[sage-release] Re: recent woes with relocation of SageMath installation directory

2016-02-05 Thread Jan Groenewald 
A fixed version (you can run sagemath-upstream-binary without the -full) is
now busy copying from the dev PPA to the stable PPA.

7.0~aimsppa1~qa201602060140061

Regards,
Jan

On 3 February 2016 at 17:46, Jan Groenewald  wrote:

> Hi
>
> TL;DR install sagemath-upstream-binary-full for a fix. The error in 6.9 is
> harmless as only one unimportant file is missing.
>
>
>
> The development PPA now has a working sagemath-upstream-binary-full 7.0
> with no error at all.
> https://launchpad.net/~aims/+archive/ubuntu/sagemath-dev
> When it runs the relocate-once.py after install, it takes (quite) a while
> to patch and then prints message:
>
> ...
> patching
> /usr/lib/sagemath/local/lib/python2.7/site-packages/sage/ext/pselect.so
> patching /usr/lib/sagemath/local/lib/libstdc++.so.6.0.20
> * AIMS PPA: relocate-once.py finished running. Ignore above Exception
> ┌┐
> │ SageMath Version 7.0, Release Date: 2016-01-19 │
> │ Type "notebook()" for the browser-based notebook interface.│
> │ Type "help()" for help.│
> └┘
> sage: Exiting Sage (CPU time 0m0.02s, Wall time 0m0.10s).
> Setting up sagemath-upstream-binary-full (7.0~aimsppa1~qa201602031255151)
> ...
> 0 root@muizenberg:~#
>
> Even though there is no exception; I added that warning before putting
> this out. This is because I added one missing file to
> sagemath-binary-upstream ($SAGE_ROOT/builId/make/Makefile). This version
> will be uploaded to the stable PPA in a week or two depending on feedback.
>
> The smaller bandwidth-saving and disk-saving sagemath-upstream-binary 7.0
> (no -full in the name) is also there (basically excluding most of the
> $SAGE_ROOT/src folder), but will still give the error:
>
> OSError: [Errno 2] No such file or directory:
> '/usr/lib/sagemath/src/build/cythonized/sage/structure/list_clone.c'
>
> After that the debian/postinst will then try to run sage once, then stop,
> as not nearly enough paths were patched. Even removing relocate-once.py is
> not enough:
>
> ┌┐
> │ SageMath Version 7.0, Release Date: 2016-01-19 │
> │ Type "notebook()" for the browser-based notebook interface.│
> │ Type "help()" for help.│
> └┘
>
> ERROR:  The Sage installation tree has moved
>
> from
> /mnt/highperf/buildbot/slave/binary_pkg/build/source/SageMath/jc4b6yulaujayb9sr94ia88eourzeqip0oidma
>   to /usr/lib/sagemath
>
> This is not supported, and Sage will not work. To install Sage from a
> binary package:
>
> 1. Open the .tar.bz2 archive (or .dmg on OSX)
>
> 2. Move the SageMath folder/app to where you want it to be. You can
>also rename the directory now.
>
> 3. Start sage for the first time. This will then automatically patch
>paths in binaries.
>
> After starting Sage for the first time you cannot change the
> installation any more. To install Sage elsewhere, start over from the
> binary package. Or recompile Sage from scratch in the new location
> ("make distclean && make")
>
> dpkg: error processing package sagemath-upstream-binary (--configure):
>  subprocess installed post-installation script returned error exit status 1
> Errors were encountered while processing:
>  sagemath-upstream-binary
> E: Sub-process /usr/bin/dpkg returned an error code (1)
> root@alice-laptop:~#
> root@alice-laptop:~# ls /usr/lib/sagemath/
> COPYING.txt  README.txt  VERSION.txt  build  local  relocate-once.py
> sage  src
> root@alice-laptop:~# rm /usr/lib/sagemath/relocate-once.py
> root@alice-laptop:~# sage
> ┌┐
> │ SageMath Version 7.0, Release Date: 2016-01-19 │
> │ Type "notebook()" for the browser-based notebook interface.│
> │ Type "help()" for help.│
> └┘
>
> ERROR:  The Sage installation tree has moved
>
> from
> /mnt/highperf/buildbot/slave/binary_pkg/build/source/SageMath/jc4b6yulaujayb9sr94ia88eourzeqip0oidma
>   to /usr/lib/sagemath
>
> This is not supported, and Sage will not work. To install Sage from a
> binary package:
>
> 1. Open the .tar.bz2 archive (or .dmg on OSX)
>
> 2. Move the SageMath folder/app to where you want it to be. You can
>also rename the directory now.
>
> 3. Start sage for the first time. This will then automatically patch
>paths in binaries.
>
> After starting Sage for the first time you cannot change the
> installation any more. To install Sage elsewhere, start over from the
> binary package. Or recompile Sage from scratch in the new location
> ("make distclean && make")
>
>

