🐛 Bug: Exception eosbase-bentoml-0.11.0-py37 source environment does not exist

[donaldte]

Describe the bug.

Exception: eosbase-bentoml-0.11.0-py37 source environment does not exist

This bug pops up when I try to fetch any model. example: ersilia -v fetch eos4e41 > eos4e41.log

This a log file: eos4e41.log

Describe the steps to reproduce the behavior

1. got to ersilia with : cd ersilia
2. activate ersilia with: conda activate ersilia
3. fetch a model with: ersilia -v fetch eos4e41 > eos4e41.log

Expected behavior.

When I execute this last command which allows us to fetch a model after a few minutes of installing the packages, the terminal displays this:

$ conda update -n base -c defaults conda

CondaHTTPError: HTTP 000 CONNECTION FAILED for url https://repo.anaconda.com/pkgs/main/linux-64/python-3.7.13-h12debd9_0.conda Elapsed: -

An HTTP error occurred when trying to retrieve this URL. HTTP errors are often intermittent, and a simple retry will get you on your way.

Could not find conda environment: eosbase-bentoml-0.11.0-py37 You can list all discoverable environments with conda info --envs.

13:23:06 | INFO | Cloning base conda environment and adding model dependencies Traceback (most recent call last): File "/home/ing/anaconda3/envs/ersilia/bin/ersilia", line 33, in sys.exit(load_entry_point('ersilia', 'console_scripts', 'ersilia')()) File "/home/ing/anaconda3/envs/ersilia/lib/python3.7/site-packages/click/core.py", line 1130, in call return self.main(args, kwargs) File "/home/ing/anaconda3/envs/ersilia/lib/python3.7/site-packages/click/core.py", line 1055, in main rv = self.invoke(ctx) File "/home/ing/anaconda3/envs/ersilia/lib/python3.7/site-packages/click/core.py", line 1657, in invoke return _process_result(sub_ctx.command.invoke(sub_ctx)) File "/home/ing/anaconda3/envs/ersilia/lib/python3.7/site-packages/click/core.py", line 1404, in invoke return ctx.invoke(self.callback, ctx.params) File "/home/ing/anaconda3/envs/ersilia/lib/python3.7/site-packages/click/core.py", line 760, in invoke return __callback(args, kwargs) File "/home/ing/anaconda3/envs/ersilia/lib/python3.7/site-packages/bentoml/cli/click_utils.py", line 138, in wrapper return func(*args, *kwargs) File "/home/ing/anaconda3/envs/ersilia/lib/python3.7/site-packages/bentoml/cli/click_utils.py", line 115, in wrapper return_value = func(args, kwargs) File "/home/ing/anaconda3/envs/ersilia/lib/python3.7/site-packages/bentoml/cli/click_utils.py", line 99, in wrapper return func(*args, **kwargs) File "/home/ing/wprojects/ersilia/ersilia/cli/commands/fetch.py", line 33, in fetch _fetch(mf, model_id) File "/home/ing/wprojects/ersilia/ersilia/cli/commands/fetch.py", line 12, in _fetch mf.fetch(model_id) File "/home/ing/wprojects/ersilia/ersilia/hub/fetch/fetch.py", line 98, in fetch self._pack() File "/home/ing/wprojects/ersilia/ersilia/hub/fetch/fetch.py", line 69, in _pack mp.pack() File "/home/ing/wprojects/ersilia/ersilia/hub/fetch/actions/pack.py", line 63, in pack self._run() File "/home/ing/wprojects/ersilia/ersilia/hub/fetch/actions/pack.py", line 58, in _run runner.run() File "/home/ing/wprojects/ersilia/ersilia/hub/fetch/pack/runners.py", line 141, in run self._run() File "/home/ing/wprojects/ersilia/ersilia/hub/fetch/pack/runners.py", line 123, in _run env = self._setup() File "/home/ing/wprojects/ersilia/ersilia/hub/fetch/pack/runners.py", line 105, in _setup self.conda.clone(base_env, env) File "/home/ing/wprojects/ersilia/ersilia/utils/conda.py", line 335, in clone raise Exception("{0} source environment does not exist".format(src_env)) Exception: eosbase-bentoml-0.11.0-py37 source environment does not exist

Screenshots.

ubuntu 22.04 LTS

Operating environment

Ubuntu 22.04 LTS

Additional context

No response

[GemmaTuron]

Seems like there is a problem with your conda installation, can you run conda env list and paste the output here? (it will show all the envs available to you)

[donaldte]

@GemmaTuron After run conda env list This is the output

[GemmaTuron]

Thanks, you see how you don't have the eosbase environment listed there? This should have been created during ersilia's installation...

• Update pip
• Delete ersilia's conda environment and create it again (make sure its python=3.7)
• Pull latest changes from ersilia's git repository (I don't see where you are clonning the Git Repo, but I assume you have the latest version clonned?)
• and pip install ersilia again

[donaldte]

Ah okay I see Thanks so much @GemmaTuron

[GemmaTuron]

Hello @donaldte

Have you been able to make progress?

Thanks!

[GemmaTuron]

I'll close this issue due to inactivity