maximelepetit
commented
8 months ago My environnement session :
# packages in environment at /home/labex-cortex/miniconda3/envs/liana-env:
#
# Name Version Build Channel
_libgcc_mutex 0.1 main
_openmp_mutex 5.1 1_gnu
aiohttp 3.8.6 pypi_0 pypi
aiosignal 1.3.1 pypi_0 pypi
alabaster 0.7.13 pyhd8ed1ab_0 conda-forge
anndata 0.9.2 pypi_0 pypi
annotated-types 0.6.0 pypi_0 pypi
asciitree 0.3.3 pypi_0 pypi
asttokens 2.4.0 pypi_0 pypi
async-timeout 4.0.3 pypi_0 pypi
attrs 23.1.0 pyh71513ae_1 conda-forge
babel 2.13.0 pyhd8ed1ab_0 conda-forge
backcall 0.2.0 pyhd3eb1b0_0 anaconda
backports-zoneinfo 0.2.1 pypi_0 pypi
bleach 6.1.0 pyhd8ed1ab_0 conda-forge
brotli-python 1.0.9 py38hfa26641_7 conda-forge
ca-certificates 2023.7.22 hbcca054_0 conda-forge
cell2cell 0.6.6 pypi_0 pypi
certifi 2023.7.22 pypi_0 pypi
cfgv 3.4.0 pypi_0 pypi
charset-normalizer 3.3.1 pyhd8ed1ab_0 conda-forge
clarabel 0.6.0 pypi_0 pypi
click 8.1.7 pypi_0 pypi
cloudpickle 3.0.0 pypi_0 pypi
colorama 0.4.6 pyhd8ed1ab_0 conda-forge
comm 0.1.2 py38h06a4308_0 anaconda
corneto 0.9.1a4 pypi_0 pypi
cvxpy 1.4.1 pypi_0 pypi
cylp 0.91.6 pypi_0 pypi
dask 2023.5.0 pypi_0 pypi
dask-image 2023.3.0 pypi_0 pypi
debugpy 1.6.7 py38h6a678d5_0 anaconda
decorator 5.1.1 pyhd3eb1b0_0 anaconda
decoupler 1.5.0 pypi_0 pypi
defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge
distlib 0.3.8 pypi_0 pypi
docrep 0.3.2 pypi_0 pypi
docutils 0.18.1 py38h06a4308_3
ecos 2.0.12 pypi_0 pypi
entrypoints 0.4 pyhd8ed1ab_0 conda-forge
et-xmlfile 1.1.0 pypi_0 pypi
executing 2.0.0 pypi_0 pypi
fasteners 0.19 pypi_0 pypi
filelock 3.13.1 pypi_0 pypi
frozenlist 1.4.0 pypi_0 pypi
fsspec 2023.10.0 pypi_0 pypi
gseapy 1.0.3 pypi_0 pypi
h5py 3.10.0 pypi_0 pypi
identify 2.5.33 pypi_0 pypi
idna 3.4 pyhd8ed1ab_0 conda-forge
igraph 0.10.8 pypi_0 pypi
imageio 2.31.6 pypi_0 pypi
imagesize 1.4.1 pyhd8ed1ab_0 conda-forge
importlib-metadata 6.8.0 pypi_0 pypi
importlib_metadata 6.0.0 hd3eb1b0_0 anaconda
importlib_resources 6.1.0 pyhd8ed1ab_0 conda-forge
inflect 7.0.0 pypi_0 pypi
ipykernel 6.25.2 pyh2140261_0 conda-forge
ipython 8.12.3 pypi_0 pypi
jedi 0.19.1 pypi_0 pypi
jinja2 2.11.3 pyhd8ed1ab_2 conda-forge
jsonschema 4.17.3 pyhd8ed1ab_0 conda-forge
jupyter_client 8.1.0 py38h06a4308_0 anaconda
jupyter_core 5.3.0 py38h06a4308_0 anaconda
kneed 0.8.5 pypi_0 pypi
