Unable to launch sage

Sanpi · 2017-06-02 11:30:21

Hello,

Since the last update, I can’t launch sage.

The interesting part of crash report seems to be:

ImportError: libgfortran.so.3: cannot open shared object file: No such file or directory

I thought this was a package bug, but the for the maintener, it’s a problem with AUR packages.

I was delete the ~/.sage directory, uninstall sage (that imply also the reverse-dependencies packages) and reinstall it. Without success.

The problematic files:

/usr/lib/python2.7/site-packages/sage/matrix/matrix_integer_dense.so
/usr/lib/python2.7/site-packages/sage/matrix/matrix_modn_dense_double.so
/usr/lib/python2.7/site-packages/sage/matrix/matrix_modn_dense_float.so

Any idea?

Scimmia · 2017-06-02 13:08:23

Did you even bother to fix your AUR/foreign packages like you were told?

Sanpi · 2017-06-03 17:50:41

Scimmia wrote:

Did you even bother to fix your AUR/foreign packages like you were told?

I recompile all my AUR packages, without success.

Trilby · 2017-06-03 18:00:11

Why do you think the three files you listed are the problem? What are those file linked to, e.g.:

ldd /usr/lib/python2.7/site-packages/sage/matrix/matrix_integer_dense.so | grep fortran

If that does not say libgfortran.so.4 then you do not have the sagemath version from [community].

What version of sagemath do you have installed?

Sanpi · 2017-06-03 18:09:56

Trilby wrote:

Why do you think the three files you listed are the problem? What are those file linked to, e.g.:
ldd /usr/lib/python2.7/site-packages/sage/matrix/matrix_integer_dense.so | grep fortran

$ ldd /usr/lib/python2.7/site-packages/sage/matrix/matrix_integer_dense.so | grep fortran
        libgfortran.so.3 => not found

Trilby wrote:

What version of sagemath do you have installed?

$ yaourt -Q | grep sagemath
community/sagemath 7.6-4

When I uninstall sagemath, the file is deleted.

Trilby · 2017-06-03 18:52:45

Update your system, sagemath is at 7.6-5.

On another note, learn to use pacman. There is no need to list all packages then pipe to grep, just `pacman -Q sagemath`. On yet another note, learn to use pacman. There is no need to use yaourt.

Sanpi · 2017-06-03 19:05:42

Trilby wrote:

Update your system, sagemath is at 7.6-5.

Done between the redaction and submission of my previous post, that’s change nothing.

Trilby wrote:

On yet another note, learn to use pacman. There is no need to use yaourt.

Pacman doesn’t display the package repository.

Trilby · 2017-06-03 19:10:49

Sanpi wrote:

Done between the redaction and submission of my previous post, that’s change nothing.

What does this mean? What did you do, and what did not change: the version? If you didn't get the new version of sagemath, then update your mirrorlist.

Sanpi wrote:

Pacman doesn’t display the package repository.

It most certainly does.

Scimmia · 2017-06-03 22:43:54

ldd is not the answer here; it's recursive making it useless for this purpose.

The problem is almost certainly a foreign package, most likely atlas-lapack or something similar.

lddtree from the pax-utils package can help track it down by showing what's actually linked to the old lib.

Last edited by Scimmia (2017-06-03 22:53:00)

jmartl109 · 2017-06-04 00:32:11

I installed cblas and lapack, and removed atlas-lapack-base (from the AUR), and this fixed the problem for me. (Scimmia -- thanks for the hint about lddtree!)

Last edited by jmartl109 (2017-06-04 00:32:51)

Arch Linux

#1 2017-06-02 11:30:21

Unable to launch sage

#2 2017-06-02 13:08:23

Re: Unable to launch sage

#3 2017-06-03 17:50:41

Re: Unable to launch sage

#4 2017-06-03 18:00:11

Re: Unable to launch sage

#5 2017-06-03 18:09:56

Re: Unable to launch sage

#6 2017-06-03 18:52:45

Re: Unable to launch sage

#7 2017-06-03 19:05:42

Re: Unable to launch sage

#8 2017-06-03 19:10:49

Re: Unable to launch sage

#9 2017-06-03 22:43:54

Re: Unable to launch sage

#10 2017-06-04 00:32:11

Re: Unable to launch sage

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