Comments (8)
I am sorry, I can't reproduce this... Neither with the latest release, not with the latest version on master. I get something reasonable like this
from adjusttext.
it seems it is somehow not compatible with some packages in my conda environment. I tried the code in a base environment, where it only has a few basic packages installed, and it worked. But it kept producing the weird effect in my conda environment.
my environment has the following packages
Package Version
------------------------ -----------
absl-py 1.2.0
adjustText 0.8
aiohttp 3.8.4
aiosignal 1.3.1
anndata 0.8.0
annoy 1.17.1
anyio 3.6.2
appdirs 1.4.4
appnope 0.1.3
argon2-cffi 21.3.0
argon2-cffi-bindings 21.2.0
arrow 1.2.2
asttokens 2.0.8
astunparse 1.6.3
async-timeout 4.0.2
attrs 22.1.0
backcall 0.2.0
beautifulsoup4 4.11.1
bhtsne 0.1.9
bioinfokit 2.1.0
biomart 0.9.2
biopython 1.81
bleach 5.0.1
bokeh 2.4.3
bravado 11.0.3
bravado-core 5.17.0
cached-property 1.5.2
cachetools 5.2.0
certifi 2022.6.15
cffi 1.15.1
charset-normalizer 2.1.1
click 8.1.3
cloudpickle 2.2.1
comtypes 1.1.14
cycler 0.11.0
Cython 0.29.32
dask 2023.2.0
datacache 1.1.5
datasets 2.9.0
debugpy 1.6.3
decorator 5.1.1
defusedxml 0.7.1
dill 0.3.6
docker-pycreds 0.4.0
entrypoints 0.4
et-xmlfile 1.1.0
etils 0.9.0
executing 1.1.1
fastjsonschema 2.16.2
filelock 3.9.0
flatbuffers 1.12
fonttools 4.36.0
fqdn 1.5.1
frozenlist 1.3.3
fsspec 2023.1.0
gast 0.4.0
gitdb 4.0.10
GitPython 3.1.31
google-auth 2.11.0
google-auth-oauthlib 0.4.6
google-pasta 0.2.0
googleapis-common-protos 1.56.4
grpcio 1.48.0
gseapy 0.14.0
gtfparse 1.2.1
h5py 3.6.0
huggingface-hub 0.12.1
idna 3.3
imbalanced-learn 0.9.1
importlib-metadata 4.12.0
importlib-resources 5.10.0
iniconfig 1.1.1
ipykernel 6.16.1
ipython 8.5.0
ipython-genutils 0.2.0
ipywidgets 8.0.2
isoduration 20.11.0
jedi 0.18.1
Jinja2 3.1.2
joblib 1.1.0
jsonpointer 2.3
jsonref 0.2
jsonschema 4.14.0
jupyter 1.0.0
jupyter_client 7.4.3
jupyter-console 6.4.4
jupyter_core 4.11.2
jupyter-server 1.21.0
jupyterlab-pygments 0.2.2
jupyterlab-widgets 3.0.3
keras 2.9.0
Keras-Preprocessing 1.1.2
kiwisolver 1.4.4
kneed 0.8.1
libclang 14.0.6
llvmlite 0.39.0
locket 1.0.0
Markdown 3.4.1
MarkupSafe 2.1.1
matplotlib 3.5.3
matplotlib-inline 0.1.6
matplotlib-venn 0.11.7
memoized-property 1.0.3
mistune 2.0.4
mock 4.0.3
monotonic 1.6
msgpack 1.0.4
multidict 6.0.4
multiprocess 0.70.14
munkres 1.1.4
natsort 8.2.0
nbclassic 0.4.5
nbclient 0.7.0
nbconvert 7.2.2
nbformat 5.7.0
ncafs 0.2
nest-asyncio 1.5.6
networkx 3.0
notebook 6.5.1
notebook_shim 0.2.0
numba 0.56.0
numpy 1.22.4
oauthlib 3.2.0
opencv-python 4.7.0.68
openpyxl 3.0.10
opt-einsum 3.3.0
packaging 21.3
pacmap 0.6.5
pandas 1.4.3
pandocfilters 1.5.0
parso 0.8.3
partd 1.3.0
pathtools 0.1.2
patsy 0.5.3
pexpect 4.8.0
pickleshare 0.7.5
Pillow 9.2.0
pip 22.2.2
plastid 0.6.1
pluggy 1.0.0
progressbar33 2.4
prometheus-client 0.15.0
promise 2.3
prompt-toolkit 3.0.31
protobuf 3.19.4
psutil 5.9.3
ptyprocess 0.7.0
pure-eval 0.2.2
py 1.11.0
pyarrow 11.0.0
pyasn1 0.4.8
pyasn1-modules 0.2.8
pycparser 2.21
pyEDFlib 0.1.30
pyensembl 2.0.1
Pygments 2.13.0
pynndescent 0.5.7
pyoncoprint 0.2.2
pyparsing 3.0.9
pyrsistent 0.18.1
pysam 0.20.0
pytest 7.1.3
pyts 0.12.0
