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MEDomics-UdeS / MEDomicsLab

https://medomics-udes.gitbook.io/medomicslab-docs/
GNU General Public License v3.0
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MAC - Message d'erreur après 30 secondes d'extraction discharge_notes : No columns to parse from file - Denis Boutin #218

Closed mvallieres closed 2 weeks ago

mvallieres commented 9 months ago

Hello MEDomicsLab,

Below is my feedback:

Version of MEDomicsLab MEDomicsLab-0.0.3

Issues: Message d'erreur: File -> /Applications/MEDomicsLab.app/Contents/Resources/pythonCode/med_libs/GoExecutionScript.py Line -> 73 Func.Name -> start Message -> results = self._custom_process(self._json_params)

File -> /Applications/MEDomicsLab.app/Contents/Resources/pythonCode/modules/extraction_text/to_master_BioBERT_extraction.py Line -> 43 Func.Name -> _custom_process Message -> extracted_data = pd.read_csv(extracted_data_file)

File -> /Users/denisboutin/miniconda3/envs/med_conda_env/lib/python3.9/site-packages/pandas/util/_decorators.py Line -> 211 Func.Name -> wrapper Message -> return func(*args, **kwargs)

File -> /Users/denisboutin/miniconda3/envs/med_conda_env/lib/python3.9/site-packages/pandas/util/_decorators.py Line -> 331 Func.Name -> wrapper Message -> return func(*args, **kwargs)

File -> /Users/denisboutin/miniconda3/envs/med_conda_env/lib/python3.9/site-packages/pandas/io/parsers/readers.py Line -> 950 Func.Name -> read_csv Message -> return _read(filepath_or_buffer, kwds)

File -> /Users/denisboutin/miniconda3/envs/med_conda_env/lib/python3.9/site-packages/pandas/io/parsers/readers.py Line -> 605 Func.Name -> _read Message -> parser = TextFileReader(filepath_or_buffer, **kwds)

File -> /Users/denisboutin/miniconda3/envs/med_conda_env/lib/python3.9/site-packages/pandas/io/parsers/readers.py Line -> 1442 Func.Name -> init Message -> self._engine = self._make_engine(f, self.engine)

File -> /Users/denisboutin/miniconda3/envs/med_conda_env/lib/python3.9/site-packages/pandas/io/parsers/readers.py Line -> 1753 Func.Name -> _make_engine Message -> return mapping[engine](f, **self.options)

File -> /Users/denisboutin/miniconda3/envs/med_conda_env/lib/python3.9/site-packages/pandas/io/parsers/c_parser_wrapper.py Line -> 79 Func.Name -> init Message -> self._reader = parsers.TextReader(src, **kwds)

File -> pandas/_libs/parsers.pyx Line -> 554 Func.Name -> pandas._libs.parsers.TextReader.cinit Message ->

Type: bug

Additional comments:

boutin62 commented 9 months ago

I forgot : MacBook Air!

Sari27 commented 9 months ago

Hello @boutin62 !

Thank you for reporting the issue! I noticed that your bug is associated with the release MEDomicsLab-0.0.3. Could you please confirm when you downloaded this release? We made an update to it, including the correction of a similar issue on January 25. Kindly let us know if you worked with this update or not!

To stay informed about release updates, please join our Discord server: https://discord.com/invite/ZbaGj8E6mP

boutin62 commented 9 months ago

Allô,

I downloaded and installed it yesterday!

Thanks! Denis

Le jeu. 1 févr. 2024 à 16:51, Sarah DENIS @.***> a écrit :

Hello @boutin62 https://github.com/boutin62 !

Thank you for reporting the issue! I noticed that your bug is associated with the release MEDomicsLab-0.0.3. Could you please confirm when you downloaded this release? We made an update to it, including the correction of a similar issue on January 25. Kindly let us know if you worked with this update or not!

