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🐛 Bug: Error fetching eos78ao #1534

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arnaucoma24 opened this issue Feb 4, 2025 · 2 comments
Closed

🐛 Bug: Error fetching eos78ao #1534

arnaucoma24 opened this issue Feb 4, 2025 · 2 comments
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@arnaucoma24
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arnaucoma24 commented Feb 4, 2025 •
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Describe the bug.

Hi all!

I'm finding this error when fetching eos78ao from github (see below). This appears to be model and github-specific, since I'm not encountering it when fetching other models or when fetching eos78ao from s3. Do you have any idea on what may be going on?

ersilia, version 0.1.41
python 3.10
The log file /home/acomajuncosa/eos/current.log is empty.

Thank you very much for your help and sorry for the large number of issues I'm creating these past days :)


(ersilia) acomajuncosa@dante:/aloy/home/acomajuncosa/Ersilia/zairachem-docker$ ersilia -v fetch eos78ao --from_github
14:07:21 | DEBUG    | Trying to get metadata from: /home/acomajuncosa/eos/dest/eos78ao
⬇️  Fetching model eos78ao: mordred
14:07:21 | DEBUG    | Initialized with URL: None
14:07:21 | DEBUG    | Getting model source
14:07:21 | DEBUG    | Model getting fetched from GitHub
14:07:21 | INFO     | Model doesn't exist on your system, fetching it now.
14:07:21 | DEBUG    | Starting fetching procedure
14:07:21 | DEBUG    | Fetching in your system, not from DockerHub
14:07:21 | DEBUG    | Deciding fetcher (BentoML or FastAPI)
14:07:22 | DEBUG    | Fetching using BentoML
14:07:22 | DEBUG    | Checking if the model is installable with BentoML
14:07:23 | DEBUG    | Starting fetching procedure
14:07:23 | INFO     | GitHub CLI is not installed. Ersilia can work without it, but we highly recommend that you install this tool.
14:07:23 | DEBUG    | Git LFS is installed
Updated git hooks.
Git LFS initialized.
14:07:23 | DEBUG    | Git LFS has been activated
14:07:23 | DEBUG    | Connected to the internet
14:07:23 | DEBUG    | Conda is installed
14:07:23 | DEBUG    | EOS Home path exists
14:07:23 | INFO     | Starting delete of model eos78ao
14:07:23 | INFO     | Removing EOS folder /home/acomajuncosa/eos/dest/eos78ao
14:07:23 | DEBUG    | Attempting Bento delete
14:07:25 | INFO     | Deleting conda environment eos78ao
14:07:26 | DEBUG    | Attempting temporary folder delete
14:07:26 | DEBUG    | Attempting lake delete (local)
14:07:26 | DEBUG    | Deleting /home/acomajuncosa/eos/isaura/lake/eos78ao_local.h5
14:07:26 | DEBUG    | Attempting lake delete (public)
14:07:26 | DEBUG    | Deleting /home/acomajuncosa/eos/isaura/lake/eos78ao_public.h5
14:07:26 | INFO     | Removing docker images and stopping containers related to eos78ao
14:07:26 | DEBUG    | Model entry eos78ao was not available in the fetched models registry
14:07:26 | SUCCESS  | Model eos78ao deleted successfully
14:07:26 | DEBUG    | Getting repository
Cloning into 'eos78ao'...
remote: Enumerating objects: 150, done.
remote: Counting objects: 100% (44/44), done.
remote: Compressing objects: 100% (30/30), done.
remote: Total 150 (delta 15), reused 29 (delta 9), pack-reused 106 (from 1)
Receiving objects: 100% (150/150), 116.78 KiB | 972.00 KiB/s, done.
Resolving deltas: 100% (54/54), done.
rm: cannot remove '/tmp/ersilia-lvyatw7o': Is a directory
14:07:27 | INFO     | 🚀 Model starting...
14:07:27 | DEBUG    | Preparing inner template if necessary
14:07:27 | DEBUG    | The pack.py file already exists
14:07:27 | DEBUG    | The Dockerfile file already exists
14:07:27 | DEBUG    | The src folder already exists
14:07:27 | DEBUG    | Changing python version if necessary
14:07:27 | DEBUG    | {'version': '0.11.0', 'slim': False, 'python': 'py38'}
14:07:27 | DEBUG    | User is not root
14:07:27 | DEBUG    | Copying example file if available
14:07:27 | DEBUG    | Example file exists
14:07:27 | DEBUG    | Getting model parameters
14:07:27 | DEBUG    | Done getting model
14:07:27 | DEBUG    | Check if model can be run with vanilla (system) code (i.e. dockerfile has no installs)
14:07:27 | DEBUG    | Check bentoml and python version
14:07:27 | INFO     | BentoML version {'version': '0.11.0', 'slim': False, 'python': 'py38'}
14:07:27 | DEBUG    | Custom Ersilia BentoML is used, no need for modifying protobuf version
14:07:27 | DEBUG    | Model needs some installs
14:07:27 | DEBUG    | Checking if only python/conda install will be sufficient
14:07:27 | DEBUG    | Mode: conda
14:07:27 | DEBUG    | Trying to remove path: /home/acomajuncosa/bentoml/repository/eos78ao
14:07:27 | DEBUG    | ...successfully
14:07:27 | DEBUG    | ...but path did not exist!
14:07:27 | DEBUG    | Initializing conda packer
14:07:27 | DEBUG    | Packing model with Conda
14:07:27 | DEBUG    | Writing install commands
14:07:27 | DEBUG    | Run commands: ['pip install mordredcommunity==2.0.6', 'pip install networkx==3.2.1', 'pip install numpy==1.26.4', 'pip install pandas==1.3.5', 'pip install rdkit==2023.3.2', 'pip install timeout-decorator==0.5.0']
14:07:27 | DEBUG    | Writing install commands in /home/acomajuncosa/eos/dest/eos78ao/model_install_commands.sh
14:07:27 | DEBUG    | Setting up
14:07:27 | DEBUG    | Installs file /home/acomajuncosa/eos/dest/eos78ao/model_install_commands.sh
14:07:27 | DEBUG    | Conda environment eos78ao
14:07:27 | DEBUG    | Environment eos78ao does not exist
14:07:28 | INFO     | Cloning base conda environment and adding model dependencies
Source:      /home/acomajuncosa/programs/anaconda3/envs/eosbase-bentoml-0.11.0-py38
Destination: /home/acomajuncosa/programs/anaconda3/envs/eos78ao
Packages: 27
Files: 6195
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
#
# To activate this environment, use
#
#     $ conda activate eos78ao
#
# To deactivate an active environment, use
#
#     $ conda deactivate

