Welcome to scGPT Discussions!

[subercui]

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[Kuang1993]

can not install scgpt using !pip install scGPT on colab, is that common problem?

[OtisAtHu]

Hi,

This is a really exciting project and I want to play around with it.

When I try to install the scGPT on AWS EC2 using the pip install scgpt after some time I get the below error which I think says I don't have torch installed. Do I need to install that before? When I try to do that I always run out of space.

Thanks for your help,

Otis

ERROR: Command errored out with exit status 1:
command: /usr/bin/python3 /usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py get_requires_for_build_wheel /tmp/tmpks7accxn
cwd: /tmp/pip-install-c6xgwto5/flash-attn
Complete output (15 lines):
Traceback (most recent call last):
File "/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py", line 280, in
main()
File "/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py", line 263, in main
json_out['return_val'] = hook(**hook_input['kwargs'])
File "/usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py", line 114, in get_requires_for_build_wheel
return hook(config_settings)
File "/tmp/pip-build-env-epq_kqn7/overlay/lib/python3.7/site-packages/setuptools/build_meta.py", line 341, in get_requires_for_build_wheel
return self._get_build_requires(config_settings, requirements=['wheel'])
File "/tmp/pip-build-env-epq_kqn7/overlay/lib/python3.7/site-packages/setuptools/build_meta.py", line 323, in _get_build_requires
self.run_setup()
File "/tmp/pip-build-env-epq_kqn7/overlay/lib/python3.7/site-packages/setuptools/build_meta.py", line 338, in run_setup
exec(code, locals())
File "", line 13, in
ModuleNotFoundError: No module named 'torch'

ERROR: Command errored out with exit status 1: /usr/bin/python3 /usr/lib/python3.7/site-packages/pip/_vendor/pep517/_in_process.py get_requires_for_build_wheel /tmp/tmpks7accxn Check the logs for full command output.

[leo13692]

Hello! Recently came across this and intrigued by its possibilities! I saw that notebooks with examples are being released soon- any update on that?