Re: [sage-release] Re: recent woes with relocation of SageMath installation directory

2016-02-04 Thread Henri Girard 

Thanks... Very good :)
As I said I compile develop version so I just compile sagemanifolds with 
it. But I can imagine how annoying it can be, before I used for a long 
time your deb.

Best,
Henri
Le 04/02/2016 11:42, Jan Groenewald a écrit :

Hi

On 4 February 2016 at 12:20, HG > wrote:


Following the ppa sage link, I tried to install sage-7, it works
fine. Time for patching, but no problem.
I use two version of sagemath the ppa and developer one (which I
compile) and after I compile sagemanifolds (which I can't do at
the moment with the ppa because it's installed system-wide).
Thanks for this good work
Henri


If you run sagemath-upstream-binary-full it is technically possible to 
run sage manifolds. We had this deployed on campus last week. But you 
have to reinstall it after every upgrade. It is bad because:


1) you should not compile as root. There is a past bug where compiling 
some package would delete a system file [1] 
. Malicious code could hose or 
rootkit your system. We plan in future to have the sage tree owned by 
a sagemath user, which will alleviate that (only) if people remember 
to change to that user before customizing / adding optional packages 
and rebuilding.


2) bad practice since dpkg (or your distro package manager) is 
supposed to manage the system files, but it is technically possible.


It will not work with sagemath-upstream-binary (without -full) since 
the SAGE_ROOT/src folder is missing and many files you need for 
rebuilding sage.


I will try to release a 7.0.1 (rather than waiting for 7.1) which also 
fixes the smaller sagemath-upstream-binary in the PPAs. Note 7.0 is 
now in the stable PPA for 14.04.


Regards,
Jan




--
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  /V\ Jan Groenewald
 /( )\ www.aims.ac.za 
 ^^-^^
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Re: [sage-release] Re: recent woes with relocation of SageMath installation directory

2016-02-04 Thread Jan Groenewald 
Hi

On 4 February 2016 at 12:20, HG  wrote:

> Following the ppa sage link, I tried to install sage-7, it works fine.
> Time for patching, but no problem.
> I use two version of sagemath the ppa and developer one (which I compile)
> and after I compile sagemanifolds (which I can't do at the moment with the
> ppa because it's installed system-wide).
> Thanks for this good work
> Henri
>

If you run sagemath-upstream-binary-full it is technically possible to run
sage manifolds. We had this deployed on campus last week. But you have to
reinstall it after every upgrade. It is bad because:

1) you should not compile as root. There is a past bug where compiling some
package would delete a system file [1]
. Malicious code could hose or
rootkit your system. We plan in future to have the sage tree owned by a
sagemath user, which will alleviate that (only) if people remember to
change to that user before customizing / adding optional packages and
rebuilding.

2) bad practice since dpkg (or your distro package manager) is supposed to
manage the system files, but it is technically possible.

It will not work with sagemath-upstream-binary (without -full) since the
SAGE_ROOT/src folder is missing and many files you need for rebuilding sage.

I will try to release a 7.0.1 (rather than waiting for 7.1) which also
fixes the smaller sagemath-upstream-binary in the PPAs. Note 7.0 is now in
the stable PPA for 14.04.