14:07:41 | DEBUG    | Run commandlines on eos78ao
14:07:41 | DEBUG    | python -m pip --disable-pip-version-check install mordredcommunity==2.0.6
python -m pip --disable-pip-version-check install networkx==3.2.1
python -m pip --disable-pip-version-check install numpy==1.26.4
python -m pip --disable-pip-version-check install pandas==1.3.5
python -m pip --disable-pip-version-check install rdkit==2023.3.2
python -m pip --disable-pip-version-check install timeout-decorator==0.5.0
python -m pip --disable-pip-version-check install git+https://github.com/ersilia-os/bentoml-ersilia.git

14:07:41 | DEBUG    | Activating base environment
14:07:41 | DEBUG    | Current working directory: /home/acomajuncosa/eos/dest/eos78ao
14:07:41 | DEBUG    | Running bash /tmp/ersilia-6o4os94z/script.sh 2>&1 | tee -a /tmp/ersilia-3nqyha2q/command_outputs.log
Collecting mordredcommunity==2.0.6
  Using cached mordredcommunity-2.0.6-py3-none-any.whl.metadata (6.2 kB)
Collecting rdkit (from mordredcommunity==2.0.6)
  Using cached rdkit-2024.3.5-cp38-cp38-manylinux_2_28_x86_64.whl.metadata (3.9 kB)
Requirement already satisfied: six in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from mordredcommunity==2.0.6) (1.17.0)
Requirement already satisfied: numpy in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from mordredcommunity==2.0.6) (1.24.4)
Collecting networkx (from mordredcommunity==2.0.6)
  Using cached networkx-3.1-py3-none-any.whl.metadata (5.3 kB)
Requirement already satisfied: packaging in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from mordredcommunity==2.0.6) (24.2)
Collecting Pillow (from rdkit->mordredcommunity==2.0.6)
  Using cached pillow-10.4.0-cp38-cp38-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
Using cached mordredcommunity-2.0.6-py3-none-any.whl (175 kB)
Using cached networkx-3.1-py3-none-any.whl (2.1 MB)
Using cached rdkit-2024.3.5-cp38-cp38-manylinux_2_28_x86_64.whl (33.1 MB)
Using cached pillow-10.4.0-cp38-cp38-manylinux_2_28_x86_64.whl (4.5 MB)
Installing collected packages: Pillow, networkx, rdkit, mordredcommunity
Successfully installed Pillow-10.4.0 mordredcommunity-2.0.6 networkx-3.1 rdkit-2024.3.5
ERROR: Ignored the following yanked versions: 2.6, 2.6.1
ERROR: Ignored the following versions that require a different python version: 3.2 Requires-Python >=3.9; 3.2.1 Requires-Python >=3.9; 3.2rc0 Requires-Python >=3.9; 3.3 Requires-Python >=3.10; 3.3rc0 Requires-Python >=3.10; 3.4 Requires-Python >=3.10; 3.4.1 Requires-Python >=3.10; 3.4.2 Requires-Python >=3.10; 3.4rc0 Requires-Python >=3.10
ERROR: Could not find a version that satisfies the requirement networkx==3.2.1 (from versions: 0.34, 0.35, 0.35.1, 0.36, 0.37, 0.99, 1.0rc1, 1.0, 1.0.1, 1.1, 1.2rc1, 1.2, 1.3rc1, 1.3, 1.4rc1, 1.4, 1.5rc1, 1.5, 1.6rc1, 1.6, 1.7rc1, 1.7, 1.8rc1, 1.8, 1.8.1, 1.9rc1, 1.9, 1.9.1, 1.10rc2, 1.10, 1.11rc1, 1.11rc2, 1.11, 2.0, 2.1, 2.2rc1, 2.2, 2.3rc3, 2.3rc4, 2.3, 2.4rc1, 2.4rc2, 2.4, 2.5rc1, 2.5, 2.5.1, 2.6rc1, 2.6rc2, 2.6.2, 2.6.3, 2.7rc1, 2.7, 2.7.1, 2.8rc1, 2.8, 2.8.1rc1, 2.8.1, 2.8.2, 2.8.3, 2.8.4, 2.8.5, 2.8.6, 2.8.7, 2.8.8, 3.0b1, 3.0rc1, 3.0, 3.1rc0, 3.1)
ERROR: No matching distribution found for networkx==3.2.1
ERROR: Ignored the following versions that require a different python version: 1.25.0 Requires-Python >=3.9; 1.25.1 Requires-Python >=3.9; 1.25.2 Requires-Python >=3.9; 1.26.0 Requires-Python <3.13,>=3.9; 1.26.1 Requires-Python <3.13,>=3.9; 1.26.2 Requires-Python >=3.9; 1.26.3 Requires-Python >=3.9; 1.26.4 Requires-Python >=3.9; 2.0.0 Requires-Python >=3.9; 2.0.1 Requires-Python >=3.9; 2.0.2 Requires-Python >=3.9; 2.1.0 Requires-Python >=3.10; 2.1.0rc1 Requires-Python >=3.10; 2.1.1 Requires-Python >=3.10; 2.1.2 Requires-Python >=3.10; 2.1.3 Requires-Python >=3.10; 2.2.0 Requires-Python >=3.10; 2.2.0rc1 Requires-Python >=3.10; 2.2.1 Requires-Python >=3.10; 2.2.2 Requires-Python >=3.10
ERROR: Could not find a version that satisfies the requirement numpy==1.26.4 (from versions: 1.3.0, 1.4.1, 1.5.0, 1.5.1, 1.6.0, 1.6.1, 1.6.2, 1.7.0, 1.7.1, 1.7.2, 1.8.0, 1.8.1, 1.8.2, 1.9.0, 1.9.1, 1.9.2, 1.9.3, 1.10.0.post2, 1.10.1, 1.10.2, 1.10.4, 1.11.0, 1.11.1, 1.11.2, 1.11.3, 1.12.0, 1.12.1, 1.13.0, 1.13.1, 1.13.3, 1.14.0, 1.14.1, 1.14.2, 1.14.3, 1.14.4, 1.14.5, 1.14.6, 1.15.0, 1.15.1, 1.15.2, 1.15.3, 1.15.4, 1.16.0, 1.16.1, 1.16.2, 1.16.3, 1.16.4, 1.16.5, 1.16.6, 1.17.0, 1.17.1, 1.17.2, 1.17.3, 1.17.4, 1.17.5, 1.18.0, 1.18.1, 1.18.2, 1.18.3, 1.18.4, 1.18.5, 1.19.0, 1.19.1, 1.19.2, 1.19.3, 1.19.4, 1.19.5, 1.20.0, 1.20.1, 1.20.2, 1.20.3, 1.21.0, 1.21.1, 1.21.2, 1.21.3, 1.21.4, 1.21.5, 1.21.6, 1.22.0, 1.22.1, 1.22.2, 1.22.3, 1.22.4, 1.23.0, 1.23.1, 1.23.2, 1.23.3, 1.23.4, 1.23.5, 1.24.0, 1.24.1, 1.24.2, 1.24.3, 1.24.4)
ERROR: No matching distribution found for numpy==1.26.4
Collecting pandas==1.3.5
