iter__
 Failed example:
  StrongTableaux(3, [5,2,2], weight=[3,3,1]).list()
 Expected:
  [[[-1, -1, -1, -2, -2], [-2, 2], [2, -3]], [[-1, -1, -1, 2, -2],
 [-2, -2], [2, -3]], [[-1, -1, -1, -2, -3], [-2, -2], [2, 2]]]
 Got:
  [[[-1, -1, -1, -2, -2], [-2, 2], [2, -3]],
   [[-1, -1, -1, -2, -3], [-2, -2], [2, 2]],
   [[-1, -1, -1, 2, -2], [-2, -2], [2, -3]]]
 **
 
 I think it's safe to just change the doctests. However, if you disagree,
 let me know!
 
 Jeroen.

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[sage-devel] Re: [sage-combinat-devel] Re: Order of Partitions()

[Anne Schilling]

Dear Jeroen,

The order of strong order tableaux does not really matter.

One place where it might slightly matter might be in character
tables of the symmetric group. As far as I remember they are just
matrices where rows and columns are indexed by integers rather than
by partitions. In this case the meaning might change.

Anne

On 3/15/15 4:36 AM, Samuel Lelievre wrote:
 cc: sage-combinat-devel
 
 2015-03-15 11:27:33 UTC+1, Jeroen Demeyer:
 
 Hello,
 
 currently in Sage, Partitions() are returned in reverse-lexicographic
 order. But is this order (which is nowhere documented as far as I can
 tell) really important? I am trying to fix Partitions and other related
 functions in #17920. This works fine but the order of the output is
 changed, leading to various doctest failures like
 
 **
 File src/sage/combinat/k_tableau.py, line 4082, in
 sage.combinat.k_tableau.StrongTableaux.__iter__
 Failed example:
  StrongTableaux(3, [5,2,2], weight=[3,3,1]).list()
 Expected:
  [[[-1, -1, -1, -2, -2], [-2, 2], [2, -3]], [[-1, -1, -1, 2, -2],
 [-2, -2], [2, -3]], [[-1, -1, -1, -2, -3], [-2, -2], [2, 2]]]
 Got:
  [[[-1, -1, -1, -2, -2], [-2, 2], [2, -3]],
   [[-1, -1, -1, -2, -3], [-2, -2], [2, 2]],
   [[-1, -1, -1, 2, -2], [-2, -2], [2, -3]]]
 **
 
 I think it's safe to just change the doctests. However, if you disagree,
 let me know!
 
 Jeroen.

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[sage-devel] Re: Sage is grown up; needs a last name

[Anne Schilling]

On Wednesday, February 18, 2015 at 4:34:38 PM UTC-8, Volker Braun wrote:

 +1 for SageMath


 Also, +1 to CamelCase. We do have class! ;-)


+1

Anne 

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Re: [sage-combinat-devel] Re: combinat.math.washington.edu

[Anne Schilling]

Hi William,

I would like to launch a big computation now on combinat. When I logged on,
the scratch partition seemed out of service. How should I run the computations
(in fact I have some c programs and Sage programs I would like to run)?
I also have an SMC project for this in case combinat has been SMC-ified yet.

Thanks!

Anne


On 1/7/15 11:56 AM, William Stein wrote:
 On Tue, Jan 6, 2015 at 1:40 PM, William Stein wst...@gmail.com wrote:
 On Sat, Jan 3, 2015 at 8:23 PM, William Stein wst...@gmail.com wrote:
 Hi,

 The computer combinat.math.washington.edu is down... again.  Sort of.
 It responds to ping requests, but I can't ssh in.

 A minor update: there are notifications about physical hardware
 failures on the front of the machine, so it may be longer than
 expected until combinat is running again.
 
 Hi,
 
 combinat.math.washington.edu is working again now as before.  One
 local scratch disk seems to have failed.  However, everything else
 seems to be working fine.
 
 I won't be messing with it for the next week or two, but plan to
 SMC-ify it at some point (I'll post in advance).  In the meantime, I
 hope people will log in and use it!  64 cores.  192GB RAM.
 
 William

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[sage-devel] graphics display in SMC

[Anne Schilling]

Hi William,

I want to share some code with my students on SMC that involves displaying
some graphs (of for example crystal graphs or digraphs). On my own computer
this involves installing dot2tex and graphviz. Is this possible on SMC?

Also, if I install the latest version of Sage on my SMC account, how would
I tell the notebook to use this version? If I share a notebook that runs
the latest version, would my collaborators or students with whom I share
this project also run the code with this version?

Thank you,

Anne

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[sage-devel] Re: graphics display in SMC

[Anne Schilling]

On 1/20/15 10:18 PM, William Stein wrote:
 (moving this to sage-cloud not sage-devel)
 
 On Tue, Jan 20, 2015 at 8:24 PM, Anne Schilling a...@math.ucdavis.edu wrote:
 Hi William,

 I want to share some code with my students on SMC that involves displaying
 some graphs (of for example crystal graphs or digraphs). On my own computer
 this involves installing dot2tex and graphviz. Is this possible on SMC?
 
 Everything is already installed, but you have to do things slightly
 differently in SMC right now.  Here's a working example:
 
 F = GF(3)
 gens = [matrix(F,2,[1,0, 1,1]), matrix(F,2, [1,1, 0,1])]
 group = MatrixGroup(gens); group
 group.cardinality()
 G = group.cayley_graph()
 G.set_latex_options(format='dot2tex', prog='neato')
 G.set_latex_options(color_by_label=True)
 latex.eval(latex(G))
 
 Or see
 

 https://cloud.sagemath.com/projects/4a5f0542-5873-4eed-a85c-a18c706e8bcd/files/support/2015-01-20-graphviz-dot.sagews

Ok, this is fancy and worked straight away for the graphs I was trying.