Regards,
Jan




-- 
  .~.
  /V\ Jan Groenewald
 /( )\www.aims.ac.za
 ^^-^^

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[sage-release] Re: recent woes with relocation of SageMath installation directory

2016-02-04 Thread HG 
Following the ppa sage link, I tried to install sage-7, it works fine. Time 
for patching, but no problem.
I use two version of sagemath the ppa and developer one (which I compile) 
and after I compile sagemanifolds (which I can't do at the moment with the 
ppa because it's installed system-wide).
Thanks for this good work
Henri 

Le mardi 2 février 2016 18:16:12 UTC+1, slelievre a écrit :
>
> Dear sage-support (cc: sage-release, sage-devel) 
> (please reply on sage-support only) 
>
> I received the following question after announcing 
> Sage 7.0 on sage-announce. 
>
> This is one of many such questions I am reading on 
> various lists and sites recently. 
>
> Something needs to be more clearly documented, 
> or refactored. 
>
> Can someone answer this question by replying to 
> this post on sage-support? 
>
> Thanks! 
> Samuel 
>
> -- Forwarded message -- 
> Date: Mon, 1 Feb 2016 23:32:31 -0600 
> To: Samuel Lelievre  
> Subject: Installing upgraded SageMath 
>
> I tried installing sagemath-upstream-binary on my Ubuntu Trusty Tahr 
> system and saw this: 
>
> Rewriting paths for your new installation directory 
> === 
>
> This might take a few minutes but only has to be done once. 
>
> patching 
> /usr/lib/sagemath/src/build/cythonized/sage/structure/list_clone.c 
> Traceback (most recent call last): 
>   File "/usr/lib/sagemath/relocate-once.py", line 85, in  
> 
> p('src/build/cythonized/sage/structure/list_clone.c').substitute().save() 
>   File "/usr/lib/sagemath/relocate-once.py", line 70, in __call__ 
> return FilePatch(self, filename) 
>   File "/usr/lib/sagemath/relocate-once.py", line 21, in __init__ 
> self.st = os.stat(filename) 
> OSError: [Errno 2] No such file or directory: 
> '/usr/lib/sagemath/src/build/cythonized/sage/structure/list_clone.c' 
>
> Any idea what is up? 
>
> Dale Amon 
>

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[sage-release] Re: recent woes with relocation of SageMath installation directory

2016-02-02 Thread Volker Braun 
Is this the Ubuntu PPA? I think thats not working right now. Whoever is 
maintaining it (Jan?) should probably revert it until its fixed.



On Tuesday, February 2, 2016 at 6:16:08 PM UTC+1, Samuel Lelievre wrote:
>
> Dear sage-support (cc: sage-release, sage-devel) 
> (please reply on sage-support only) 
>
> I received the following question after announcing 
> Sage 7.0 on sage-announce. 
>
> This is one of many such questions I am reading on 
> various lists and sites recently. 
>
> Something needs to be more clearly documented, 
> or refactored. 
>
> Can someone answer this question by replying to 
> this post on sage-support? 
>
> Thanks! 
> Samuel 
>
> -- Forwarded message -- 
> Date: Mon, 1 Feb 2016 23:32:31 -0600 
> To: Samuel Lelievre  
> Subject: Installing upgraded SageMath 
>
> I tried installing sagemath-upstream-binary on my Ubuntu Trusty Tahr 
> system and saw this: 
>
> Rewriting paths for your new installation directory 
> === 
>
> This might take a few minutes but only has to be done once. 
>
> patching 
> /usr/lib/sagemath/src/build/cythonized/sage/structure/list_clone.c 
> Traceback (most recent call last): 
>   File "/usr/lib/sagemath/relocate-once.py", line 85, in  
> 
> p('src/build/cythonized/sage/structure/list_clone.c').substitute().save() 
>   File "/usr/lib/sagemath/relocate-once.py", line 70, in __call__ 
> return FilePatch(self, filename) 
>   File "/usr/lib/sagemath/relocate-once.py", line 21, in __init__ 
> self.st = os.stat(filename) 
> OSError: [Errno 2] No such file or directory: 
> '/usr/lib/sagemath/src/build/cythonized/sage/structure/list_clone.c' 
>
> Any idea what is up? 
>
> Dale Amon 
>

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