To stay informed about release updates, please join our Discord server: https://discord.com/invite/ZbaGj8E6mP

— Reply to this email directly, view it on GitHub https://github.com/MEDomics-UdeS/MEDomicsLab/issues/218#issuecomment-1922314825, or unsubscribe https://github.com/notifications/unsubscribe-auth/AOCNLKDTQMNJJ6ITTPX7HZ3YRQE67AVCNFSM6AAAAABCVDU2YWVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMYTSMRSGMYTIOBSGU . You are receiving this because you were mentioned.Message ID: @.***>

boutin62 commented 9 months ago

Last login: Fri Feb 2 07:50:38 on console @. ~ % kzh zsh: command not found: kzh @. ~ % zks zsh: command not found: zks @. ~ % zsk zsh: command not found: zsk @. ~ % kzs zsh: command not found: kzs @. ~ % cd /Users/denisboutin/Downloads/MEDomicsLab-PythonEnv-mac @. MEDomicsLab-PythonEnv-mac % ls create_conda_env_mac.sh requirements_mac.txt @.*** MEDomicsLab-PythonEnv-mac % zsh create_conda_env_mac.sh Checking if .zshrc exists... Checking if Conda is installed... Conda is already installed. Homebrew is already installed. Updating Conda... Retrieving notices: ...working... done Channels:

==> WARNING: A newer version of conda exists. <== current version: 23.11.0 latest version: 24.1.0

Please update conda by running

$ conda update -n base -c defaults conda

All requested packages already installed.

Activating the base environment... Installing xcode command line tools... xcode-select: note: Command line tools are already installed. Use "Software Update" in System Settings or the softwareupdate command line interface to install updates An error occurred while installing xcode command line tools. Conda type: base The med_conda_env environment already exists. Activating the environment... Adding conda-forge channel... Warning: 'conda-forge' already in 'channels' list, moving to the top Installing packages... Installing PyCaret with conda... Channels:

Package Plan

environment location: /usr/local/Caskroom/miniforge/base/envs/med_conda_env

added / updated specs:

The following packages will be downloaded:

package                    |            build
---------------------------|-----------------
ca-certificates-2024.2.2   |       h8857fd0_0         152 KB  conda-forge
------------------------------------------------------------
                                       Total:         152 KB

The following packages will be UPDATED:

ca-certificates 2023.11.17-h8857fd0_0 --> 2024.2.2-h8857fd0_0

Downloading and Extracting Packages:

