I ran gap and it said it's version 4.13.1, so it theoretically should be ok?
I ran the `ldd` code you said, but I'm not sure how to read the output.
Here's what I get:
(sage-sh) aram@Cali-Alien:sd$ ldd /sage/sd/src/sage/libs/gap/
libgap.cpython-312-x86_64-linux-gnu.so
linux-vdso.so.1 (0x00007ffd603ee000)
libgap.so.7 => /lib/x86_64-linux-gnu/libgap.so.7
(0x00007f333560a000)
libc.so.6 => /lib/x86_64-linux-gnu/libc.so.6 (0x00007f33353e1000)
libgmp.so.10 => /lib/x86_64-linux-gnu/libgmp.so.10
(0x00007f333535f000)
libz.so.1 => /lib/x86_64-linux-gnu/libz.so.1 (0x00007f3335343000)
libreadline.so.8 => /lib/x86_64-linux-gnu/libreadline.so.8
(0x00007f33352ef000)
libm.so.6 => /lib/x86_64-linux-gnu/libm.so.6 (0x00007f3335206000)
/lib64/ld-linux-x86-64.so.2 (0x00007f3336169000)
libtinfo.so.6 => /lib/x86_64-linux-gnu/libtinfo.so.6
(0x00007f33351d4000)
On Thu, 24 Apr 2025 at 22:48, Dima Pasechnik <dimp...@gmail.com> wrote:
>
>
> On Thu, Apr 24, 2025 at 12:02 PM Aram Dermenjian <
> aram.dermenjian.m...@gmail.com> wrote:
>
>> Yeah a few times I tried doing make after and there seemed to be *some*
>> success sometimes. Anyway, my internet is a little more stable so it seemed
>> to download everything correctly.
>>
>> Now I seem to be getting a sagemath_doc_html error (log attached). It
>> looks like something to do with trying to import libgap? I checked apt to
>> see what libgap I have and here's what it gave:
>> libgap-dev/jammy,now 4.11.1-1 amd64 [installed]
>> libgap7/jammy,now 4.11.1-1 amd64 [installed,automatic]
>>
>> But I'm not 100% sure. When I try to run sage, I get the following error
>> (which seems very similar to the doc error)
>>
>> --------------------------------------------------------
>> Error in sys.excepthook:
>> Traceback (most recent call last):
>> File
>> "/sage/sd/local/var/lib/sage/venv-python3.12.5/lib/python3.12/site-packages/IPython/core/application.py",
>> line 284, in excepthook
>> return self.crash_handler(etype, evalue, tb)
>> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>> File
>> "/sage/sd/local/var/lib/sage/venv-python3.12.5/lib/python3.12/site-packages/IPython/core/crashhandler.py",
>> line 163, in __call__
>> if rptdir is None or not Path.is_dir(rptdir):
>> ^^^^^^^^^^^^^^^^^^^
>> File
>> "/sage/sd/local/var/lib/sage/venv-python3.12.5/lib/python3.12/pathlib.py",
>> line 875, in is_dir
>> return S_ISDIR(self.stat().st_mode)
>> ^^^^^^^^^
>> AttributeError: 'str' object has no attribute 'stat'
>>
>> Original exception was:
>> Traceback (most recent call last):
>> File "/sage/sd/src/bin/sage-ipython", line 15, in <module>
>> app.initialize()
>> File
>> "/sage/sd/local/var/lib/sage/venv-python3.12.5/lib/python3.12/site-packages/traitlets/config/application.py",
>> line 118, in inner
>> return method(app, *args, **kwargs)
>> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>> File
>> "/sage/sd/local/var/lib/sage/venv-python3.12.5/lib/python3.12/site-packages/IPython/terminal/ipapp.py",
>> line 278, in initialize
>> self.init_shell()
>> File "/sage/sd/src/sage/repl/interpreter.py", line 854, in init_shell
>> self.shell.extension_manager.load_extension(SAGE_EXTENSION)
>> File
>> "/sage/sd/local/var/lib/sage/venv-python3.12.5/lib/python3.12/site-packages/IPython/core/extensions.py",
>> line 76, in load_extension
>> return self._load_extension(module_str)
>> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>> File
>> "/sage/sd/local/var/lib/sage/venv-python3.12.5/lib/python3.12/site-packages/IPython/core/extensions.py",
>> line 93, in _load_extension
>> if self._call_load_ipython_extension(mod):
>> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>> File
>> "/sage/sd/local/var/lib/sage/venv-python3.12.5/lib/python3.12/site-packages/IPython/core/extensions.py",
>> line 145, in _call_load_ipython_extension
>> mod.load_ipython_extension(self.shell)
>> File "/sage/sd/src/sage/repl/__init__.py", line 6, in
>> load_ipython_extension
>> sage.repl.ipython_extension.load_ipython_extension(*args)
>> File "/sage/sd/src/sage/misc/misc.py", line 1030, in wrapper
>> result = func(*args, **kwargs)
>> ^^^^^^^^^^^^^^^^^^^^^
>> File "/sage/sd/src/sage/repl/ipython_extension.py", line 747, in
>> load_ipython_extension
>> SageCustomizations(shell=ip)
>> File "/sage/sd/src/sage/repl/ipython_extension.py", line 592, in
>> __init__
>> import sage.all # noqa: F401
>> ^^^^^^^^^^^^^^^
>> File "/sage/sd/src/sage/all.py", line 98, in <module>
>> from sage.groups.all import *
>> File "/sage/sd/src/sage/groups/all.py", line 5, in <module>
>> from sage.groups.matrix_gps.all import *
>> File "/sage/sd/src/sage/groups/matrix_gps/all.py", line 13, in <module>
>> import sage.groups.matrix_gps.pickling_overrides
>> File "/sage/sd/src/sage/groups/matrix_gps/pickling_overrides.py", line
>> 7, in <module>
>> from sage.groups.matrix_gps.finitely_generated_gap import
>> FinitelyGeneratedMatrixGroup_gap
>> File "/sage/sd/src/sage/groups/matrix_gps/finitely_generated_gap.py",
>> line 30, in <module>
>> from sage.groups.matrix_gps.matrix_group_gap import MatrixGroup_gap
>> File "/sage/sd/src/sage/groups/matrix_gps/matrix_group_gap.py", line
>> 24, in <module>
>> from sage.groups.libgap_mixin import GroupMixinLibGAP
>> File "/sage/sd/src/sage/groups/libgap_mixin.py", line 15, in <module>
>> from sage.libs.gap.libgap import libgap
>> ImportError: /sage/sd/src/sage/libs/gap/
>> libgap.cpython-312-x86_64-linux-gnu.so: undefined symbol: GAP_CollectBags
>>
>
> Sage needs GAP 4.13 or newer.
> Assuming you actually built GAP spkg OK, the error might be due to the
> system-wide installed old version of GAP (and libgap)
> interfering with the normal operations of Sage interface.
>
> One way to debug this is to fire up Sage shell (i.e. ./sage --sh, or
> ./sage --buildsh) and run
>
> ldd /sage/sd/src/sage/libs/gap/libgap.cpython-312-x86_64-linux-gnu.so
>
> which will print the full paths to the libraries this Python module is
> linked to..
>
> I'd uninstall the old system-wide GAP, and see if it helps.
>
> Dima
>
>
>> On Thu, 24 Apr 2025 at 18:51, Dima Pasechnik <dimp...@gmail.com> wrote:
>>
>>> You can try to restart make after you hit ctrl-C. Sometimes it just
>>> works.
>>>
>>> > Also, I'm thinking I should create a ticket along the lines of "if
>>> unable to download xxx, then an error should be thrown instead of just
>>> hanging and waiting forever",
>>>
>>> it might help to trim the list of mirrors in upstream/mirror_list - only
>>> leave few mirrors geographically nearby.
>>>
>>>
>>> On Wed, Apr 23, 2025 at 12:17 PM Aram Dermenjian <
>>> aram.dermenjian.m...@gmail.com> wrote:
>>>
>>>> This definitely solves the sci-py problem! Thanks.