  Using cached pandas-1.3.5-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (12 kB)
Requirement already satisfied: python-dateutil>=2.7.3 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from pandas==1.3.5) (2.9.0.post0)
Collecting pytz>=2017.3 (from pandas==1.3.5)
  Using cached pytz-2025.1-py2.py3-none-any.whl.metadata (22 kB)
Requirement already satisfied: numpy>=1.17.3 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from pandas==1.3.5) (1.24.4)
Requirement already satisfied: six>=1.5 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from python-dateutil>=2.7.3->pandas==1.3.5) (1.17.0)
Using cached pandas-1.3.5-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (11.5 MB)
Using cached pytz-2025.1-py2.py3-none-any.whl (507 kB)
Installing collected packages: pytz, pandas
Successfully installed pandas-1.3.5 pytz-2025.1
Collecting rdkit==2023.3.2
  Using cached rdkit-2023.3.2-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.9 kB)
Requirement already satisfied: numpy in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from rdkit==2023.3.2) (1.24.4)
Requirement already satisfied: Pillow in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from rdkit==2023.3.2) (10.4.0)
Using cached rdkit-2023.3.2-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (29.7 MB)
Installing collected packages: rdkit
  Attempting uninstall: rdkit
    Found existing installation: rdkit 2024.3.5
    Uninstalling rdkit-2024.3.5:
      Successfully uninstalled rdkit-2024.3.5
Successfully installed rdkit-2023.3.2
Collecting timeout-decorator==0.5.0
  Using cached timeout_decorator-0.5.0-py3-none-any.whl
Installing collected packages: timeout-decorator
Successfully installed timeout-decorator-0.5.0
Collecting git+https://github.com/ersilia-os/bentoml-ersilia.git
  Cloning https://github.com/ersilia-os/bentoml-ersilia.git to /tmp/pip-req-build-z6otkrp8
  Running command git clone --filter=blob:none --quiet https://github.com/ersilia-os/bentoml-ersilia.git /tmp/pip-req-build-z6otkrp8
  Resolved https://github.com/ersilia-os/bentoml-ersilia.git to commit d9d9f342294da3f1a69c9e81adb17f77bc010aac
  Installing build dependencies: started
  Installing build dependencies: finished with status 'done'
  Getting requirements to build wheel: started
  Getting requirements to build wheel: finished with status 'done'
  Preparing metadata (pyproject.toml): started
  Preparing metadata (pyproject.toml): finished with status 'done'
Requirement already satisfied: docker in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (7.1.0)
Requirement already satisfied: alembic in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (1.14.1)
Requirement already satisfied: packaging in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (24.2)
Requirement already satisfied: boto3 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (1.36.11)
Requirement already satisfied: psutil in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (6.1.1)
Requirement already satisfied: cerberus in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (1.3.7)
Requirement already satisfied: sqlalchemy in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (2.0.37)
Requirement already satisfied: sqlalchemy-utils in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (0.41.2)
Requirement already satisfied: tabulate in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (0.9.0)
Requirement already satisfied: humanfriendly in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (10.0)
Requirement already satisfied: flask in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (3.0.3)
Requirement already satisfied: chardet in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (5.2.0)
Requirement already satisfied: numpy in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (1.24.4)
Requirement already satisfied: multidict in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (6.1.0)
Requirement already satisfied: requests in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (2.32.3)
Requirement already satisfied: python-json-logger in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (3.2.1)
Requirement already satisfied: ruamel.yaml in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (0.18.10)
Requirement already satisfied: werkzeug in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (3.0.6)
Requirement already satisfied: protobuf<3.19,>=3.8.0 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (3.18.3)
Requirement already satisfied: prometheus-client in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (0.21.1)
Requirement already satisfied: Mako in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from alembic->bentoml==0.11.0) (1.3.8)
Requirement already satisfied: importlib-metadata in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from alembic->bentoml==0.11.0) (8.5.0)
