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Upgraded to 0.5.3, and marker is working, but not markerCluster #91

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rsignell-usgs opened this issue Dec 18, 2017 · 5 comments
Closed

Upgraded to 0.5.3, and marker is working, but not markerCluster #91

rsignell-usgs opened this issue Dec 18, 2017 · 5 comments

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@rsignell-usgs
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I upgraded to 0.5.3, and Markeris working, but not MarkerCluster. I just get a blank map.
@rsignell-usgs
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Ah, in developer tools, I see that even though the version is showing at 0.5.3, the javascript can't find markercluster.

@rsignell-usgs
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rsignell-usgs commented Dec 18, 2017 •
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Okay, figured this out.

I'm running on Windows (not sure that matters), and firing up jupyter notebook from my base Conda environment, then running the notebook in a custom widgets environment that had the upgraded ipyleaflet.

When I upgraded my base environment to the latest version of ipyleaflet, and restarted jupyter notebook, the notebook worked fine in my widgets environment.

So I guess the python side was using my custom widgets Conda environment, but the JS side was using my base Conda environment.

Does that sound right?

@jasongrout
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So I guess the python side was using my custom kernel, but the JS side was using my base environment. Does that sound right?

Yes.

@rsignell-usgs
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Is this described in widgets doc somewhere? I probably just missed it.

@jasongrout
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Good question. It comes up often enough that we should have a troubleshooting FAQ with things like this in it.

@jasongrout jasongrout mentioned this issue Dec 18, 2017
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@tlvu tlvu mentioned this issue Mar 10, 2020
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tlvu added a commit to Ouranosinc/PAVICS-e2e-workflow-tests that referenced this issue Mar 13, 2020
@tlvu
Merge pull request #37 from Ouranosinc/install-birdy-from-source
8bbb5b4 
jupyter docker: upgrade birdy, pin pandas and geopandas for Era5 Raven notebooks

This is to productize all the manual `pip install --user` we had to do to demo Era5 Raven notebook PR: Ouranosinc/raven#200

Latest birdy 0.6.9 is working flawlessly with existing old Finch 0.2.7 and existing recently released Raven 0.10.0.  See Jenkins run http://jenkins.ouranos.ca/job/PAVICS-e2e-workflow-tests/job/install-birdy-from-source/9/console for Finch testing.  Raven test done manually.

So I'll release this Jupyter env so at least the Raven notebooks works without manually hacking the Jupyter env.  Old Finch is not broken anymore so no regression there.

birdy updated for Raven, then for Finch.

Pinning of pandas and geopandas is due to salem not supporting geopandas >= 0.7 as in this issue fmaussion/salem#152 so can unpin once there are new release of salem.

scikit-image was also need by Raven notebook `gridded_data_subset.ipynb`.

The ipyleaflet marker do not display in Raven `Region_selection.ipynb` but can be moved and its coordinate can be extracted.

Not sure why, maybe relate to jupyter-widgets/ipyleaflet#91.  Possibly also due to the freshly released jupyterlab-2.0 but downgrading jupyterlab means downgrading all the other jupyter extensions we used, too much work to just fix one broken extension so did not follow that road.

The marker was working fine in the previous image `pavics/workflow-tests:200120` which had jupyterlab-1.2.5 which further support the theory that jupyterlab-2.0 broke it.

Noticeable Jupyter env changes:

```diff
<   - birdy=v0.6.6=py_0
>     - birdhouse-birdy==0.6.9  (install from Pypi instead of Conda to fix DockerHub failure !)

<   - geopandas=0.7.0=py_1
>   - geopandas=0.6.2=py_0 

<   - pandas=1.0.1=py37hb3f55d8_0                                                                                                                     
>   - pandas=0.25.3=py37hb3f55d8_0

>   - scikit-image=0.16.2=py37hb3f55d8_0
```

Full conda env export Diff:
[200309-200310-conda-env-export.diff.txt](https://github.com/Ouranosinc/PAVICS-e2e-workflow-tests/files/4315141/200309-200310-conda-env-export.diff.txt)

