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Published 20 hours ago • verified publisher icon jupyter-widgets

pythreejs breaks jupyter lab

Open taiya opened this issue 6 years ago • 17 comments 

(venv) ~: jupyter labextension list
JupyterLab v0.35.5
Known labextensions:
   app dir: /usr/share/jupyter/lab
        jupyter-threejs v2.0.3  enabled  OK
(venv) ~: jupyter lab
[I 04:09:19.805 LabApp] Writing notebook server cookie secret to /run/user/1001/jupyter/notebook_cookie_secret
[W 04:09:20.765 LabApp] All authentication is disabled.  Anyone who can connect to this server will be able to run code.
[I 04:09:20.840 LabApp] JupyterLab extension loaded from /usr/local/lib/python3.5/dist-packages/jupyterlab
[I 04:09:20.840 LabApp] JupyterLab application directory is /usr/share/jupyter/lab
[W 04:09:20.940 LabApp] JupyterLab server extension not enabled, manually loading...
[I 04:09:21.007 LabApp] JupyterLab extension loaded from /usr/local/lib/python3.5/dist-packages/jupyterlab
[I 04:09:21.007 LabApp] JupyterLab application directory is /usr/share/jupyter/lab
[I 04:09:21.008 LabApp] Serving notebooks from local directory: /home/atagliasacchi
[I 04:09:21.008 LabApp] The Jupyter Notebook is running at:
[I 04:09:21.008 LabApp] http://localhost:8888/
[I 04:09:21.008 LabApp] Use Control-C to stop this server and shut down all kernels (twice to skip confirmation).

But when you open the URL: Screen Shot 2019-05-08 at 9 11 41 PM

And in terminal, these errors appear:

[I 04:09:24.522 LabApp] 302 GET / (::1) 1.14ms
[E 04:09:51.649 LabApp] Uncaught exception GET /lab/api/themes/@jupyterlab/theme-light-extension/index.css (::1)
    HTTPServerRequest(protocol='http', host='localhost:8888', method='GET', uri='/lab/api/themes/@jupyterlab/theme-light-extension/index.css', version='HTTP/1.1', remote_ip='::1')
    Traceback (most recent call last):
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 1592, in _execute
        result = yield result
      File "/usr/local/lib/python3.5/dist-packages/tornado/gen.py", line 1133, in run
        value = future.result()
      File "/usr/lib/python3.5/asyncio/futures.py", line 293, in result
        raise self._exception
      File "/usr/local/lib/python3.5/dist-packages/tornado/gen.py", line 326, in wrapper
        yielded = next(result)
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 2528, in get
        yield self.flush()
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 994, in flush
        start_line, self._headers, chunk, callback=callback)
      File "/usr/local/lib/python3.5/dist-packages/tornado/http1connection.py", line 412, in write_headers
        data += self._format_chunk(chunk)
      File "/usr/local/lib/python3.5/dist-packages/tornado/http1connection.py", line 424, in _format_chunk
        "Tried to write more data than Content-Length")
    tornado.httputil.HTTPOutputError: Tried to write more data than Content-Length
[E 04:09:51.651 LabApp] Cannot send error response after headers written
[E 04:09:51.720 LabApp] Uncaught exception GET /lab/api/themes/@jupyterlab/theme-light-extension/index.css (::1)
    HTTPServerRequest(protocol='http', host='localhost:8888', method='GET', uri='/lab/api/themes/@jupyterlab/theme-light-extension/index.css', version='HTTP/1.1', remote_ip='::1')
    Traceback (most recent call last):
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 1592, in _execute
        result = yield result
      File "/usr/local/lib/python3.5/dist-packages/tornado/gen.py", line 1133, in run
        value = future.result()
      File "/usr/lib/python3.5/asyncio/futures.py", line 293, in result
        raise self._exception
      File "/usr/local/lib/python3.5/dist-packages/tornado/gen.py", line 326, in wrapper
        yielded = next(result)
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 2528, in get
        yield self.flush()
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 994, in flush
        start_line, self._headers, chunk, callback=callback)
      File "/usr/local/lib/python3.5/dist-packages/tornado/http1connection.py", line 412, in write_headers
        data += self._format_chunk(chunk)
      File "/usr/local/lib/python3.5/dist-packages/tornado/http1connection.py", line 424, in _format_chunk
        "Tried to write more data than Content-Length")
    tornado.httputil.HTTPOutputError: Tried to write more data than Content-Length
[E 04:09:51.720 LabApp] Cannot send error response after headers written
[E 04:09:51.791 LabApp] Uncaught exception GET /lab/api/themes/@jupyterlab/theme-light-extension/index.css (::1)
    HTTPServerRequest(protocol='http', host='localhost:8888', method='GET', uri='/lab/api/themes/@jupyterlab/theme-light-extension/index.css', version='HTTP/1.1', remote_ip='::1')
    Traceback (most recent call last):
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 1592, in _execute
        result = yield result
      File "/usr/local/lib/python3.5/dist-packages/tornado/gen.py", line 1133, in run
        value = future.result()
      File "/usr/lib/python3.5/asyncio/futures.py", line 293, in result
        raise self._exception
      File "/usr/local/lib/python3.5/dist-packages/tornado/gen.py", line 326, in wrapper
        yielded = next(result)
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 2528, in get
        yield self.flush()
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 994, in flush
        start_line, self._headers, chunk, callback=callback)
      File "/usr/local/lib/python3.5/dist-packages/tornado/http1connection.py", line 412, in write_headers
        data += self._format_chunk(chunk)
      File "/usr/local/lib/python3.5/dist-packages/tornado/http1connection.py", line 424, in _format_chunk
        "Tried to write more data than Content-Length")
    tornado.httputil.HTTPOutputError: Tried to write more data than Content-Length
[E 04:09:51.791 LabApp] Cannot send error response after headers written
[E 04:09:51.860 LabApp] Uncaught exception GET /lab/api/themes/@jupyterlab/theme-light-extension/index.css (::1)
    HTTPServerRequest(protocol='http', host='localhost:8888', method='GET', uri='/lab/api/themes/@jupyterlab/theme-light-extension/index.css', version='HTTP/1.1', remote_ip='::1')
    Traceback (most recent call last):
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 1592, in _execute
        result = yield result
      File "/usr/local/lib/python3.5/dist-packages/tornado/gen.py", line 1133, in run
        value = future.result()
      File "/usr/lib/python3.5/asyncio/futures.py", line 293, in result
        raise self._exception
      File "/usr/local/lib/python3.5/dist-packages/tornado/gen.py", line 326, in wrapper
        yielded = next(result)
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 2528, in get
        yield self.flush()
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 994, in flush
        start_line, self._headers, chunk, callback=callback)
      File "/usr/local/lib/python3.5/dist-packages/tornado/http1connection.py", line 412, in write_headers
        data += self._format_chunk(chunk)
      File "/usr/local/lib/python3.5/dist-packages/tornado/http1connection.py", line 424, in _format_chunk
        "Tried to write more data than Content-Length")
    tornado.httputil.HTTPOutputError: Tried to write more data than Content-Length
[E 04:09:51.860 LabApp] Cannot send error response after headers written
[E 04:09:51.929 LabApp] Uncaught exception GET /lab/api/themes/@jupyterlab/theme-light-extension/index.css (::1)
    HTTPServerRequest(protocol='http', host='localhost:8888', method='GET', uri='/lab/api/themes/@jupyterlab/theme-light-extension/index.css', version='HTTP/1.1', remote_ip='::1')
    Traceback (most recent call last):
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 1592, in _execute
        result = yield result
      File "/usr/local/lib/python3.5/dist-packages/tornado/gen.py", line 1133, in run
        value = future.result()
      File "/usr/lib/python3.5/asyncio/futures.py", line 293, in result
        raise self._exception
      File "/usr/local/lib/python3.5/dist-packages/tornado/gen.py", line 326, in wrapper
        yielded = next(result)
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 2528, in get
        yield self.flush()
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 994, in flush
        start_line, self._headers, chunk, callback=callback)
      File "/usr/local/lib/python3.5/dist-packages/tornado/http1connection.py", line 412, in write_headers
        data += self._format_chunk(chunk)
      File "/usr/local/lib/python3.5/dist-packages/tornado/http1connection.py", line 424, in _format_chunk
        "Tried to write more data than Content-Length")
    tornado.httputil.HTTPOutputError: Tried to write more data than Content-Length
[E 04:09:51.929 LabApp] Cannot send error response after headers written
[I 04:09:52.051 LabApp] Node v11.14.0