Requirement already satisfied: importlib-resources in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from alembic->bentoml==0.11.0) (6.4.5)
Requirement already satisfied: typing-extensions>=4 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from alembic->bentoml==0.11.0) (4.12.2)
Requirement already satisfied: greenlet!=0.4.17 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from sqlalchemy->bentoml==0.11.0) (3.1.1)
Requirement already satisfied: botocore<1.37.0,>=1.36.11 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from boto3->bentoml==0.11.0) (1.36.11)
Requirement already satisfied: jmespath<2.0.0,>=0.7.1 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from boto3->bentoml==0.11.0) (1.0.1)
Requirement already satisfied: s3transfer<0.12.0,>=0.11.0 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from boto3->bentoml==0.11.0) (0.11.2)
Requirement already satisfied: urllib3>=1.26.0 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from docker->bentoml==0.11.0) (1.26.20)
Requirement already satisfied: charset-normalizer<4,>=2 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from requests->bentoml==0.11.0) (3.4.1)
Requirement already satisfied: idna<4,>=2.5 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from requests->bentoml==0.11.0) (3.10)
Requirement already satisfied: certifi>=2017.4.17 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from requests->bentoml==0.11.0) (2025.1.31)
Requirement already satisfied: Jinja2>=3.1.2 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from flask->bentoml==0.11.0) (3.1.5)
Requirement already satisfied: itsdangerous>=2.1.2 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from flask->bentoml==0.11.0) (2.2.0)
Requirement already satisfied: click>=8.1.3 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from flask->bentoml==0.11.0) (8.1.8)
Requirement already satisfied: blinker>=1.6.2 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from flask->bentoml==0.11.0) (1.8.2)
Requirement already satisfied: MarkupSafe>=2.1.1 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from werkzeug->bentoml==0.11.0) (2.1.5)
Requirement already satisfied: ruamel.yaml.clib>=0.2.7 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from ruamel.yaml->bentoml==0.11.0) (0.2.8)
Requirement already satisfied: python-dateutil<3.0.0,>=2.1 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from botocore<1.37.0,>=1.36.11->boto3->bentoml==0.11.0) (2.9.0.post0)
Requirement already satisfied: zipp>=3.20 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from importlib-metadata->alembic->bentoml==0.11.0) (3.20.2)
Requirement already satisfied: six>=1.5 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from python-dateutil<3.0.0,>=2.1->botocore<1.37.0,>=1.36.11->boto3->bentoml==0.11.0) (1.17.0)
14:07:56 | DEBUG    | Collecting mordredcommunity==2.0.6
  Using cached mordredcommunity-2.0.6-py3-none-any.whl.metadata (6.2 kB)
Collecting rdkit (from mordredcommunity==2.0.6)
  Using cached rdkit-2024.3.5-cp38-cp38-manylinux_2_28_x86_64.whl.metadata (3.9 kB)
Requirement already satisfied: six in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from mordredcommunity==2.0.6) (1.17.0)
Requirement already satisfied: numpy in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from mordredcommunity==2.0.6) (1.24.4)
Collecting networkx (from mordredcommunity==2.0.6)
  Using cached networkx-3.1-py3-none-any.whl.metadata (5.3 kB)
Requirement already satisfied: packaging in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from mordredcommunity==2.0.6) (24.2)
Collecting Pillow (from rdkit->mordredcommunity==2.0.6)
  Using cached pillow-10.4.0-cp38-cp38-manylinux_2_28_x86_64.whl.metadata (9.2 kB)
Using cached mordredcommunity-2.0.6-py3-none-any.whl (175 kB)
Using cached networkx-3.1-py3-none-any.whl (2.1 MB)
Using cached rdkit-2024.3.5-cp38-cp38-manylinux_2_28_x86_64.whl (33.1 MB)
Using cached pillow-10.4.0-cp38-cp38-manylinux_2_28_x86_64.whl (4.5 MB)
Installing collected packages: Pillow, networkx, rdkit, mordredcommunity
Successfully installed Pillow-10.4.0 mordredcommunity-2.0.6 networkx-3.1 rdkit-2024.3.5
ERROR: Ignored the following yanked versions: 2.6, 2.6.1
ERROR: Ignored the following versions that require a different python version: 3.2 Requires-Python >=3.9; 3.2.1 Requires-Python >=3.9; 3.2rc0 Requires-Python >=3.9; 3.3 Requires-Python >=3.10; 3.3rc0 Requires-Python >=3.10; 3.4 Requires-Python >=3.10; 3.4.1 Requires-Python >=3.10; 3.4.2 Requires-Python >=3.10; 3.4rc0 Requires-Python >=3.10
ERROR: Could not find a version that satisfies the requirement networkx==3.2.1 (from versions: 0.34, 0.35, 0.35.1, 0.36, 0.37, 0.99, 1.0rc1, 1.0, 1.0.1, 1.1, 1.2rc1, 1.2, 1.3rc1, 1.3, 1.4rc1, 1.4, 1.5rc1, 1.5, 1.6rc1, 1.6, 1.7rc1, 1.7, 1.8rc1, 1.8, 1.8.1, 1.9rc1, 1.9, 1.9.1, 1.10rc2, 1.10, 1.11rc1, 1.11rc2, 1.11, 2.0, 2.1, 2.2rc1, 2.2, 2.3rc3, 2.3rc4, 2.3, 2.4rc1, 2.4rc2, 2.4, 2.5rc1, 2.5, 2.5.1, 2.6rc1, 2.6rc2, 2.6.2, 2.6.3, 2.7rc1, 2.7, 2.7.1, 2.8rc1, 2.8, 2.8.1rc1, 2.8.1, 2.8.2, 2.8.3, 2.8.4, 2.8.5, 2.8.6, 2.8.7, 2.8.8, 3.0b1, 3.0rc1, 3.0, 3.1rc0, 3.1)