[200310-200312-conda-env-export.diff.txt](https://github.com/Ouranosinc/PAVICS-e2e-workflow-tests/files/4326073/200310-200312-conda-env-export.diff.txt)

[200309-200312-conda-env-export.diff.txt](https://github.com/Ouranosinc/PAVICS-e2e-workflow-tests/files/4326058/200309-200312-conda-env-export.diff.txt)

```diff
15d14
<   - birdy=v0.6.6=py_0
18d16
<   - boltons=20.0.0=py_0
28c26
<   - certifi=2019.11.28=py37_0
---
>   - certifi=2019.11.28=py37hc8dfbb8_1
36a35
>   - cloudpickle=1.3.0=py_0
39c38
<   - coverage=5.0.3=py37h516909a_0
---
>   - coverage=5.0.3=py37h8f50634_1
42a42,43
>   - cytoolz=0.10.1=py37h516909a_0
>   - dask-core=2.12.0=py_0
60d60
<   - funcsigs=1.0.2=py_3
65,66c65,66
<   - geopandas=0.7.0=py_1
<   - geos=3.8.0=he1b5a44_0
---
>   - geopandas=0.6.2=py_0
>   - geos=3.8.0=he1b5a44_1
81a82
>   - imageio=2.8.0=py_0
97c98
<   - jupyter_console=6.0.0=py_0
---
>   - jupyter_console=6.1.0=py_0
106,107c107,108
<   - kealib=1.4.10=h58c409b_1005
<   - kiwisolver=1.1.0=py37hc9558a2_0
---
>   - kealib=1.4.12=hec59c27_0
>   - kiwisolver=1.1.0=py37h99015e2_1
138c139
<   - libspatialite=4.3.0a=hd318ce7_1035
---
>   - libspatialite=4.3.0a=hd318ce7_1036
153c154
<   - markupsafe=1.1.1=py37h516909a_0
---
>   - markupsafe=1.1.1=py37h8f50634_1
162c163
<   - nbdime=1.1.0=py37_0
---
>   - nbdime=2.0.0=py37hc8dfbb8_0
168a170
>   - networkx=2.4=py_1
173c175
<   - numpy=1.18.1=py37h95a1406_0
---
>   - numpy=1.18.1=py37h8960a57_0
183c185
<   - pandas=1.0.1=py37hb3f55d8_0
---
>   - pandas=0.25.3=py37hb3f55d8_0
223a226
>   - pywavelets=1.1.1=py37hc1659b7_0
234a238
>   - scikit-image=0.16.2=py37hb3f55d8_0
237,239c241,243
<   - setuptools=46.0.0=py37_0
<   - shapely=1.7.0=py37h5d51c17_0
<   - six=1.14.0=py37_0
---
>   - setuptools=46.0.0=py37hc8dfbb8_2
>   - shapely=1.7.0=py37hb106bac_1
>   - six=1.14.0=py_1
243c247
<   - sqlalchemy=1.3.13=py37h516909a_0
---
>   - sqlalchemy=1.3.15=py37h8f50634_1
251,252c255,257
<   - tornado=6.0.4=py37h516909a_0
<   - traitlets=4.3.3=py37_0
---
>   - toolz=0.10.0=py_0
>   - tornado=6.0.4=py37h8f50634_1
>   - traitlets=4.3.3=py37hc8dfbb8_1
266d270
<   - wrapt=1.12.1=py37h516909a_0
287a292
>     - birdhouse-birdy==0.6.9
288a294
>     - boltons==20.0.0
291d296
<     - cloudpickle==1.3.0
293d297
<     - dask==2.12.0
295a300
>     - funcsigs==1.0.2
316d320
<     - toolz==0.10.0
317a322
>     - wrapt==1.12.1
```

Full new conda env export:
[200310-conda-env-export.yml.txt](https://github.com/Ouranosinc/PAVICS-e2e-workflow-tests/files/4315142/200310-conda-env-export.yml.txt)