pytz 2022.2.1
PyYAML 6.0
pyzmq 24.0.1
qtconsole 5.3.2
QtPy 2.2.1
requests 2.28.1
requests-oauthlib 1.3.1
responses 0.18.0
rfc3339-validator 0.1.4
rfc3987 1.3.8
rsa 4.9
scanpy 1.9.1
scikit-allel 1.3.5
scikit-learn 1.1.2
scikit-plot 0.3.7
scipy 1.9.0
seaborn 0.11.2
Send2Trash 1.8.0
sentry-sdk 1.15.0
serializable 0.2.1
session-info 1.0.0
setproctitle 1.3.2
shap 0.41.0
simplejson 3.17.6
sklearn 0.0
slicer 0.0.7
smmap 5.0.0
sniffio 1.3.0
soupsieve 2.3.2.post1
stack-data 0.5.1
statsmodels 0.13.5
stdlib-list 0.8.0
swagger-spec-validator 2.7.4
tabulate 0.9.0
tensorboard 2.9.1
tensorboard-data-server 0.6.1
tensorboard-plugin-wit 1.8.1
tensorflow-addons 0.17.1
tensorflow-datasets 4.7.0
tensorflow-estimator 2.9.0
tensorflow-macos 2.9.2
tensorflow-metadata 1.10.0
tensorflow-metal 0.5.1
termcolor 1.1.0
terminado 0.16.0
textwrap3 0.9.2
threadpoolctl 3.1.0
tinycss2 1.2.1
tinytimer 0.0.0
toml 0.10.2
tomli 2.0.1
toolz 0.12.0
tornado 6.2
traitlets 5.5.0
twobitreader 3.1.7
typechecks 0.1.0
typeguard 2.13.3
typing_extensions 4.3.0
umap-learn 0.5.3
unicodedata2 14.0.0
uri-template 1.2.0
urllib3 1.26.11
venn 0.1.3
wandb 0.13.10
wcwidth 0.2.5
webcolors 1.12
webencodings 0.5.1
websocket-client 1.4.1
Werkzeug 2.2.2
widgetsnbextension 4.0.3
wrapt 1.14.1
xgboost 1.6.2
xxhash 3.2.0
yarl 1.8.2
from adjusttext.
I'm not sure what to tell you, the released version is not really relying on any non-standard packages other than numpy and matplotlib...
from adjusttext.
You can try using the unreleased version from the master branch.
from adjusttext.
This behavior is caused by the following:
%matplotlib inline -> works well
%matplotlib notebook-> broken
Unfortunately, in many cases I need the notebook backend for interactivity and I can't temporarily switch the backend, because it disables all the interactivity in my existing plots. It would be great if it could be made to work with the notebook backend.
from adjusttext.
I am also seeing this.
from adjusttext.
It went away with current master.
from adjusttext.
I am assuming it works with the current version... Feel free to reopen or clarify in the PR mentioned above.
from adjusttext.
Related Issues (20)
- Add documentation link to the dedicated place HOT 1
- "New engine" changed behavior HOT 4
- Node.js 12 actions are deprecated HOT 7
- Backends to use in a multithreaded environment HOT 4
- Time Limit HOT 2
- Altering Data HOT 3
- Please be mindful of the versions HOT 10
- Example of integrating seaborn.object()
- Plotly support? HOT 1
- Feature request: Fix output (specify iteration limit instead of time) HOT 2
- Is the `bioframe` dependency necessary? HOT 3
- Just started not working one day with this error HOT 2
- Version 1.0.3 has a non declared dependency on pandas HOT 1
- force_points key word removed? HOT 2
- Labels misplaced in subplots HOT 1
- Issue with "matplotlib.axes.Axes.annotate" using the arguments "xytext" and "textcoords" HOT 5
- Poor Result when avoiding a polygonal curve HOT 6
- adjustText 1.1 doesn't work properly anymore HOT 6
- Arrows disappear when using cartopy transformation HOT 11
- query_pairs unexpected argument HOT 3
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from adjusttext.