ERROR: No matching distribution found for networkx==3.2.1
ERROR: Ignored the following versions that require a different python version: 1.25.0 Requires-Python >=3.9; 1.25.1 Requires-Python >=3.9; 1.25.2 Requires-Python >=3.9; 1.26.0 Requires-Python <3.13,>=3.9; 1.26.1 Requires-Python <3.13,>=3.9; 1.26.2 Requires-Python >=3.9; 1.26.3 Requires-Python >=3.9; 1.26.4 Requires-Python >=3.9; 2.0.0 Requires-Python >=3.9; 2.0.1 Requires-Python >=3.9; 2.0.2 Requires-Python >=3.9; 2.1.0 Requires-Python >=3.10; 2.1.0rc1 Requires-Python >=3.10; 2.1.1 Requires-Python >=3.10; 2.1.2 Requires-Python >=3.10; 2.1.3 Requires-Python >=3.10; 2.2.0 Requires-Python >=3.10; 2.2.0rc1 Requires-Python >=3.10; 2.2.1 Requires-Python >=3.10; 2.2.2 Requires-Python >=3.10
ERROR: Could not find a version that satisfies the requirement numpy==1.26.4 (from versions: 1.3.0, 1.4.1, 1.5.0, 1.5.1, 1.6.0, 1.6.1, 1.6.2, 1.7.0, 1.7.1, 1.7.2, 1.8.0, 1.8.1, 1.8.2, 1.9.0, 1.9.1, 1.9.2, 1.9.3, 1.10.0.post2, 1.10.1, 1.10.2, 1.10.4, 1.11.0, 1.11.1, 1.11.2, 1.11.3, 1.12.0, 1.12.1, 1.13.0, 1.13.1, 1.13.3, 1.14.0, 1.14.1, 1.14.2, 1.14.3, 1.14.4, 1.14.5, 1.14.6, 1.15.0, 1.15.1, 1.15.2, 1.15.3, 1.15.4, 1.16.0, 1.16.1, 1.16.2, 1.16.3, 1.16.4, 1.16.5, 1.16.6, 1.17.0, 1.17.1, 1.17.2, 1.17.3, 1.17.4, 1.17.5, 1.18.0, 1.18.1, 1.18.2, 1.18.3, 1.18.4, 1.18.5, 1.19.0, 1.19.1, 1.19.2, 1.19.3, 1.19.4, 1.19.5, 1.20.0, 1.20.1, 1.20.2, 1.20.3, 1.21.0, 1.21.1, 1.21.2, 1.21.3, 1.21.4, 1.21.5, 1.21.6, 1.22.0, 1.22.1, 1.22.2, 1.22.3, 1.22.4, 1.23.0, 1.23.1, 1.23.2, 1.23.3, 1.23.4, 1.23.5, 1.24.0, 1.24.1, 1.24.2, 1.24.3, 1.24.4)
ERROR: No matching distribution found for numpy==1.26.4
Collecting pandas==1.3.5
  Using cached pandas-1.3.5-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (12 kB)
Requirement already satisfied: python-dateutil>=2.7.3 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from pandas==1.3.5) (2.9.0.post0)
Collecting pytz>=2017.3 (from pandas==1.3.5)
  Using cached pytz-2025.1-py2.py3-none-any.whl.metadata (22 kB)
Requirement already satisfied: numpy>=1.17.3 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from pandas==1.3.5) (1.24.4)
Requirement already satisfied: six>=1.5 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from python-dateutil>=2.7.3->pandas==1.3.5) (1.17.0)
Using cached pandas-1.3.5-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (11.5 MB)
Using cached pytz-2025.1-py2.py3-none-any.whl (507 kB)
Installing collected packages: pytz, pandas
Successfully installed pandas-1.3.5 pytz-2025.1
Collecting rdkit==2023.3.2
  Using cached rdkit-2023.3.2-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (3.9 kB)
Requirement already satisfied: numpy in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from rdkit==2023.3.2) (1.24.4)
Requirement already satisfied: Pillow in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from rdkit==2023.3.2) (10.4.0)
Using cached rdkit-2023.3.2-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (29.7 MB)
Installing collected packages: rdkit
  Attempting uninstall: rdkit
    Found existing installation: rdkit 2024.3.5
    Uninstalling rdkit-2024.3.5:
      Successfully uninstalled rdkit-2024.3.5
Successfully installed rdkit-2023.3.2
Collecting timeout-decorator==0.5.0
  Using cached timeout_decorator-0.5.0-py3-none-any.whl
Installing collected packages: timeout-decorator
Successfully installed timeout-decorator-0.5.0
Collecting git+https://github.com/ersilia-os/bentoml-ersilia.git
  Cloning https://github.com/ersilia-os/bentoml-ersilia.git to /tmp/pip-req-build-z6otkrp8
  Running command git clone --filter=blob:none --quiet https://github.com/ersilia-os/bentoml-ersilia.git /tmp/pip-req-build-z6otkrp8
  Resolved https://github.com/ersilia-os/bentoml-ersilia.git to commit d9d9f342294da3f1a69c9e81adb17f77bc010aac
  Installing build dependencies: started
  Installing build dependencies: finished with status 'done'
  Getting requirements to build wheel: started
  Getting requirements to build wheel: finished with status 'done'
  Preparing metadata (pyproject.toml): started
  Preparing metadata (pyproject.toml): finished with status 'done'
Requirement already satisfied: docker in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (7.1.0)
Requirement already satisfied: alembic in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (1.14.1)
Requirement already satisfied: packaging in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (24.2)
Requirement already satisfied: boto3 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (1.36.11)