[200312-conda-env-export.yml.txt](https://github.com/Ouranosinc/PAVICS-e2e-workflow-tests/files/4326061/200312-conda-env-export.yml.txt)

```
name: birdy
channels:
  - cdat
  - conda-forge
  - defaults
dependencies:
  - _libgcc_mutex=0.1=conda_forge
  - _openmp_mutex=4.5=0_gnu
  - affine=2.3.0=py_0
  - alembic=1.4.1=py_0
  - async_generator=1.10=py_0
  - attrs=19.3.0=py_0
  - backcall=0.1.0=py_0
  - beautifulsoup4=4.8.2=py37_0
  - bleach=3.1.1=py_0
  - blinker=1.4=py_1
  - boost-cpp=1.72.0=h8e57a91_0
  - branca=0.3.1=py_0
  - bzip2=1.0.8=h516909a_2
  - ca-certificates=2019.11.28=hecc5488_0
  - cairo=1.16.0=hfb77d84_1002
  - cartopy=0.17.0=py37h39d8c00_1011
  - cdat_info=8.2=py_7
  - cdtime=3.1.3=py37h1ac8016_0
  - cdutil=8.2=py_2
  - certifi=2019.11.28=py37hc8dfbb8_1
  - certipy=0.1.3=py_0
  - cffi=1.14.0=py37hd463f26_0
  - cfitsio=3.470=hb60a0a2_2
  - cftime=1.0.4.2=py37hc1659b7_0
  - chardet=3.0.4=py37_1003
  - click=7.0=py_0
  - click-plugins=1.1.1=py_0
  - cligj=0.5.0=py_0
  - cloudpickle=1.3.0=py_0
  - colorama=0.4.3=py_0
  - configurable-http-proxy=4.2.0=node13_he01fd0c_2
  - coverage=5.0.3=py37h8f50634_1
  - cryptography=2.8=py37h72c5cf5_1
  - curl=7.68.0=hf8cf82a_0
  - cycler=0.10.0=py_2
  - cytoolz=0.10.1=py37h516909a_0
  - dask-core=2.12.0=py_0
  - dbus=1.13.6=he372182_0
  - decorator=4.4.2=py_0
  - defusedxml=0.6.0=py_0
  - descartes=1.1.0=py_4
  - distarray=2.12.2=py_1
  - docopt=0.6.2=py_1
  - dv3d=8.2=py_0
  - entrypoints=0.3=py37_1000
  - esgf-compute-api=2.2.3=py_0
  - esmf=8.0.0=nompi_he6d0a24_5
  - esmpy=8.0.0=nompi_py37hf0e99fa_1
  - expat=2.2.9=he1b5a44_2
  - ffmpeg=4.2=h167e202_0
  - fiona=1.8.13=py37h900e953_0
  - fontconfig=2.13.1=h86ecdb6_1001
  - freetype=2.10.0=he983fc9_1
  - freexl=1.0.5=h14c3975_1002
  - future=0.18.2=py37_0
  - g2clib=1.6.0=hf3f1b0b_9
  - gdal=3.0.4=py37hbb6b9fb_1
  - genutil=8.2=py37hc1659b7_3
  - geopandas=0.6.2=py_0
  - geos=3.8.0=he1b5a44_1
  - geotiff=1.5.1=hcbe54f9_9
  - gettext=0.19.8.1=hc5be6a0_1002
  - ghostscript=9.22=hf484d3e_1001
  - giflib=5.2.1=h516909a_2
  - gitdb=4.0.2=py_0
  - gitpython=3.1.0=py_0
  - glib=2.58.3=py37h6f030ca_1002
  - gmp=6.2.0=he1b5a44_2
  - gnutls=3.6.5=hd3a4fd2_1002
  - gst-plugins-base=1.14.5=h0935bb2_2
  - gstreamer=1.14.5=h36ae1b5_2
  - hdf4=4.2.13=hf30be14_1003
  - hdf5=1.10.5=nompi_h3c11f04_1104
  - icu=64.2=he1b5a44_1
