[BUG] Computational tasks fail with "werkzeug: bad request" error

[lcdorman]

Describe the bug When I use excellxgene on a server, the computational tasks will not run (reembedding, differential expression). On the terminal log I see a lot of errors such as ERROR:werkzeug:192.168.105.26 - - [29/Aug/2022 21:19:11] code 400, message Bad request version ('server\x00\x17\x00\x00ÿ\x01\x00\x01\x00\x00'). The computation never completes.

To Reproduce I ran excellxgene launch /path/to/file/ --host=0.0.0.0 Packages installed: Name Version Build Channel _libgcc_mutex 0.1 conda_forge conda-forge _openmp_mutex 4.5 2_gnu conda-forge aniso8601 9.0.1 pypi_0 pypi anndata 0.7.8 pypi_0 pypi annoy 1.17.1 pypi_0 pypi argon2-cffi 21.3.0 pypi_0 pypi argon2-cffi-bindings 21.2.0 pypi_0 pypi asttokens 2.0.8 pypi_0 pypi attrs 22.1.0 pypi_0 pypi authlib 1.0.1 pypi_0 pypi backcall 0.2.0 pypi_0 pypi bbknn 1.5.1 pypi_0 pypi bleach 5.0.1 pypi_0 pypi boto3 1.24.55 pypi_0 pypi botocore 1.27.55 pypi_0 pypi brotli 1.0.9 pypi_0 pypi bzip2 1.0.8 h7f98852_4 conda-forge ca-certificates 2022.6.15 ha878542_0 conda-forge certifi 2022.6.15 pypi_0 pypi cffi 1.15.1 pypi_0 pypi charset-normalizer 2.0.12 pypi_0 pypi click 8.1.3 pypi_0 pypi cryptography 37.0.4 pypi_0 pypi cython 0.29.32 pypi_0 pypi debugpy 1.6.3 pypi_0 pypi decorator 5.1.1 pypi_0 pypi defusedxml 0.7.1 pypi_0 pypi deprecated 1.2.13 pypi_0 pypi dill 0.3.5.1 pypi_0 pypi entrypoints 0.4 pypi_0 pypi excellxgene 2.9.4 pypi_0 pypi executing 0.10.0 pypi_0 pypi fbpca 1.0 pypi_0 pypi filelock 3.8.0 pypi_0 pypi flask 2.2.2 pypi_0 pypi flask-compress 1.12 pypi_0 pypi flask-cors 3.0.10 pypi_0 pypi flask-restful 0.3.9 pypi_0 pypi flask-server-timing 0.1.2 pypi_0 pypi flask-sock 0.5.2 pypi_0 pypi flask-talisman 1.0.0 pypi_0 pypi flatbuffers 1.12 pypi_0 pypi flatten-dict 0.4.2 pypi_0 pypi geosketch 1.2 pypi_0 pypi grpcio 1.43.0 pypi_0 pypi gunicorn 20.1.0 pypi_0 pypi h11 0.13.0 pypi_0 pypi h5py 2.10.0 pypi_0 pypi harmonypy 0.0.6 pypi_0 pypi hnswlib 0.5.2 pypi_0 pypi idna 3.3 pypi_0 pypi igraph 0.9.11 pypi_0 pypi intervaltree 3.1.0 pypi_0 pypi ipykernel 6.15.1 pypi_0 pypi ipython 8.4.0 pypi_0 pypi ipython-genutils 0.2.0 pypi_0 pypi ipywidgets 8.0.1 pypi_0 pypi itsdangerous 2.1.2 pypi_0 pypi jedi 0.18.1 pypi_0 pypi jinja2 3.1.2 pypi_0 pypi jmespath 1.0.1 pypi_0 pypi jsonschema 4.12.1 pypi_0 pypi jupyter-client 7.3.4 pypi_0 pypi jupyter-core 4.11.1 pypi_0 pypi jupyterlab-pygments 0.2.2 pypi_0 pypi jupyterlab-widgets 3.0.1 pypi_0 pypi ld_impl_linux-64 2.36.1 hea4e1c9_2 conda-forge leidenalg 0.8.10 pypi_0 pypi libffi 3.4.2 h7f98852_5 conda-forge libgcc-ng 12.1.0 h8d9b700_16 conda-forge libgomp 12.1.0 h8d9b700_16 conda-forge libnsl 2.0.0 h7f98852_0 conda-forge libsqlite 3.39.2 h753d276_1 conda-forge libuuid 2.32.1 h7f98852_1000 conda-forge libzlib 