Requirement already satisfied: psutil in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (6.1.1)
Requirement already satisfied: cerberus in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (1.3.7)
Requirement already satisfied: sqlalchemy in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (2.0.37)
Requirement already satisfied: sqlalchemy-utils in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (0.41.2)
Requirement already satisfied: tabulate in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (0.9.0)
Requirement already satisfied: humanfriendly in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (10.0)
Requirement already satisfied: flask in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (3.0.3)
Requirement already satisfied: chardet in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (5.2.0)
Requirement already satisfied: numpy in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (1.24.4)
Requirement already satisfied: multidict in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (6.1.0)
Requirement already satisfied: requests in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (2.32.3)
Requirement already satisfied: python-json-logger in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (3.2.1)
Requirement already satisfied: ruamel.yaml in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (0.18.10)
Requirement already satisfied: werkzeug in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (3.0.6)
Requirement already satisfied: protobuf<3.19,>=3.8.0 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (3.18.3)
Requirement already satisfied: prometheus-client in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from bentoml==0.11.0) (0.21.1)
Requirement already satisfied: Mako in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from alembic->bentoml==0.11.0) (1.3.8)
Requirement already satisfied: importlib-metadata in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from alembic->bentoml==0.11.0) (8.5.0)
Requirement already satisfied: importlib-resources in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from alembic->bentoml==0.11.0) (6.4.5)
Requirement already satisfied: typing-extensions>=4 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from alembic->bentoml==0.11.0) (4.12.2)
Requirement already satisfied: greenlet!=0.4.17 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from sqlalchemy->bentoml==0.11.0) (3.1.1)
Requirement already satisfied: botocore<1.37.0,>=1.36.11 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from boto3->bentoml==0.11.0) (1.36.11)
Requirement already satisfied: jmespath<2.0.0,>=0.7.1 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from boto3->bentoml==0.11.0) (1.0.1)
Requirement already satisfied: s3transfer<0.12.0,>=0.11.0 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from boto3->bentoml==0.11.0) (0.11.2)
Requirement already satisfied: urllib3>=1.26.0 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from docker->bentoml==0.11.0) (1.26.20)
Requirement already satisfied: charset-normalizer<4,>=2 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from requests->bentoml==0.11.0) (3.4.1)
Requirement already satisfied: idna<4,>=2.5 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from requests->bentoml==0.11.0) (3.10)
Requirement already satisfied: certifi>=2017.4.17 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from requests->bentoml==0.11.0) (2025.1.31)
Requirement already satisfied: Jinja2>=3.1.2 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from flask->bentoml==0.11.0) (3.1.5)
Requirement already satisfied: itsdangerous>=2.1.2 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from flask->bentoml==0.11.0) (2.2.0)
Requirement already satisfied: click>=8.1.3 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from flask->bentoml==0.11.0) (8.1.8)
Requirement already satisfied: blinker>=1.6.2 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from flask->bentoml==0.11.0) (1.8.2)
Requirement already satisfied: MarkupSafe>=2.1.1 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from werkzeug->bentoml==0.11.0) (2.1.5)
Requirement already satisfied: ruamel.yaml.clib>=0.2.7 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from ruamel.yaml->bentoml==0.11.0) (0.2.8)
Requirement already satisfied: python-dateutil<3.0.0,>=2.1 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from botocore<1.37.0,>=1.36.11->boto3->bentoml==0.11.0) (2.9.0.post0)
Requirement already satisfied: zipp>=3.20 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from importlib-metadata->alembic->bentoml==0.11.0) (3.20.2)
Requirement already satisfied: six>=1.5 in /home/acomajuncosa/programs/anaconda3/envs/eos78ao/lib/python3.8/site-packages (from python-dateutil<3.0.0,>=2.1->botocore<1.37.0,>=1.36.11->boto3->bentoml==0.11.0) (1.17.0)