  - idna=2.9=py_1
  - imageio=2.8.0=py_0
  - importlib_metadata=1.5.0=py37_0
  - ipykernel=5.1.4=py37h5ca1d4c_0
  - ipyleaflet=0.12.3=py_1
  - ipython=7.13.0=py37h5ca1d4c_0
  - ipython_genutils=0.2.0=py_1
  - ipywidgets=7.5.1=py_0
  - jasper=1.900.1=h07fcdf6_1006
  - jedi=0.16.0=py37_0
  - jinja2=2.11.1=py_0
  - jpeg=9c=h14c3975_1001
  - json-c=0.13.1=h14c3975_1001
  - json5=0.9.0=py_0
  - jsonschema=3.2.0=py37_0
  - jupyter=1.0.0=py_2
  - jupyter_client=6.0.0=py_0
  - jupyter_console=6.1.0=py_0
  - jupyter_core=4.6.3=py37_0
  - jupyter_server=0.1.1=py37_0
  - jupyter_telemetry=0.0.5=py_0
  - jupyterhub=1.1.0=py37_2
  - jupyterhub-base=1.1.0=py37_2
  - jupyterlab=2.0.1=py_0
  - jupyterlab_pygments=0.1.0=py_0
  - jupyterlab_server=1.0.7=py_0
  - kealib=1.4.12=hec59c27_0
  - kiwisolver=1.1.0=py37h99015e2_1
  - krb5=1.16.4=h2fd8d38_0
  - lame=3.100=h14c3975_1001
  - lazy-object-proxy=1.4.3=py37h516909a_1
  - ld_impl_linux-64=2.33.1=h53a641e_8
  - libblas=3.8.0=11_openblas
  - libcblas=3.8.0=11_openblas
  - libcdms=3.1.2=ha54dda3_8
  - libcf=1.0.3=py37hdee1361_5
  - libclang=9.0.1=default_hde54327_0
  - libcurl=7.68.0=hda55be3_0
  - libdap4=3.20.4=hd3bb157_0
  - libdrs=3.1.2=h9b7ed86_9
  - libdrs_f=3.1.2=h322d3c2_5
  - libedit=3.1.20170329=hf8c457e_1001
  - libffi=3.2.1=he1b5a44_1006
  - libgcc-ng=9.2.0=h24d8f2e_2
  - libgdal=3.0.4=h022d3c0_1
  - libgfortran-ng=7.3.0=hdf63c60_5
  - libgomp=9.2.0=h24d8f2e_2
  - libiconv=1.15=h516909a_1005
  - libidn2=2.3.0=h516909a_0
  - libkml=1.3.0=hb574062_1011
  - liblapack=3.8.0=11_openblas
  - libllvm9=9.0.1=hc9558a2_0
  - libnetcdf=4.7.3=nompi_h9f9fd6a_101
  - libopenblas=0.3.6=h6e990d7_6
  - libpng=1.6.37=hed695b0_0
  - libpq=12.2=hae5116b_0
  - libsodium=1.0.17=h516909a_0
  - libspatialindex=1.9.3=he1b5a44_3
  - libspatialite=4.3.0a=hd318ce7_1036
  - libssh2=1.8.2=h22169c7_2
  - libstdcxx-ng=9.2.0=hdf63c60_2
  - libtiff=4.1.0=hc3755c2_3
  - libunistring=0.9.10=h14c3975_0
  - libuuid=2.32.1=h14c3975_1000
  - libuv=1.34.0=h516909a_0
  - libwebp=1.0.2=h56121f0_5
  - libxcb=1.13=h14c3975_1002
  - libxkbcommon=0.10.0=he1b5a44_0
  - libxml2=2.9.10=hee79883_0
  - libxslt=1.1.33=h31b3aaa_0
  - lxml=4.5.0=py37h7ec2d77_0
  - lz4-c=1.8.3=he1b5a44_1001
  - mako=1.1.0=py_0
  - markupsafe=1.1.1=py37h8f50634_1
  - matplotlib=3.2.0=1
  - matplotlib-base=3.2.0=py37h250f245_1
  - mechanicalsoup=0.12.0=py_0