[E 04:09:52.065 LabApp] Uncaught exception GET /lab/api/themes/@jupyterlab/theme-light-extension/index.css (::1)
    HTTPServerRequest(protocol='http', host='localhost:8888', method='GET', uri='/lab/api/themes/@jupyterlab/theme-light-extension/index.css', version='HTTP/1.1', remote_ip='::1')
    Traceback (most recent call last):
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 1592, in _execute
        result = yield result
      File "/usr/local/lib/python3.5/dist-packages/tornado/gen.py", line 1133, in run
        value = future.result()
      File "/usr/lib/python3.5/asyncio/futures.py", line 293, in result
        raise self._exception
      File "/usr/local/lib/python3.5/dist-packages/tornado/gen.py", line 326, in wrapper
        yielded = next(result)
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 2528, in get
        yield self.flush()
      File "/usr/local/lib/python3.5/dist-packages/tornado/web.py", line 994, in flush
        start_line, self._headers, chunk, callback=callback)
      File "/usr/local/lib/python3.5/dist-packages/tornado/http1connection.py", line 412, in write_headers
        data += self._format_chunk(chunk)
      File "/usr/local/lib/python3.5/dist-packages/tornado/http1connection.py", line 424, in _format_chunk
        "Tried to write more data than Content-Length")
    tornado.httputil.HTTPOutputError: Tried to write more data than Content-Length
[E 04:09:52.067 LabApp] Cannot send error response after headers written
[I 04:09:52.561 LabApp] Build is up to date
[I 04:09:53.265 LabApp] Kernel started: 2038ba0e-9180-49ac-8042-8cd249b73dda
[I 04:09:54.550 LabApp] Adapting to protocol v5.1 for kernel 2038ba0e-9180-49ac-8042-8cd249b73dda
[I 04:09:54.550 LabApp] Adapting to protocol v5.1 for kernel 2038ba0e-9180-49ac-8042-8cd249b73dda

taiya avatar May 09 '19 04:05 taiya

Clearing browser cache helped here (but no rendering is visible yet)

taiya avatar May 09 '19 06:05 taiya

Clearing browser cache helped here (but no rendering is visible yet)

Not sure if I follow. Did clearing the cache make lab look normal again (and did it fix the errors in the server terminal)?

vidartf avatar May 09 '19 12:05 vidartf

Yes, clearing the cache made it look normal, but when you execute the cell no graphics is displayed (while with notebooks it does)

How can one figure out how to resolve this?

taiya avatar May 09 '19 15:05 taiya

Do you have the @jupyter-widgets/jupyterlab-manager extension installed on lab? That tends to be a common missed point (can probably also be added to readme).

vidartf avatar May 10 '19 12:05 vidartf

Assuming this was fixed due to lack of response, closing. If there is still something unresolved here, please comment and I'll reopen as appropriate.

vidartf avatar Jul 03 '19 10:07 vidartf

Not quite, just did not have time recently. Let me try this morning

taiya avatar Jul 03 '19 11:07 taiya

Alright, gave it another try today (on a new server):

pip install jupyter
sudo jupyter labextension install jupyter-threejs

In a jupyter notebook, the following below produces the desired output: Screen Shot 2019-07-05 at 2 33 24 PM

While in jupyter lab it is not showing anything: Screen Shot 2019-07-05 at 2 35 30 PM

Snippet used (same ipynb file for both modes)

from pythreejs import *
import numpy as np
ball = Mesh(geometry=SphereGeometry(radius=1, widthSegments=32, heightSegments=24), 
            material=MeshLambertMaterial(color='red'),
            position=[2, 1, 0])

c = PerspectiveCamera(position=[0, 5, 5], up=[0, 1, 0],
                      children=[DirectionalLight(color='white', position=[3, 5, 1], intensity=0.5)])

scene = Scene(children=[ball, c, AmbientLight(color='#777777')])

renderer = Renderer(camera=c, 
                    scene=scene, 
                    controls=[OrbitControls(controlling=c)])
display(renderer)

taiya avatar Jul 05 '19 18:07 taiya

What is the output of jupyter labextension list?