Preparing transaction: done Verifying transaction: done Executing transaction: done Installing packages with pip... 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(from -r requirements_mac.txt (line 79)) (20.1.0) Requirement already satisfied: h11==0.14.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 80)) (0.14.0) Requirement already satisfied: htmlmin==0.1.12 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 81)) (0.1.12) Requirement already satisfied: httpcore==1.0.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 82)) (1.0.1) Requirement already satisfied: httpx==0.25.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 83)) (0.25.1) Requirement already satisfied: huggingface-hub==0.18.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 84)) (0.18.0) Requirement already satisfied: ImageHash==4.3.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 86)) (4.3.1) Requirement already satisfied: imageio==2.24.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 87)) (2.24.0) Requirement already satisfied: imagesize==1.4.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 88)) (1.4.1) Requirement already satisfied: iniconfig==2.0.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 92)) (2.0.0) Requirement already satisfied: interface-meta==1.3.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 93)) (1.3.0) Requirement already satisfied: ipykernel==6.20.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 94)) (6.20.1) Requirement already satisfied: ipython==8.8.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 95)) (8.8.0) Requirement already satisfied: ipython-genutils==0.2.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 96)) (0.2.0) Requirement already satisfied: isoduration==20.11.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 98)) (20.11.0) Requirement already satisfied: isort==5.10.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 99)) (5.10.1) Requirement already satisfied: itsdangerous==2.1.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 100)) (2.1.2) Requirement already satisfied: Jinja2==3.1.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 102)) (3.1.2) Requirement already satisfied: jmespath==1.0.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 103)) (1.0.1) Requirement already satisfied: json5==0.9.14 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 105)) (0.9.14) Requirement already satisfied: jsonpointer==2.4 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 106)) (2.4) Requirement already satisfied: jupyter==1.0.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 109)) (1.0.0) Requirement already satisfied: jupyter-console==6.6.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 110)) (6.6.3) Requirement already satisfied: jupyter-dash==0.4.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 111)) (0.4.2) Requirement already satisfied: jupyter-events==0.7.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 112)) (0.7.0) Requirement already satisfied: jupyter-lsp==2.2.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 113)) (2.2.0) Requirement already satisfied: jupyter_client==7.4.8 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 114)) (7.4.8) Requirement already satisfied: jupyter_core==5.1.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 115)) (5.1.3) Requirement already satisfied: jupyter_server==2.7.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 116)) (2.7.3) Requirement already satisfied: jupyter_server_terminals==0.4.4 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 117)) (0.4.4) Requirement already satisfied: jupyterlab==4.0.6 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 118)) (4.0.6) Requirement already satisfied: jupyterlab-pygments==0.2.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 119)) (0.2.2) Requirement already satisfied: jupyterlab-widgets==3.0.5 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 120)) (3.0.5) Requirement already satisfied: jupyterlab_server==2.24.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 121)) (2.24.0) Requirement already satisfied: kaleido==0.2.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 122)) (0.2.1) Requirement already satisfied: kiwisolver==1.4.4 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 123)) (1.4.4) Requirement already satisfied: lifelines==0.27.4 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 124)) (0.27.4) Requirement already satisfied: llvmlite==0.41.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 126)) (0.41.1) Requirement already satisfied: locket==1.0.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 127)) (1.0.0) Requirement already satisfied: lxml==4.9.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 128)) (4.9.3) Requirement already satisfied: lz4==4.3.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 129)) (4.3.2) Requirement already satisfied: m2cgen==0.10.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 130)) (0.10.0) Requirement already satisfied: Mako==1.2.4 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 131)) (1.2.4) Requirement already satisfied: Markdown==3.4.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 132)) (3.4.1) Requirement already satisfied: markdown-it-py==3.0.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 133)) (3.0.0) Requirement already satisfied: mdurl==0.1.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 137)) (0.1.2) Requirement already satisfied: memory-profiler==0.61.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 138)) (0.61.0) Requirement already satisfied: missingno==0.4.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 139)) (0.4.2) Requirement already satisfied: mistune==3.0.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 140)) (3.0.2) Requirement already satisfied: mlflow==2.8.