pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
Other
58
stars
12
forks
source link
plot_metadata: X11 connection rejected because of wrong authentication / Cannot load backend 'TkAgg' which requires the 'tk' interactive framework, as 'headless' is currently running #170
import tkinter as tk
import matplotlib
i = 0
while i < 10:
i += 1
try:
matplotlib.use('TkAgg')
break
except:
print(i)
from pycisTopic.clust_vis import (
find_clusters,
run_umap,
run_tsne,
plot_metadata,
plot_topic,
cell_topic_heatmap
)
plot_metadata(
cistopic_obj1_models,
reduction_name='UMAP',
variables='predicted.id.from.act',
target='cell',
text_size=10,
dot_size=5)
X11 connection rejected because of wrong authentication.
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/root/conda/envs/scenicplus/lib/python3.11/site-packages/pycisTopic/clust_vis.py", line 451, in plot_metadata
fig = plt.figure(figsize=figsize)
^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/root/conda/envs/scenicplus/lib/python3.11/site-packages/matplotlib/_api/deprecation.py", line 454, in wrapper
return func(*args, **kwargs)
^^^^^^^^^^^^^^^^^^^^^
File "/root/conda/envs/scenicplus/lib/python3.11/site-packages/matplotlib/pyplot.py", line 783, in figure
manager = new_figure_manager(
^^^^^^^^^^^^^^^^^^^
File "/root/conda/envs/scenicplus/lib/python3.11/site-packages/matplotlib/pyplot.py", line 358, in new_figure_manager
_warn_if_gui_out_of_main_thread()
File "/root/conda/envs/scenicplus/lib/python3.11/site-packages/matplotlib/pyplot.py", line 336, in _warn_if_gui_out_of_main_thread
if _get_required_interactive_framework(_get_backend_mod()):
^^^^^^^^^^^^^^^^^^
File "/root/conda/envs/scenicplus/lib/python3.11/site-packages/matplotlib/pyplot.py", line 207, in _get_backend_mod
switch_backend(dict.__getitem__(rcParams, "backend"))
File "/root/conda/envs/scenicplus/lib/python3.11/site-packages/matplotlib/pyplot.py", line 273, in switch_backend
raise ImportError(
ImportError: Cannot load backend 'TkAgg' which requires the 'tk' interactive framework, as 'headless' is currently running
I'm getting an error with
plot_metadata