1.2.12 h166bdaf_2 conda-forge llvmlite 0.35.0 pypi_0 pypi markupsafe 2.1.1 pypi_0 pypi matplotlib-inline 0.1.6 pypi_0 pypi mistune 2.0.4 pypi_0 pypi nbclient 0.6.7 pypi_0 pypi nbconvert 7.0.0 pypi_0 pypi nbformat 5.4.0 pypi_0 pypi ncurses 6.3 h27087fc_1 conda-forge nest-asyncio 1.5.5 pypi_0 pypi notebook 6.4.12 pypi_0 pypi numba 0.52.0 pypi_0 pypi numexpr 2.8.3 pypi_0 pypi numpy 1.21.5 pypi_0 pypi openssl 3.0.5 h166bdaf_1 conda-forge packaging 21.3 pypi_0 pypi pandocfilters 1.5.0 pypi_0 pypi parso 0.8.3 pypi_0 pypi pexpect 4.8.0 pypi_0 pypi pickleshare 0.7.5 pypi_0 pypi pillow 8.4.0 pypi_0 pypi pip 22.2.2 pyhd8ed1ab_0 conda-forge pkgutil-resolve-name 1.3.10 pypi_0 pypi prometheus-client 0.14.1 pypi_0 pypi prompt-toolkit 3.0.30 pypi_0 pypi protobuf 3.19.4 pypi_0 pypi psutil 5.9.0 pypi_0 pypi ptyprocess 0.7.0 pypi_0 pypi pure-eval 0.2.2 pypi_0 pypi pycparser 2.21 pypi_0 pypi pygments 2.13.0 pypi_0 pypi pyjwt 2.4.0 pypi_0 pypi pyparsing 3.0.9 pypi_0 pypi pyrsistent 0.18.1 pypi_0 pypi python 3.8.13 ha86cf86_0_cpython conda-forge python-dotenv 0.20.0 pypi_0 pypi python-igraph 0.9.11 pypi_0 pypi python_abi 3.8 2_cp38 conda-forge pyzmq 23.2.1 pypi_0 pypi ray 1.11.0 pypi_0 pypi readline 8.1.2 h0f457ee_0 conda-forge redis 4.3.4 pypi_0 pypi requests 2.26.0 pypi_0 pypi s3fs 0.4.2 pypi_0 pypi s3transfer 0.6.0 pypi_0 pypi sam-algorithm 1.0.0 pypi_0 pypi scanorama 1.7.2 pypi_0 pypi scanpy 1.8.2 pypi_0 pypi scikit-learn 1.0.1 pypi_0 pypi send2trash 1.8.0 pypi_0 pypi setuptools 65.0.2 py38h578d9bd_0 conda-forge simple-websocket 0.8.0 pypi_0 pypi sinfo 0.3.4 pypi_0 pypi six 1.16.0 pypi_0 pypi sortedcontainers 2.4.0 pypi_0 pypi sqlite 3.39.2 h4ff8645_1 conda-forge stack-data 0.4.0 pypi_0 pypi tables 3.6.1 pypi_0 pypi terminado 0.15.0 pypi_0 pypi texttable 1.6.4 pypi_0 pypi tk 8.6.12 h27826a3_0 conda-forge tornado 6.2 pypi_0 pypi traitlets 5.3.0 pypi_0 pypi typing-extensions 4.3.0 pypi_0 pypi urllib3 1.26.11 pypi_0 pypi wcwidth 0.2.5 pypi_0 pypi webencodings 0.5.1 pypi_0 pypi wheel 0.37.1 pyhd8ed1ab_0 conda-forge widgetsnbextension 4.0.1 pypi_0 pypi wrapt 1.14.1 pypi_0 pypi wsproto 1.1.0 pypi_0 pypi xlrd 1.2.0 pypi_0 pypi xz 5.2.6 h166bdaf_0 conda-forge zipp 3.8.1 pypi_0 pypi

Expected behavior Differential expression calculation in < 10 minutes for ~300 vs 800 cells.

Screenshots

Version (please complete the following information):

• hosted on a server (--host tag)
• Chrome
• Version: 2.9.4

Additional context Others can run this program on the same server. Their installations were earlier so I believe it may be an issue either with the most recent version or a dependency break in some newly updated package.

[lcdorman]

This is a problem with 2.9.4; version 2.9.2 works fine.

[yangjun9095]

Closing this issue as we have version 2.9.2 as the main version now.