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 141)) (2.8.0) Requirement already satisfied: mpmath==1.3.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 142)) (1.3.0) Requirement already satisfied: msgpack==1.0.4 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 143)) (1.0.4) Requirement already satisfied: multimethod==1.9.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 144)) (1.9.1) Requirement already satisfied: nbclient==0.8.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 145)) (0.8.0) Requirement already satisfied: nbconvert==7.9.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 146)) (7.9.2) Requirement already satisfied: nbformat==5.9.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 147)) (5.9.2) Requirement already satisfied: nest-asyncio==1.5.6 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 148)) (1.5.6) Requirement already satisfied: networkx==3.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 149)) (3.0) Requirement already satisfied: nibabel==4.0.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 150)) (4.0.2) Requirement already satisfied: nilearn==0.10.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 151)) (0.10.1) Requirement already satisfied: nltk==3.8.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 152)) (3.8.1) Requirement already satisfied: notebook==7.0.4 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 153)) (7.0.4) Requirement already satisfied: notebook_shim==0.2.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 154)) (0.2.3) Requirement already satisfied: oauthlib==3.2.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 158)) (3.2.2) Requirement already satisfied: opencv-python==4.8.1.78 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 159)) (4.8.1.78) Requirement already satisfied: openpyxl==3.0.10 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 160)) (3.0.10) Requirement already satisfied: overrides==7.4.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 162)) (7.4.0) Requirement already satisfied: oyaml==1.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 163)) (1.0) Requirement already satisfied: packaging==23.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 164)) (23.2) Requirement already satisfied: pandas-profiling==3.6.6 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 166)) (3.6.6) Requirement already satisfied: pandocfilters==1.5.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 167)) (1.5.0) Requirement already satisfied: parso==0.8.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 168)) (0.8.3) Requirement already satisfied: partd==1.4.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 169)) (1.4.1) Requirement already satisfied: pefile==2023.2.7 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 171)) (2023.2.7) Requirement already satisfied: pexpect==4.8.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 172)) (4.8.0) Requirement already satisfied: phik==0.12.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 173)) (0.12.3) Requirement already satisfied: pickleshare==0.7.5 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 174)) (0.7.5) Requirement already satisfied: pluggy==1.0.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 179)) (1.0.0) Requirement already satisfied: pmdarima==2.0.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 180)) (2.0.2) Requirement already satisfied: prometheus-client==0.17.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 181)) (0.17.1) Requirement already satisfied: prometheus-flask-exporter==0.23.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 182)) (0.23.0) Requirement already satisfied: prompt-toolkit==3.0.36 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 183)) (3.0.36) Requirement already satisfied: protobuf==4.21.12 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 184)) (4.21.12) Requirement already satisfied: psutil==5.9.4 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 185)) (5.9.4) Requirement already satisfied: ptyprocess==0.7.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 186)) (0.7.0) Requirement already satisfied: pure-eval==0.2.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 187)) (0.2.2) Requirement already satisfied: pyarrow==10.0.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 188)) (10.0.1) Requirement already satisfied: pycparser==2.21 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 189)) (2.21) Requirement already satisfied: pydantic==2.4.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 190)) (2.4.2) Requirement already satisfied: pydantic_core==2.10.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 191)) (2.10.1) Requirement already satisfied: pydeck==0.8.1b0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 192)) (0.8.1b0) Requirement already satisfied: pydicom==1.2.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 193)) (1.2.2) Requirement already satisfied: pydub==0.25.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 194)) (0.25.1) Requirement already satisfied: Pygments==2.14.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 195)) (2.14.0) Requirement already satisfied: PyJWT==2.6.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 196)) (2.6.0) Requirement already satisfied: pyod==1.1.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 197)) (1.1.0) Requirement already satisfied: pyparsing==3.0.9 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 198)) (3.0.9) Requirement already satisfied: pyrsistent==0.19.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 199)) (0.19.3) Requirement already satisfied: pytest==7.2.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 200)) (7.2.0) Requirement already satisfied: python-dateutil==2.8.