Cannot install spyder

Issues & Assistance
1

hi,

newcomer to this excellent distro...

cannot install spyder, however, can anyone help?

❯ yay -S spyder                                                                         100%   433.3 Mbps  ─╯
resolving dependencies...
looking for conflicting packages...

Packages (44) python-argh-0.26.2-8  python-astroid-2.4.2-4  python-atomicwrites-1.4.0-3  python-babel-2.8.1-2
              python-cloudpickle-1.2.2-5  python-diff-match-patch-20200713-3  python-docutils-0.16-4
              python-future-0.18.2-5  python-helpdev-0.7.1-3  python-imagesize-1.2.0-4
              python-intervaltree-3.1.0-3  python-isort-5.6.4-3  python-jeepney-0.6.0-4
              python-jsonrpc-server-0.4.0-3  python-keyring-21.5.0-3  python-language-server-0.36.1-1
              python-lazy-object-proxy-1.5.2-2  python-mccabe-0.6.1-7  python-numpydoc-1.1.0-3
              python-pathtools-0.1.2-9  python-pluggy-0.13.1-4  python-pylint-2.6.0-3  python-pytz-2020.4-3
              python-qdarkstyle-2.8.1-3  python-qtawesome-0.6.0-5  python-qtconsole-4.7.3-3
              python-secretstorage-3.3.0-1  python-sip-4.19.24-4  python-snowballstemmer-2.0.0-6
              python-sortedcontainers-2.3.0-3  python-sphinx-3.3.1-2  python-sphinx-alabaster-theme-0.7.12-6
              python-sphinxcontrib-applehelp-1.0.2-3  python-sphinxcontrib-devhelp-1.0.2-3
              python-sphinxcontrib-htmlhelp-1.0.3-3  python-sphinxcontrib-jsmath-1.0.1-6
              python-sphinxcontrib-qthelp-1.0.3-3  python-sphinxcontrib-serializinghtml-1.1.4-3
              python-spyder-kernels-1.10.0-3  python-ujson-4.0.1-3  python-watchdog-0.10.4-1
              python-wrapt-1.12.1-4  python-wurlitzer-2.0.0-3  spyder-4.1.5-3

Total Installed Size:  101.47 MiB

:: Proceed with installation? [Y/n] 
(44/44) checking keys in keyring                                      [--------------------------------------] 100%
(44/44) checking package integrity                                    [--------------------------------------] 100%
(44/44) loading package files                                         [--------------------------------------] 100%
(44/44) checking for file conflicts                                   [--------------------------------------] 100%
error: failed to commit transaction (conflicting files)
python-pytz: /usr/lib/python3.9/site-packages/pytz/__init__.py exists in filesystem
python-pytz: /usr/lib/python3.9/site-packages/pytz/__pycache__/__init__.cpython-39.pyc exists in filesystem
python-pytz: /usr/lib/python3.9/site-packages/pytz/__pycache__/exceptions.cpython-39.pyc exists in filesystem
python-pytz: /usr/lib/python3.9/site-packages/pytz/__pycache__/lazy.cpython-39.pyc exists in filesystem
python-pytz: /usr/lib/python3.9/site-packages/pytz/__pycache__/reference.cpython-39.pyc exists in filesystem
python-pytz: /usr/lib/python3.9/site-packages/pytz/__pycache__/tzfile.cpython-39.pyc exists in filesystem
python-pytz: /usr/lib/python3.9/site-packages/pytz/__pycache__/tzinfo.cpython-39.pyc exists in filesystem
python-pytz: /usr/lib/python3.9/site-packages/pytz/exceptions.py exists in filesystem
python-pytz: /usr/lib/python3.9/site-packages/pytz/lazy.py exists in filesystem
python-pytz: /usr/lib/python3.9/site-packages/pytz/reference.py exists in filesystem
python-pytz: /usr/lib/python3.9/site-packages/pytz/tzfile.py exists in filesystem
python-pytz: /usr/lib/python3.9/site-packages/pytz/tzinfo.py exists in filesystem
Errors occurred, no packages were upgraded.
error installing repo packages
2

The issue lies within the python-pytz package, and has probably happened because you have run sudo pip install at some point.

You can overwrite the existing files - assuming you didn’t put them there yourself and know better - with:

sudo pacman -S spyder --overwrite="usr/lib/python3.9/site-packages/pytz/*"
5 Likes
3

wow what a terrific response time…
thank you it installed but describes missing dependency spyder_kernels

also what does the line below mean regarding .pac* files? (sorry i’m new, never had these on manjaro or endeavour os)

(5/6) Checking for .pacnew and .pacsave files…
.pac* files found:
/etc/nohang/nohang-desktop.conf.pacnew
/etc/systemd/homed.conf.pacnew
Please check and merge
(6/6) Updating the desktop file MIME type cache…

4

I assume that’s related to the package python-spyder-kernels. This implies your package lists are out-of-date, or your mirror is out-of-date. First, try:

sudo pacman -Syu

and if that doesn’t help then refresh your mirror list (and try the above again).

https://wiki.archlinux.org/index.php/Pacman/Pacnew_and_Pacsave

3 Likes
5

thanks again for your help jonathon...

still surprised that spyder won't run due to the dependency problem. i wonder if anyone else is experiencing.

mirror refresh unfortunately didn't help.

thoughts?

6

Ya well that's going to happen, if you don't install your packages the correct way (using the pacman command , not pip).

3 Likes
7

Can you post some steps someone can use to replicate the problem you’re seeing? e.g. which commands will show the error?

1 Like
8

Clarification: I did not use pip, I only used the pacman command sudo pacman -Sy spyder

The application starts, but has a window message upon startup specifying the library conflicts.

Incidentally, I installed manjaro also and the error is replicated. But the consequence is different; spyder in manjaro allowed me to work after closing the error window, whereas in garuda it crashes.

not sure why this is not being reported, but it appears reproducible.

9

Great. If you can provide some replication steps then someone might be able to help.

Also keep in mind that this thread is marked as Solved, so this might be a different issue and so should be in a new thread.