14:07:56 | DEBUG    | Error occurred while running: bash /tmp/ersilia-6o4os94z/script.sh 2>&1 | tee -a /tmp/ersilia-3nqyha2q/command_outputs.log
14:07:56 | ERROR    | Ersilia exception class:
ModelPackageInstallError

Detailed error:
Error occured while installing package by running "bash /tmp/ersilia-6o4os94z/script.sh 2>&1 | tee -a /tmp/ersilia-3nqyha2q/command_outputs.log" command 


Hints:
Try to manually activate the model environment and install package manually.
If this does not work, please report the error at:
 - https://github.com/ersilia-os/ersilia



🚨🚨🚨 Something went wrong with Ersilia 🚨🚨🚨

Error message:

Ersilia exception class:
ModelPackageInstallError

Detailed error:
Error occured while installing package by running "bash /tmp/ersilia-6o4os94z/script.sh 2>&1 | tee -a /tmp/ersilia-3nqyha2q/command_outputs.log" command 


Hints:
Try to manually activate the model environment and install package manually.
If this does not work, please report the error at:
 - https://github.com/ersilia-os/ersilia



If this error message is not helpful, open an issue at:
 - https://github.com/ersilia-os/ersilia
Or feel free to reach out to us at:
 - hello[at]ersilia.io

If you haven't, try to run your command in verbose mode (-v in the CLI)
 - You will find the console log file in: /home/acomajuncosa/eos/current.log
Task exception was never retrieved
future: <Task finished name='Task-1' coro=<ModelFetcher.fetch() done, defined at /aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/hub/fetch/fetch.py:345> exception=SystemExit(1)>
Traceback (most recent call last):
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/utils/exceptions_utils/throw_ersilia_exception.py", line 25, in inner_function
    return func(*args, **kwargs)
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/utils/conda.py", line 728, in run_commandlines
    raise ModelPackageInstallError(cmd)
ersilia.utils.exceptions_utils.fetch_exceptions.ModelPackageInstallError: Ersilia exception class:
ModelPackageInstallError

Detailed error:
Error occured while installing package by running "bash /tmp/ersilia-6o4os94z/script.sh 2>&1 | tee -a /tmp/ersilia-3nqyha2q/command_outputs.log" command 


Hints:
Try to manually activate the model environment and install package manually.
If this does not work, please report the error at:
 - https://github.com/ersilia-os/ersilia




