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Spyder IDE doesn't start #208567

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hervyqa opened this issue Jan 1, 2023 · 5 comments · Fixed by #208734
Closed

Spyder IDE doesn't start #208567

hervyqa opened this issue Jan 1, 2023 · 5 comments · Fixed by #208734
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0.kind: bug

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@hervyqa
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hervyqa commented Jan 1, 2023

Describe the bug

Can't run spyder IDE

Steps To Reproduce

Steps to reproduce the behavior:

  1. add spyder pkgs in configuration.nix
  2. run spyder in terminal.

Expected behavior

the application runs properly.

Additional context

➜  ~ spyder 
Traceback (most recent call last):
  File "/nix/store/yxmyyvpimj4rilwk9s5vcjwpnc86bz3s-python3.10-spyder-5.4.0/bin/..spyder-wrapped-wrapped", line 6, in <module>
    from spyder.app.start import main
  File "/nix/store/yxmyyvpimj4rilwk9s5vcjwpnc86bz3s-python3.10-spyder-5.4.0/lib/python3.10/site-packages/spyder/app/start.py", line 42, in <module>
    import zmq
ModuleNotFoundError: No module named 'zmq'

Notify maintainers

@gebner

Metadata

➜  ~ nix-shell -p nix-info --run "nix-info -m"
 - system: `"x86_64-linux"`
 - host os: `Linux 5.15.85, NixOS, 22.11 (Raccoon), 22.11.1198.913a47cd064`
 - multi-user?: `yes`
 - sandbox: `yes`
 - version: `nix-env (Nix) 2.11.1`
 - channels(hervyqa): `""`
 - channels(root): `"nixos-22.11"`
 - nixpkgs: `/nix/var/nix/profiles/per-user/root/channels/nixos`
@bjornfor
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bjornfor commented Jan 1, 2023

I wonder if something clears PYTHONPATH between the wrapper setting it up and spyder importing zmq. Because if you look at the spyder wrapper script, it does add pyzmq to the search path.

@bjornfor bjornfor mentioned this issue Jan 2, 2023
Merged
13 tasks
bjornfor added a commit to bjornfor/nixpkgs that referenced this issue Jan 2, 2023
@bjornfor
spyder: add patch fix startup error
82ed3c7 
Upstream clears out all sys.path entries that come from PYTHONPATH,
which completely breaks Nixpkgs packaging. Patch out that code to fix
running spyder.

Before:

  $ spyder
  Traceback (most recent call last):
    File "/nix/store/icbklw22yrzy7s8k2ai8chkhrvna8pxr-python3.10-spyder-5.4.0/bin/..spyder-wrapped-wrapped", line 6, in <module>
      from spyder.app.start import main
    File "/nix/store/icbklw22yrzy7s8k2ai8chkhrvna8pxr-python3.10-spyder-5.4.0/lib/python3.10/site-packages/spyder/app/start.py", line 42, in <module>
      import zmq
  ModuleNotFoundError: No module named 'zmq'
  (exit with error code 1)

After:

  $ spyder
  (succeeds startup)

Note that once the GUI is up, it complains (inside GUI) that we've got
wrong version of 2 deps and
"ModuleNotFoundError: No module named 'spyder_kernels'".

Fixes NixOS#208567
@bjornfor
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bjornfor commented Jan 2, 2023

Fix here: #208734

If anyone has time/motivation to discuss this with upstream that'd be great.

@hervyqa
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hervyqa commented Jan 4, 2023

sorry, duplicated issue. #205497

@hervyqa
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hervyqa commented Jan 10, 2023

Screenshot_20230111_044615

i found double .desktop in /nix/store/1339apxlb2wnhghq6z1dkk1l57k7cxhi-python3.10-spyder-5.4.0/share/applications/, can you delete one of them?

remove this.

  desktopItem = makeDesktopItem {
    name = "Spyder";
    exec = "spyder";
    icon = "spyder";
    comment = "Scientific Python Development Environment";
    desktopName = "Spyder";
    genericName = "Python IDE";
    categories = [ "Development" "IDE" ];
  };

or

cp -r $desktopItem/share/applications/ $out/share

bjornfor added a commit that referenced this issue Jan 11, 2023
@bjornfor
spyder: add patch fix startup error
4e9e5ae 
Upstream clears out all sys.path entries that come from PYTHONPATH,
which completely breaks Nixpkgs packaging. Patch out that code to fix
running spyder.

Before:

  $ spyder
  Traceback (most recent call last):
    File "/nix/store/icbklw22yrzy7s8k2ai8chkhrvna8pxr-python3.10-spyder-5.4.0/bin/..spyder-wrapped-wrapped", line 6, in <module>
      from spyder.app.start import main
    File "/nix/store/icbklw22yrzy7s8k2ai8chkhrvna8pxr-python3.10-spyder-5.4.0/lib/python3.10/site-packages/spyder/app/start.py", line 42, in <module>
      import zmq
  ModuleNotFoundError: No module named 'zmq'
  (exit with error code 1)

After:

  $ spyder
  (succeeds startup)

Note that once the GUI is up, it complains (inside GUI) that we've got
wrong version of 2 deps and
"ModuleNotFoundError: No module named 'spyder_kernels'".