  - mesalib=18.3.1=h590aaf7_0
  - mistune=0.8.4=py37h516909a_1000
  - more-itertools=8.2.0=py_0
  - munch=2.5.0=py_0
  - nbconvert=5.6.1=py37_0
  - nbdime=2.0.0=py37hc8dfbb8_0
  - nbformat=5.0.4=py_0
  - nbval=0.9.5=py_0
  - ncurses=6.1=hf484d3e_1002
  - netcdf-fortran=4.5.2=nompi_h09cde99_103
  - netcdf4=1.5.3=nompi_py37hd35fb8e_102
  - nettle=3.4.1=h1bed415_1002
  - networkx=2.4=py_1
  - nodejs=13.9.0=h10a4023_0
  - notebook=6.0.3=py37_0
  - nspr=4.25=he1b5a44_0
  - nss=3.47=he751ad9_0
  - numpy=1.18.1=py37h8960a57_0
  - oauthlib=3.0.1=py_0
  - olefile=0.46=py_0
  - openblas=0.3.6=h6e990d7_6
  - openh264=1.8.0=hdbcaa40_1000
  - openjpeg=2.3.1=h981e76c_3
  - openssl=1.1.1d=h516909a_0
  - owslib=0.19.1=py_0
  - packaging=20.1=py_0
  - pamela=1.0.0=py_0
  - pandas=0.25.3=py37hb3f55d8_0
  - pandoc=2.9.2=0
  - pandocfilters=1.4.2=py_1
  - parso=0.6.2=py_0
  - pcre=8.44=he1b5a44_0
  - pexpect=4.8.0=py37_0
  - pickleshare=0.7.5=py37_1000
  - pillow=7.0.0=py37hefe7db6_0
  - pip=20.0.2=py_2
  - pixman=0.38.0=h516909a_1003
  - pluggy=0.13.0=py37_0
  - poppler=0.67.0=h14e79db_8
  - poppler-data=0.4.9=1
  - postgresql=12.2=hf1211e9_0
  - proj=6.3.1=hc80f0dc_1
  - prometheus_client=0.7.1=py_0
  - prompt_toolkit=2.0.10=py_0
  - pthread-stubs=0.4=h14c3975_1001
  - ptyprocess=0.6.0=py_1001
  - py=1.8.1=py_0
  - pycparser=2.20=py_0
  - pycurl=7.43.0.5=py37h16ce93b_0
  - pydap=3.2.2=py37_1000
  - pyepsg=0.4.0=py_0
  - pygments=2.6.1=py_0
  - pyjwt=1.7.1=py_0
  - pykdtree=1.3.1=py37hc1659b7_1002
  - pyopenssl=19.1.0=py_1
  - pyparsing=2.4.6=py_0
  - pyproj=2.5.0=py37he3cd046_1
  - pyqt=5.12.3=py37hcca6a23_1
  - pyrsistent=0.15.7=py37h516909a_0
  - pyshp=2.1.0=py_0
  - pysocks=1.7.1=py37_0
  - pytest=5.3.5=py37_1
  - python=3.7.6=h357f687_4_cpython
  - python-dateutil=2.8.1=py_0
  - python-editor=1.0.4=py_0
  - python-json-logger=0.1.11=py_0
  - python_abi=3.7=1_cp37m
  - pytz=2019.3=py_0
  - pywavelets=1.1.1=py37hc1659b7_0
  - pyzmq=19.0.0=py37h1768529_0
  - qt=5.12.5=hd8c4c69_1
  - qtconsole=4.7.1=py_0
  - qtpy=1.9.0=py_0
  - rasterio=1.1.3=py37h900e953_0
  - readline=8.0=hf8c457e_0
  - regionmask=0.5.0=py_1
  - requests=2.23.0=py37_0
  - rtree=0.9.4=py37h7b0cdae_0
  - ruamel.yaml=0.16.6=py37h516909a_0
  - ruamel.yaml.clib=0.2.0=py37h516909a_0
  - scikit-image=0.16.2=py37hb3f55d8_0
  - scipy=1.4.1=py37h921218d_0
  - send2trash=1.5.0=py_0