vidartf avatar Jul 06 '19 09:07 vidartf 

(python3) /mnt/erebus/dev/cvxnet: jupyter labextension list
JupyterLab v0.35.6
Known labextensions:
   app dir: /usr/local/share/jupyter/lab
        @jupyterlab/celltags v0.1.4  enabled  OK
        @jupyterlab/git v0.5.0  enabled  OK
        jupyter-threejs v2.1.1  enabled  OK
        nbdime-jupyterlab v0.6.1  enabled  OK

taiya avatar Jul 08 '19 12:07 taiya

Ah, just saw again your note above, so looked it up and installed (I'll submit a pull request for the main readme if this is necessary)

sudo jupyter labextension install @jupyter-widgets/jupyterlab-manager

A change in the failure you get :) Screen Shot 2019-07-08 at 8 47 14 AM

taiya avatar Jul 08 '19 12:07 taiya

Do you have any errors in the browser console (typically via Ctrl + Shift + J, or F12).

vidartf avatar Jul 08 '19 13:07 vidartf

Oh yes, plenty :) Screen Shot 2019-07-08 at 9 38 26 AM

taiya avatar Jul 08 '19 13:07 taiya

Try to upgrade your Python pythreejs package (via conda or pip), as well as updating the labextension (jupyter labextension update --all).

vidartf avatar Jul 08 '19 15:07 vidartf 

pip install pythreejs --upgrade
(python3) /mnt/erebus/dev/cvxnet: pip install pythreejs --upgrade
Requirement already up-to-date: pythreejs in /home/atagliasacchi/Envs/python3/lib/python3.5/site-packages (2.1.1)

(python3) /mnt/erebus/dev/cvxnet: sudo jupyter labextension update --all
Node v11.15.0
Extension 'nbdime-jupyterlab' already up to date
Extension '@jupyterlab/git' already up to date
Extension 'jupyter-threejs' already up to date
Extension '@jupyterlab/celltags' already up to date
Extension '@jupyter-widgets/jupyterlab-manager' already up to dat

And while the above does not show versions, here they are

(python3) /mnt/erebus/dev/cvxnet:  jupyter labextension list
JupyterLab v0.35.6
Known labextensions:
   app dir: /usr/local/share/jupyter/lab
        @jupyter-widgets/jupyterlab-manager v0.38.1  enabled  OK
        @jupyterlab/celltags v0.1.4  enabled  OK
        @jupyterlab/git v0.6.0  enabled  OK
        jupyter-threejs v2.1.1  enabled  OK
        nbdime-jupyterlab v0.6.1  enabled  OK

Result of cell execution is the same:

Error displaying widget

taiya avatar Jul 08 '19 17:07 taiya

Hmm, seems to be an issue with the latest patch release of ipywidgets (https://github.com/jupyter-widgets/ipywidgets/issues/2491). It should be fixed once that issue is resolved and released.

vidartf avatar Jul 10 '19 12:07 vidartf

Fingers crossed that's the case :) Let me know when you get the chance to test.

On Wed, Jul 10, 2019, 2:52 PM Vidar Tonaas Fauske [email protected] wrote:

Hmm, seems to be an issue with the latest patch relelase of ipywidgets ( jupyter-widgets/ipywidgets#2491 https://github.com/jupyter-widgets/ipywidgets/issues/2491). It should be fixed once that issue is resolved and released.

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/jupyter-widgets/pythreejs/issues/268?email_source=notifications&email_token=ABCF4PIT3Z35TFBCTPJYV4TP6XLSLA5CNFSM4HLW7O2KYY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGODZTLOQI#issuecomment-510048065, or mute the thread https://github.com/notifications/unsubscribe-auth/ABCF4PKR6NHR723IFK3BPJ3P6XLSLANCNFSM4HLW7O2A .

taiya avatar Jul 10 '19 19:07 taiya

The issue with ipywidgets has been resolved, but there is now an issue with lab left to resolve this. Currently on vacation, so at least 2 weeks until I get to look at it. Note that upgrading to lab 1.0 should fix this issue.

vidartf avatar Jul 11 '19 13:07 vidartf