lazy-loader 0.3 pypi_0 pypi
ld_impl_linux-64 2.38 h1181459_1
leidenalg 0.10.1 pypi_0 pypi
liana 1.0.3 pypi_0 pypi
libffi 3.4.4 h6a678d5_0
libgcc-ng 11.2.0 h1234567_1
libgomp 11.2.0 h1234567_1
libsodium 1.0.18 h7b6447c_0 anaconda
libstdcxx-ng 11.2.0 h1234567_1
llvmlite 0.41.1 pypi_0 pypi
locket 1.0.0 pypi_0 pypi
markupsafe 1.1.1 py38h497a2fe_3 conda-forge
matplotlib-inline 0.1.6 py38h06a4308_0 anaconda
matplotlib-scalebar 0.8.1 pypi_0 pypi
mistune 0.8.4 pyh1a96a4e_1006 conda-forge
mizani 0.9.3 pypi_0 pypi
mofax 0.3.6 pypi_0 pypi
mudata 0.2.3 pypi_0 pypi
multidict 6.0.4 pypi_0 pypi
muon 0.1.5 pypi_0 pypi
natsort 8.4.0 pypi_0 pypi
nbconvert 5.6.1 py38h32f6830_1 conda-forge
nbformat 5.9.2 pyhd8ed1ab_0 conda-forge
nbsphinx 0.9.3 pyhd8ed1ab_0 conda-forge
ncurses 6.4 h6a678d5_0
nest-asyncio 1.5.6 py38h06a4308_0 anaconda
nodeenv 1.8.0 pypi_0 pypi
nose 1.3.7 pypi_0 pypi
numba 0.58.1 pypi_0 pypi
numcodecs 0.12.1 pypi_0 pypi
numpydoc 1.5.0 pyhd8ed1ab_0 conda-forge
omnipath 1.0.7 pypi_0 pypi
openpyxl 3.1.2 pypi_0 pypi
openssl 3.0.11 h7f8727e_2 anaconda
osqp 0.6.3 pypi_0 pypi
packaging 23.1 py38h06a4308_0 anaconda
pandas 1.5.3 pypi_0 pypi
pandoc 2.19.2 ha770c72_0 conda-forge
pandocfilters 1.5.0 pyhd8ed1ab_0 conda-forge
parso 0.8.3 pyhd3eb1b0_0 anaconda
partd 1.4.1 pypi_0 pypi
patsy 0.5.3 pypi_0 pypi
pexpect 4.8.0 pyhd3eb1b0_3 anaconda
pickleshare 0.7.5 pyhd3eb1b0_1003 anaconda
pillow 10.0.1 pypi_0 pypi
pims 0.6.1 pypi_0 pypi
pip 23.3 py38h06a4308_0
pkgutil-resolve-name 1.3.10 pyhd8ed1ab_1 conda-forge
platformdirs 3.10.0 py38h06a4308_0 anaconda
plotnine 0.12.3 pypi_0 pypi
pre-commit 3.5.0 pypi_0 pypi
prompt-toolkit 3.0.39 pypi_0 pypi
prompt_toolkit 3.0.36 hd8ed1ab_0 conda-forge
protobuf 4.24.4 pypi_0 pypi
psutil 5.9.0 py38h5eee18b_0 anaconda
ptyprocess 0.7.0 pyhd3eb1b0_2 anaconda
pure_eval 0.2.2 pyhd3eb1b0_0 anaconda
pybind11 2.11.1 pypi_0 pypi
pydantic 2.4.2 pypi_0 pypi
pydantic-core 2.10.1 pypi_0 pypi
pydeseq2 0.4.1 pypi_0 pypi
pygments 2.16.1 pypi_0 pypi
pynndescent 0.5.10 pypi_0 pypi
pyrsistent 0.18.0 py38heee7806_0
pysocks 1.7.1 pyha2e5f31_6 conda-forge
python 3.8.18 h955ad1f_0
python-dateutil 2.8.2 pyhd3eb1b0_0 anaconda
python-fastjsonschema 2.18.1 pyhd8ed1ab_0 conda-forge
python_abi 3.8 2_cp38 conda-forge
pytz 2023.3.post1 pyhd8ed1ab_0 conda-forge
pywavelets 1.4.1 pypi_0 pypi