  - setuptools=46.0.0=py37hc8dfbb8_2
  - shapely=1.7.0=py37hb106bac_1
  - six=1.14.0=py_1
  - smmap=3.0.1=py_0
  - snuggs=1.4.7=py_0
  - soupsieve=1.9.4=py37_0
  - sqlalchemy=1.3.15=py37h8f50634_1
  - sqlite=3.30.1=hcee41ef_0
  - tbb=2018.0.5=h2d50403_0
  - terminado=0.8.3=py37_0
  - testpath=0.4.4=py_0
  - threddsclient=0.4.2=py_0
  - tiledb=1.7.0=hcde45ca_2
  - tk=8.6.10=hed695b0_0
  - toolz=0.10.0=py_0
  - tornado=6.0.4=py37h8f50634_1
  - traitlets=4.3.3=py37hc8dfbb8_1
  - traittypes=0.2.1=py_1
  - tzcode=2019a=h516909a_1002
  - udunits2=2.2.27.6=h4e0c4b3_1001
  - urllib3=1.25.7=py37_0
  - vcs=8.2=py_2
  - voila=0.1.21=py_0
  - vtk-cdat=8.2.0.8.2=py37_mesalibhead77ed_0
  - wcwidth=0.1.8=py_0
  - webencodings=0.5.1=py_1
  - webob=1.8.6=py_0
  - wget=1.20.1=h22169c7_0
  - wheel=0.34.2=py_1
  - widgetsnbextension=3.5.1=py37_0
  - x264=1!152.20180806=h14c3975_0
  - xarray=0.15.0=py_0
  - xerces-c=3.2.2=h8412b87_1004
  - xorg-kbproto=1.0.7=h14c3975_1002
  - xorg-libice=1.0.10=h516909a_0
  - xorg-libsm=1.2.3=h84519dc_1000
  - xorg-libx11=1.6.9=h516909a_0
  - xorg-libxau=1.0.9=h14c3975_0
  - xorg-libxdmcp=1.1.3=h516909a_0
  - xorg-libxext=1.3.4=h516909a_0
  - xorg-libxrender=0.9.10=h516909a_1002
  - xorg-renderproto=0.11.1=h14c3975_1002
  - xorg-xextproto=7.3.0=h14c3975_1002
  - xorg-xproto=7.0.31=h14c3975_1007
  - xz=5.2.4=h14c3975_1001
  - zeromq=4.3.2=he1b5a44_2
  - zipp=3.1.0=py_0
  - zlib=1.2.11=h516909a_1006
  - zstd=1.4.4=h3b9ef0a_1
  - pip:
    - astunparse==1.6.3
    - birdhouse-birdy==0.6.9
    - bokeh==2.0.0
    - boltons==20.0.0
    - bottleneck==1.3.2
    - cdms2==3.1.4
    - colour==0.1.5
    - distributed==2.12.0
    - fsspec==0.6.2
    - funcsigs==1.0.2
    - geojson==2.5.0
    - heapdict==1.0.1
    - joblib==0.14.1
    - locket==0.2.0
    - markdown==3.2.1
    - mpld3==0.3
    - msgpack==1.0.0
    - partd==1.1.0
    - pint==0.11
    - pixiedust==1.1.18
    - psutil==5.7.0
    - pyqt5-sip==4.19.18
    - pyqtwebengine==5.12.1
    - pyyaml==5.3
    - regrid2==3.1.4
    - requests-magpie==0.1.1
    - salem==0.2.4
    - scikit-learn==0.22.2.post1
    - sortedcontainers==2.1.0
    - tblib==1.6.0
    - typing-extensions==3.7.4.1
    - wrapt==1.12.1
    - xclim==0.14.0
    - zict==2.0.0
prefix: /usr/local/envs/birdy
```
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@jasongrout @rsignell-usgs