During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/home/acomajuncosa/programs/anaconda3/envs/ersilia/lib/python3.10/site-packages/click/core.py", line 1082, in main
    rv = self.invoke(ctx)
  File "/home/acomajuncosa/programs/anaconda3/envs/ersilia/lib/python3.10/site-packages/click/core.py", line 1697, in invoke
    return _process_result(sub_ctx.command.invoke(sub_ctx))
  File "/home/acomajuncosa/programs/anaconda3/envs/ersilia/lib/python3.10/site-packages/click/core.py", line 1443, in invoke
    return ctx.invoke(self.callback, **ctx.params)
  File "/home/acomajuncosa/programs/anaconda3/envs/ersilia/lib/python3.10/site-packages/click/core.py", line 788, in invoke
    return __callback(*args, **kwargs)
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/cli/commands/__init__.py", line 31, in wrapper
    return func(*args, **kwargs)
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/cli/commands/fetch.py", line 142, in fetch
    fetch_result = _fetch(mf, model_id)
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/cli/commands/fetch.py", line 37, in _fetch
    res = asyncio.run(mf.fetch(model_id))
  File "/home/acomajuncosa/programs/anaconda3/envs/ersilia/lib/python3.10/site-packages/nest_asyncio.py", line 30, in run
    return loop.run_until_complete(task)
  File "/home/acomajuncosa/programs/anaconda3/envs/ersilia/lib/python3.10/site-packages/nest_asyncio.py", line 92, in run_until_complete
    self._run_once()
  File "/home/acomajuncosa/programs/anaconda3/envs/ersilia/lib/python3.10/site-packages/nest_asyncio.py", line 133, in _run_once
    handle._run()
  File "/home/acomajuncosa/programs/anaconda3/envs/ersilia/lib/python3.10/asyncio/events.py", line 80, in _run
    self._context.run(self._callback, *self._args)
  File "/home/acomajuncosa/programs/anaconda3/envs/ersilia/lib/python3.10/asyncio/tasks.py", line 232, in __step
    result = coro.send(None)
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/hub/fetch/fetch.py", line 366, in fetch
    fr = await self._fetch(model_id)
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/hub/fetch/fetch.py", line 334, in _fetch
    self._fetch_not_from_dockerhub(model_id=model_id)
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/utils/exceptions_utils/throw_ersilia_exception.py", line 25, in inner_function
    return func(*args, **kwargs)
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/hub/fetch/fetch.py", line 228, in _fetch_not_from_dockerhub
    self._fetch_from_bentoml()
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/utils/exceptions_utils/throw_ersilia_exception.py", line 25, in inner_function
    return func(*args, **kwargs)
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/hub/fetch/fetch.py", line 203, in _fetch_from_bentoml
    mf.fetch(model_id=self.model_id)
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/hub/fetch/fetch_bentoml.py", line 213, in fetch
    self._fetch(model_id)
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/hub/fetch/fetch_bentoml.py", line 171, in _fetch
    self._fetch_not_from_dockerhub(model_id=model_id)
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/hub/fetch/fetch_bentoml.py", line 151, in _fetch_not_from_dockerhub
    self._pack()
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/hub/fetch/fetch_bentoml.py", line 115, in _pack
    mp.pack()
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/hub/fetch/actions/pack_bentoml.py", line 84, in pack
    self._run()
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/hub/fetch/actions/pack_bentoml.py", line 76, in _run
    runner.run()
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/utils/exceptions_utils/throw_ersilia_exception.py", line 25, in inner_function
    return func(*args, **kwargs)
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/hub/fetch/pack/bentoml_pack/runners.py", line 196, in run
    self._run()
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/hub/fetch/pack/bentoml_pack/runners.py", line 174, in _run
    env = self._setup()
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/hub/fetch/pack/bentoml_pack/runners.py", line 157, in _setup
    self.conda.run_commandlines(environment=env, commandlines=commandlines)
  File "/aloy/home/acomajuncosa/Ersilia/code/ersilia/ersilia/utils/exceptions_utils/throw_ersilia_exception.py", line 41, in inner_function
    sys.exit(DEFAULT_ERSILIA_ERROR_EXIT_CODE)
SystemExit: 1

Describe the steps to reproduce the behavior

No response

Operating environment

Ubuntu 20.04.3 LTS
@arnaucoma24 arnaucoma24 added the bug Something isn't working label Feb 4, 2025
@GemmaTuron
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Hi @arnaucoma24

Yes even though Mordred is quite frequently used its source code is not well maintained. We are switching to mordred community ( a community maintained version of Mordred) which will save the trouble with clashing packages. See issue #1518
Actually, if you want to become familiar with how Ersilia Models work I can guide you through this changes and we can complete together the steps listed in the related issue.

@arnaucoma24
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Hi @GemmaTuron -sounds great! Should I close this issue as duplicate and assign to me task/issue #1518 ?

@github-project-automation github-project-automation bot moved this from On Hold to Done in Ersilia Model Hub Feb 5, 2025
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@GemmaTuron @arnaucoma24