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 201)) (2.8.2) Requirement already satisfied: python-json-logger==2.0.7 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 203)) (2.0.7) Requirement already satisfied: python-multipart==0.0.6 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 204)) (0.0.6) Requirement already satisfied: pytools==2023.1.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 205)) (2023.1.1) Requirement already satisfied: pytz==2022.7 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 206)) (2022.7) Requirement already satisfied: pyunpack==0.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 207)) (0.3) Requirement already satisfied: PyWavelets==1.4.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 208)) (1.4.1) Requirement already satisfied: pyzmq==24.0.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 210)) (24.0.1) Requirement already satisfied: qtconsole==5.4.4 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 211)) (5.4.4) Requirement already satisfied: QtPy==2.4.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 212)) (2.4.0) Requirement already satisfied: querystring-parser==1.2.4 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 213)) (1.2.4) Requirement already satisfied: regex==2023.10.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 215)) (2023.10.3) Requirement already satisfied: rich==13.5.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 218)) (13.5.3) Requirement already satisfied: rpds-py==0.10.4 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 219)) (0.10.4) Requirement already satisfied: s3transfer==0.7.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 220)) (0.7.0) Requirement already satisfied: safetensors==0.4.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 221)) (0.4.0) Requirement already satisfied: seaborn==0.12.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 227)) (0.12.2) Requirement already satisfied: semantic-version==2.10.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 228)) (2.10.0) Requirement already satisfied: Send2Trash==1.8.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 229)) (1.8.2) Requirement already satisfied: shellingham==1.5.4 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 231)) (1.5.4) Requirement already satisfied: SimpleITK==2.2.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 232)) (2.2.0) Requirement already satisfied: simplejson==3.19.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 233)) (3.19.2) Requirement already satisfied: six==1.16.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 234)) (1.16.0) Requirement already satisfied: slicer==0.0.7 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 235)) (0.0.7) Requirement already satisfied: smmap==5.0.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 236)) (5.0.0) Requirement already satisfied: sniffio==1.3.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 237)) (1.3.0) Requirement already satisfied: snowballstemmer==2.2.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 238)) (2.2.0) Requirement already satisfied: sortedcontainers==2.4.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 239)) (2.4.0) Requirement already satisfied: soupsieve==2.5 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 240)) (2.5) Requirement already satisfied: Sphinx==4.5.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 241)) (4.5.0) Requirement already satisfied: sphinx-jsonschema==1.19.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 242)) (1.19.1) Requirement already satisfied: sphinx-rtd-dark-mode==1.2.4 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 243)) (1.2.4) Requirement already satisfied: sphinx-rtd-theme==1.3.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 244)) (1.3.0) Requirement already satisfied: sphinxcontrib-applehelp==1.0.4 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 245)) (1.0.4) Requirement already satisfied: sphinxcontrib-devhelp==1.0.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 246)) (1.0.2) Requirement already satisfied: sphinxcontrib-htmlhelp==2.0.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 247)) (2.0.1) Requirement already satisfied: sphinxcontrib-jquery==4.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 248)) (4.1) Requirement already satisfied: sphinxcontrib-jsmath==1.0.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 249)) (1.0.1) Requirement already satisfied: sphinxcontrib-qthelp==1.0.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 250)) (1.0.3) Requirement already satisfied: sphinxcontrib-serializinghtml==1.1.5 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 251)) (1.1.5) Requirement already satisfied: SQLAlchemy==1.4.46 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 252)) (1.4.46) Requirement already satisfied: sqlparse==0.4.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 253)) (0.4.3) Requirement already satisfied: squarify==0.4.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 254)) (0.4.3) Requirement already satisfied: stack-data==0.6.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 255)) (0.6.2) Requirement already satisfied: starlette==0.27.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 256)) (0.27.0) Requirement already satisfied: statsmodels==0.13.5 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 257)) (0.13.5) Requirement already satisfied: streamlit==1.27.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 258)) (1.27.0) Requirement already satisfied: strsimpy==0.2.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 259)) (0.2.1) Requirement already satisfied: stumpy==1.12.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 260)) (1.12.0) Requirement already satisfied: sweetviz==2.1.4 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 261)) (2.1.4) Requirement already satisfied: sympy==1.12 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 262)) (1.12) Requirement already satisfied: tabulate==0.9.