Fixes #208567
@bjornfor
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Contributor

i found double .desktop in /nix/store/1339apxlb2wnhghq6z1dkk1l57k7cxhi-python3.10-spyder-5.4.0/share/applications/, can you delete one of them?

Thanks for reporting. See #210170.

github-actions bot pushed a commit that referenced this issue Jan 12, 2023
@bjornfor @github-actions
spyder: add patch fix startup error
fba699e 
Upstream clears out all sys.path entries that come from PYTHONPATH,
which completely breaks Nixpkgs packaging. Patch out that code to fix
running spyder.

Before:

  $ spyder
  Traceback (most recent call last):
    File "/nix/store/icbklw22yrzy7s8k2ai8chkhrvna8pxr-python3.10-spyder-5.4.0/bin/..spyder-wrapped-wrapped", line 6, in <module>
      from spyder.app.start import main
    File "/nix/store/icbklw22yrzy7s8k2ai8chkhrvna8pxr-python3.10-spyder-5.4.0/lib/python3.10/site-packages/spyder/app/start.py", line 42, in <module>
      import zmq
  ModuleNotFoundError: No module named 'zmq'
  (exit with error code 1)

After:

  $ spyder
  (succeeds startup)

Note that once the GUI is up, it complains (inside GUI) that we've got
wrong version of 2 deps and
"ModuleNotFoundError: No module named 'spyder_kernels'".

Fixes #208567

(cherry picked from commit 82ed3c7)
bjornfor added a commit that referenced this issue Jan 13, 2023
@bjornfor
spyder: add patch fix startup error
7c72a6c 
Upstream clears out all sys.path entries that come from PYTHONPATH,
which completely breaks Nixpkgs packaging. Patch out that code to fix
running spyder.

Before:

  $ spyder
  Traceback (most recent call last):
    File "/nix/store/icbklw22yrzy7s8k2ai8chkhrvna8pxr-python3.10-spyder-5.4.0/bin/..spyder-wrapped-wrapped", line 6, in <module>
      from spyder.app.start import main
    File "/nix/store/icbklw22yrzy7s8k2ai8chkhrvna8pxr-python3.10-spyder-5.4.0/lib/python3.10/site-packages/spyder/app/start.py", line 42, in <module>
      import zmq
  ModuleNotFoundError: No module named 'zmq'
  (exit with error code 1)

After:

  $ spyder
  (succeeds startup)

Note that once the GUI is up, it complains (inside GUI) that we've got
wrong version of 2 deps and
"ModuleNotFoundError: No module named 'spyder_kernels'".

Fixes #208567

(cherry picked from commit 82ed3c7)
miker2049 pushed a commit to miker2049/nixpkgs that referenced this issue Jan 15, 2023
@bjornfor @miker2049
spyder: add patch fix startup error
cc6e795 
Upstream clears out all sys.path entries that come from PYTHONPATH,
which completely breaks Nixpkgs packaging. Patch out that code to fix
running spyder.

Before:

  $ spyder
  Traceback (most recent call last):
    File "/nix/store/icbklw22yrzy7s8k2ai8chkhrvna8pxr-python3.10-spyder-5.4.0/bin/..spyder-wrapped-wrapped", line 6, in <module>
      from spyder.app.start import main
    File "/nix/store/icbklw22yrzy7s8k2ai8chkhrvna8pxr-python3.10-spyder-5.4.0/lib/python3.10/site-packages/spyder/app/start.py", line 42, in <module>
      import zmq
  ModuleNotFoundError: No module named 'zmq'
  (exit with error code 1)

After:

  $ spyder
  (succeeds startup)

Note that once the GUI is up, it complains (inside GUI) that we've got
wrong version of 2 deps and
"ModuleNotFoundError: No module named 'spyder_kernels'".

Fixes NixOS#208567

(cherry picked from commit 82ed3c7)
adamcstephens pushed a commit to adamcstephens/nixpkgs that referenced this issue Jan 25, 2023
@bjornfor @adamcstephens
spyder: add patch fix startup error
090fc32 
Upstream clears out all sys.path entries that come from PYTHONPATH,
which completely breaks Nixpkgs packaging. Patch out that code to fix
running spyder.

Before:

  $ spyder
  Traceback (most recent call last):
    File "/nix/store/icbklw22yrzy7s8k2ai8chkhrvna8pxr-python3.10-spyder-5.4.0/bin/..spyder-wrapped-wrapped", line 6, in <module>
      from spyder.app.start import main
    File "/nix/store/icbklw22yrzy7s8k2ai8chkhrvna8pxr-python3.10-spyder-5.4.0/lib/python3.10/site-packages/spyder/app/start.py", line 42, in <module>
      import zmq
  ModuleNotFoundError: No module named 'zmq'
  (exit with error code 1)

After:

  $ spyder
  (succeeds startup)

Note that once the GUI is up, it complains (inside GUI) that we've got
wrong version of 2 deps and
"ModuleNotFoundError: No module named 'spyder_kernels'".

Fixes NixOS#208567
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spyder: add patch fix startup error bjornfor/nixpkgs
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@bjornfor @hervyqa