>>>>
>>>> I'm still getting hung up on the 2nd issue though where for some reason
>>>> matplotlib just won't install. The terminal goes to something like:
>>>> ```
>>>> [sagenb_export-3.3] [spkg-pipinst] Installing collected packages:
>>>> sagenb_export
>>>> [sagenb_export-3.3] [spkg-pipinst] changing mode of
>>>> /sage/sagedev/local/var/lib/sage/venv-python3.12.5/bin/sagenb-export to 755
>>>> [sagenb_export-3.3] [spkg-pipinst] Successfully installed
>>>> sagenb_export-3.3
>>>> [sagenb_export-3.3] Deleting build directory
>>>> /sage/sagedev/local/var/lib/sage/venv-python3.12.5/var/tmp/sage/build/sagenb_export-3.3
>>>> [sagenb_export-3.3] Finished installing sagenb_export-3.3
>>>> ```
>>>> (each time something slightly different) and then it just stalls there.
>>>> (I Left it like that for 4 hours and no change. Then when I ctrl+c to stop
>>>> the running process matplotlib throws an error.
>>>>
>>>> -Aram
>>>>
>>>> On Wed, 23 Apr 2025 at 13:25, Eric Gourgoulhon <egourgoul...@gmail.com>
>>>> wrote:
>>>>
>>>>> Hi,
>>>>>
>>>>> This line in the scipy log:
>>>>> [spkg-install] g++: fatal error: Killed signal terminated program
>>>>> cc1plus
>>>>> points towards a memory issue. Could you increase the RAM devoted to
>>>>> WSL2 or decrease the number of processes if you are performing a parallel
>>>>> build (e.g use make -j4 instead of make -j8) ?
>>>>>
>>>>> Eric.
>>>>>
>>>>>
>>>>> Le mercredi 23 avril 2025 à 11:41:37 UTC+2, aram.derme...@gmail.com a
>>>>> écrit :
>>>>>
>>>>>> Hey all,
>>>>>>
>>>>>> I'm trying to update to the latest devel version in order to code
>>>>>> some things up, but I can't seem to get the latest devel version "making"
>>>>>> properly. Not sure if I'm doing something wrong, so I'm attaching my
>>>>>> logs.
>>>>>>
>>>>>> - First time, I ran it, I got a scipy error (logs attached) and it
>>>>>> wouldn't build
>>>>>> - I tried running `make` again (without doing a `make distclean`) and
>>>>>> the 2nd time scipy installs correctly, but then the instlaler just hangs
>>>>>> and doesn't finish.
>>>>>> -> When I `ctrl+c` to quit, it shows `matplotlib-3.10.1` errors, so
>>>>>> seems like it's getting stuck in `matplotlib-3.10.1`. (Which I'm
>>>>>> attaching
>>>>>> the log file for)
>>>>>> -> Analyzying the log file, looks like it can't properly get
>>>>>> `matplotlib-3.10.1`. Version 10.6 doesn't have it (only has
>>>>>> `matplotlib-3.8` and the URL it's trying to download from for 10.7 is
>>>>>> wrong
>>>>>> (It should be:
>>>>>> https://github.com/sagemath/sage/releases/download/10.7.beta1/matplotlib-3.10.1.tar.gz
>>>>>> )
>>>>>>
>>>>>> I tried installing a fresh copy of sagedev (not my forked version)
>>>>>> and a similar thing happens, but this time it failed when trying to
>>>>>> install
>>>>>> numpy.
>>>>>>
>>>>>> Wanted to see what the best way to approach fixing my development
>>>>>> version is.
>>>>>>
>>>>>> Also, I'm thinking I should create a ticket along the lines of "if
>>>>>> unable to download xxx, then an error should be thrown instead of just
>>>>>> hanging and waiting forever", but before doing that I want to make sure
>>>>>> that it is really a problem with the dev version and not a problem on my
>>>>>> end (as my internet is a little weird here, so it could potentially be my
>>>>>> internet being weird)
>>>>>>
>>>>>> Kindly,
>>>>>> Aram
>>>>>>
>>>>> --
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