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 263)) (0.9.0) Requirement already satisfied: tangled-up-in-unicode==0.2.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 264)) (0.2.0) Requirement already satisfied: tbats==1.1.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 265)) (1.1.3) Requirement already satisfied: tblib==2.0.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 266)) (2.0.0) Requirement already satisfied: tenacity==8.1.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 267)) (8.1.0) Requirement already satisfied: termcolor==2.1.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 268)) (2.1.1) Requirement already satisfied: terminado==0.17.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 269)) (0.17.1) Requirement already satisfied: threadpoolctl==3.1.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 270)) (3.1.0) Requirement already satisfied: tifffile==2022.10.10 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 271)) (2022.10.10) Requirement already satisfied: tinycss2==1.2.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 272)) (1.2.1) Requirement already satisfied: tokenizers==0.13.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 273)) (0.13.3) Requirement already satisfied: toml==0.10.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 274)) (0.10.2) Requirement already satisfied: tomli==2.0.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 275)) (2.0.1) Requirement already satisfied: tomlkit==0.12.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 276)) (0.12.0) Requirement already satisfied: toolz==0.12.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 277)) (0.12.0) Collecting torch==2.1.0 (from -r requirements_mac.txt (line 278)) Downloading torch-2.1.0-cp39-none-macosx_10_9_x86_64.whl.metadata (24 kB) Collecting torchvision==0.16.0 (from -r requirements_mac.txt (line 279)) Downloading torchvision-0.16.0-cp39-cp39-macosx_10_13_x86_64.whl.metadata (6.6 kB) Collecting torchxrayvision==1.2.1 (from -r requirements_mac.txt (line 280)) Downloading torchxrayvision-1.2.1-py3-none-any.whl.metadata (18 kB) Requirement already satisfied: trace-updater==0.0.9.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 283)) (0.0.9.1) Requirement already satisfied: traitlets==5.8.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 284)) (5.8.1) Requirement already satisfied: transformers==4.30.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 285)) (4.30.2) Requirement already satisfied: tsdownsample==0.1.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 286)) (0.1.2) Collecting tsfresh==0.20.1 (from -r requirements_mac.txt (line 287)) Downloading tsfresh-0.20.1-py2.py3-none-any.whl.metadata (2.4 kB) Requirement already satisfied: typeguard==4.1.5 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 288)) (4.1.5) Requirement already satisfied: typer==0.9.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 289)) (0.9.0) Requirement already satisfied: types-python-dateutil==2.8.19.14 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 290)) (2.8.19.14) Requirement already satisfied: tzlocal==5.0.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 293)) (5.0.1) Requirement already satisfied: ua-parser==0.16.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 294)) (0.16.1) Requirement already satisfied: uri-template==1.3.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 295)) (1.3.0) Requirement already satisfied: uvicorn==0.24.0.post1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 297)) (0.24.0.post1) Requirement already satisfied: validators==0.22.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 298)) (0.22.0) Requirement already satisfied: virtualenv==20.17.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 299)) (20.17.1) Requirement already satisfied: visions==0.7.5 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 300)) (0.7.5) Requirement already satisfied: waitress==2.1.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 301)) (2.1.2) Requirement already satisfied: watchdog==3.0.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 302)) (3.0.0) Requirement already satisfied: wcwidth==0.2.5 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 303)) (0.2.5) Requirement already satisfied: webcolors==1.13 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 304)) (1.13) Requirement already satisfied: webencodings==0.5.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 305)) (0.5.1) Requirement already satisfied: websocket-client==1.4.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 306)) (1.4.2) Requirement already satisfied: websockets==11.0.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 307)) (11.0.3) Requirement already satisfied: wget==3.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 309)) (3.2) Requirement already satisfied: wordcloud==1.9.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 311)) (1.9.2) Requirement already satisfied: WTForms==3.0.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 313)) (3.0.1) Requirement already satisfied: xarray==2022.12.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 315)) (2022.12.0) Requirement already satisfied: xlrd==2.0.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 316)) (2.0.1) Requirement already satisfied: xxhash==3.4.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 317)) (3.4.1) Requirement already satisfied: ydata-profiling==4.6.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 318)) (4.6.1) Requirement already satisfied: yellowbrick==1.5 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 319)) (1.5) Requirement already satisfied: zict==3.0.