pyyaml 6.0.1 pypi_0 pypi
pyzmq 25.1.0 py38h6a678d5_0 anaconda
qdldl 0.1.7.post0 pypi_0 pypi
readline 8.2 h5eee18b_0
requests 2.31.0 pyhd8ed1ab_0 conda-forge
scanpy 1.9.5 pypi_0 pypi
scikit-image 0.21.0 pypi_0 pypi
scs 3.2.3 pypi_0 pypi
seaborn 0.11.2 pypi_0 pypi
session-info 1.0.0 pypi_0 pypi
setuptools 68.0.0 py38h06a4308_0
six 1.16.0 pyhd3eb1b0_1 anaconda
slicerator 1.1.0 pypi_0 pypi
snowballstemmer 2.2.0 pyhd8ed1ab_0 conda-forge
sphinx 5.0.2 pyh6c4a22f_0 conda-forge
sphinx_rtd_theme 1.3.0 pyha770c72_0 conda-forge
sphinxcontrib-applehelp 1.0.2 pyhd3eb1b0_0
sphinxcontrib-devhelp 1.0.2 pyhd3eb1b0_0
sphinxcontrib-htmlhelp 2.0.0 pyhd3eb1b0_0
sphinxcontrib-jquery 4.1 pyhd8ed1ab_0 conda-forge
sphinxcontrib-jsmath 1.0.1 pyhd8ed1ab_0 conda-forge
sphinxcontrib-qthelp 1.0.3 pyhd3eb1b0_0
sphinxcontrib-serializinghtml 1.1.5 pyhd3eb1b0_0
sqlite 3.41.2 h5eee18b_0
squidpy 1.2.2 pypi_0 pypi
stack-data 0.6.3 pypi_0 pypi
stack_data 0.2.0 pyhd3eb1b0_0 anaconda
statannotations 0.6.0 pypi_0 pypi
statsmodels 0.14.0 pypi_0 pypi
stdlib-list 0.9.0 pypi_0 pypi
tbb 2021.10.0 pypi_0 pypi
tensorly 0.7.0 pypi_0 pypi
testpath 0.6.0 pyhd8ed1ab_0 conda-forge
texttable 1.7.0 pypi_0 pypi
tifffile 2023.7.10 pypi_0 pypi
tk 8.6.12 h1ccaba5_0
toolz 0.12.0 pypi_0 pypi
tornado 6.3.3 py38h5eee18b_0 anaconda
tqdm 4.66.1 pypi_0 pypi
traitlets 5.7.1 py38h06a4308_0 anaconda
typing-extensions 4.8.0 pypi_0 pypi
typing_extensions 4.7.1 py38h06a4308_0 anaconda
tzdata 2023.3 pypi_0 pypi
umap-learn 0.5.4 pypi_0 pypi
urllib3 2.0.7 pyhd8ed1ab_0 conda-forge
validators 0.22.0 pypi_0 pypi
virtualenv 20.25.0 pypi_0 pypi
wcwidth 0.2.8 pypi_0 pypi
webencodings 0.5.1 pyhd8ed1ab_2 conda-forge
wheel 0.41.2 py38h06a4308_0
xarray 2023.1.0 pypi_0 pypi
xlrd 2.0.1 pypi_0 pypi
xz 5.4.2 h5eee18b_0
yarl 1.9.2 pypi_0 pypi
zarr 2.16.1 pypi_0 pypi
zeromq 4.3.4 h2531618_0 anaconda
zipp 3.17.0 pypi_0 pypi
zlib 1.2.13 h5eee18b_0 
dbdimitrov
Describe the bug Hi ! I'm currently running the Steady-state Ligand-Receptor inference vignette from (https://liana-py.readthedocs.io/en/latest/notebooks/basic_usage.html).
I noticed a bug when running the second dotplot from the Rank Aggregate section.
I obtained :
Instead of :
It should be noted that i change filter_fun parameter by filter_lambda parameter from li.pl.dotplot() function. #80
Best regards
Maxime