I will try out the development version of Sage on SMC as soon as I really need 
it.

Thanks,

Anne

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Re: [sage-combinat-devel] combinat.math.washington.edu

[Anne Schilling]

Hi William,

I have used combinat in the past for big research computations, but
not very recently (and I think I might have brought down the machine
at some point due to too much memory use). So as long as we can still
use the machine when we have large computations, I am ok with your plan.

I might still have some data/programs on the machine that I have not backed up.

Could you please be very specific what we need to do to get access
when running large computations? We would need to log onto SMC and then
e-mail you to move the process over?

Best,

Anne

On 1/3/15 8:23 PM, William Stein wrote:
 Hi,
 
 The computer combinat.math.washington.edu is down... again.  Sort of.
 It responds to ping requests, but I can't ssh in.
 
 I suspect that not a lot of people are actively using it lately, since
 this is the second time it has gone down for over a week in the last 3
 months, and nobody (except my student Hao Chen), seems to have
 noticed.
 
 I'm considering doing the following.  I'll shutdown combinat
 completely, reformat the disk, and set it up as a node of the
 cloud.sagemath.com (SMC).   It'll still have the amazing 64 cores and
 huge (192GB) RAM.  However, instead of login in directly to it, people
 can email me to request that I move a particular SMC project to
 combinat.  It will then have access to expanded compute resources.
 The advantage of this, is that it is much easier for me to maintain.
 In particular, SMC has automated scripts to take care of using cgroups
 to explicitly limit usage of compute resources by a given project, I
 have extensive monitoring code in place so I know when things go down,
 and I everything runs in virtual machines, so when there are problems
 I can easily fix them in a few minutes remotely.  Also, it's much
 easier to grant fair usage to projects.As it is now with default
 linux on combinat, basically any user can just bring down the computer
 by using too much memory/disk/whatever, which is probably what
 happened in this case (I don't know).
 
 Thoughts?
 
 Obviously, this may be a bit slower and the max memory will be less
 (as things are in a VM) for specific research-level computations.
 However, a working computer is way better than a regularly-crashing
 computer, in my opinion.Also, given the weeks of downtime that
 nobody (except Hao) notices, maybe people aren't using combinat at all
 anyways, due to it being only a remote linux box.   Personally, I
 think SMC makes using remote Linux boxes much easier.
 
 -- William

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[sage-devel] Re: Sage grant

[Anne Schilling]

Regarding this request, William has a question which interactive visualization
objects would be most useful for people with combinatorial inclination.
Certainly graphs, trees, but I guess also 3- or multi-dimensional objects
such as plane partitions and polytopes ... Anything else?

Best,

Anne


On 10/28/14 4:42 PM, Anne Schilling wrote:
 Dear All!
 
 Dan Bump, Ben Salisbury, Mark Shimozono and I are planning to apply
 for an NSF grant for Sage (to fund Sage Days and other Sage related
 activities). We will mostly focus on topics in combinatorics/algebra/
 representation theory. It would be great to hear from you what your
 wishlists are in this area. What are features you would like to implement/
 see implemented?
 
 Particular areas we would like to emphasis are representation theory of
 semigroups, representations of affine Lie algebras and hyperbolic Kac-Moody
 Lie algebras, KLR algebras, the power of the category code and
 functorial constructions to implement the DAHA and more. But we are
 open to other suggestions.
 
 Best,
 
 Anne

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[sage-combinat-devel] Re: Sage grant

[Anne Schilling]

Regarding this request, William has a question which interactive visualization
objects would be most useful for people with combinatorial inclination.
Certainly graphs, trees, but I guess also 3- or multi-dimensional objects
such as plane partitions and polytopes ... Anything else?

Best,

Anne


On 10/28/14 4:42 PM, Anne Schilling wrote:
 Dear All!
 
 Dan Bump, Ben Salisbury, Mark Shimozono and I are planning to apply
 for an NSF grant for Sage (to fund Sage Days and other Sage related
 activities). We will mostly focus on topics in combinatorics/algebra/
 representation theory. It would be great to hear from you what your
 wishlists are in this area. What are features you would like to implement/
 see implemented?
 
 Particular areas we would like to emphasis are representation theory of
 semigroups, representations of affine Lie algebras and hyperbolic Kac-Moody
 Lie algebras, KLR algebras, the power of the category code and
 functorial constructions to implement the DAHA and more. But we are
 open to other suggestions.
 
 Best,
 
 Anne

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Re: [sage-combinat-devel] combinat.math.washington.edu

[Anne Schilling]

On 1/3/15 9:05 PM, William Stein wrote:
 On Sat, Jan 3, 2015 at 8:53 PM, Anne Schilling a...@math.ucdavis.edu wrote:
 Hi William,

 I have used combinat in the past for big research computations, but
 not very recently (and I think I might have brought down the machine
 at some point due to too much memory use). So as long as we can still
 use the machine when we have large computations, I am ok with your plan.


 Could you please be very specific what we need to do to get access
 when running large computations? We would need to log onto SMC and then
 e-mail you to move the process over?
 
 That's precisely what I was thinking... except instead of process
 it's a project, which is basically the same thing as a Linux
 account.   For combinatorics researchers I would set the timeout of
 the project to infinite, and raise other quotas.Also, once you
 have a project you can directly ssh into it (using any ssh program)
 if you want, which in this could would literally just mean ssh'ing
 into an account running on a big virtual machine on combinat.

Could we do this already as an experiment with an SMC project I have
with others, so we can run that code on combinat? Would we just e-mail
you the name of the project? I suppose we can then ssh into the project
using the ssh command under Settings, correct?

Thanks,

Anne

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