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from -r requirements_mac.txt (line 320)) (3.0.0) Requirement already satisfied: jsonschema>=3.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from altair==5.1.1->-r requirements_mac.txt (line 5)) (4.21.0) Requirement already satisfied: numpy in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from altair==5.1.1->-r requirements_mac.txt (line 5)) (1.25.2) Requirement already satisfied: pandas>=0.25 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from altair==5.1.1->-r requirements_mac.txt (line 5)) (1.5.3) Requirement already satisfied: typing-extensions>=4.0.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from altair==5.1.1->-r requirements_mac.txt (line 5)) (4.9.0) Requirement already satisfied: idna>=2.8 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from anyio==3.7.1->-r requirements_mac.txt (line 8)) (3.6) Requirement already satisfied: scipy>=1.2.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from autograd-gamma==0.5.0->-r requirements_mac.txt (line 17)) (1.11.4) Requirement already satisfied: urllib3<1.27,>=1.25.4 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from botocore==1.31.80->-r requirements_mac.txt (line 24)) (1.26.18) Requirement already satisfied: plotly in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from chart-studio==1.1.0->-r requirements_mac.txt (line 29)) (5.18.0) Requirement already satisfied: requests in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from chart-studio==1.1.0->-r requirements_mac.txt (line 29)) (2.31.0) Requirement already satisfied: retrying>=1.3.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from chart-studio==1.1.0->-r requirements_mac.txt (line 29)) (1.3.3) Requirement already satisfied: Flask>=1.0.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from dash-auth==1.4.1->-r requirements_mac.txt (line 35)) (2.2.5) Requirement already satisfied: dash>=1.1.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from dash-auth==1.4.1->-r requirements_mac.txt (line 35)) (2.14.2) Requirement already satisfied: pyyaml>=5.3.1 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from dask==2023.11.0->-r requirements_mac.txt (line 39)) (6.0.1) Requirement already satisfied: importlib-metadata>=4.13.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from dask==2023.11.0->-r requirements_mac.txt (line 39)) (6.11.0) Requirement already satisfied: certifi in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from dtale==3.7.0->-r requirements_mac.txt (line 47)) (2023.11.17) Requirement already satisfied: cycler in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from dtale==3.7.0->-r requirements_mac.txt (line 47)) (0.12.1) Requirement already satisfied: scikit-learn in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from dtale==3.7.0->-r requirements_mac.txt (line 47)) (1.2.2) Requirement already satisfied: werkzeug<2.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from dtale==3.7.0->-r requirements_mac.txt (line 47)) (2.2.3) Requirement already satisfied: matplotlib in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from dtale==3.7.0->-r requirements_mac.txt (line 47)) (3.7.3) Requirement already satisfied: graphviz>=0.9 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from dtreeviz==1.4.1->-r requirements_mac.txt (line 48)) (0.20.1) Requirement already satisfied: joblib in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from explainerdashboard==0.4.0->-r requirements_mac.txt (line 56)) (1.3.2) Requirement already satisfied: shap>=0.37 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from explainerdashboard==0.4.0->-r requirements_mac.txt (line 56)) (0.41.0) Requirement already satisfied: wrapt>=1.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from formulaic==0.5.2->-r requirements_mac.txt (line 67)) (1.16.0) Requirement already satisfied: importlib-resources<7.0,>=1.3 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from gradio==3.50.2->-r requirements_mac.txt (line 74)) (6.1.1) Requirement already satisfied: markupsafe~=2.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from gradio==3.50.2->-r requirements_mac.txt (line 74)) (2.1.3) Requirement already satisfied: orjson~=3.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from gradio==3.50.2->-r requirements_mac.txt (line 74)) (3.9.10) Requirement already satisfied: pillow<11.0,>=8.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from gradio==3.50.2->-r requirements_mac.txt (line 74)) (9.5.0) Requirement already satisfied: setuptools>=3.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from gunicorn==20.1.0->-r requirements_mac.txt (line 79)) (69.0.3) Requirement already satisfied: tqdm>=4.42.1 in 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already satisfied: greenlet!=0.4.17 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from SQLAlchemy==1.4.46->-r requirements_mac.txt (line 252)) (3.0.3) Requirement already satisfied: asttokens>=2.1.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from stack-data==0.6.2->-r requirements_mac.txt (line 255)) (2.4.1) Requirement already satisfied: patsy>=0.5.2 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from statsmodels==0.13.5->-r requirements_mac.txt (line 257)) (0.5.6) Collecting scikit-image>=0.16 (from torchxrayvision==1.2.1->-r requirements_mac.txt (line 280)) Downloading scikit_image-0.22.0-cp39-cp39-macosx_10_9_x86_64.whl.metadata (13 kB) Collecting distributed>=2.11.0 (from tsfresh==0.20.1->-r requirements_mac.txt (line 287)) Downloading distributed-2024.1.1-py3-none-any.whl.metadata (3.4 kB) WARNING: visions 0.7.5 does not provide the extra 'type-image-path' Requirement already satisfied: dash-html-components==2.0.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from dash>=1.1.1->dash-auth==1.4.1->-r requirements_mac.txt (line 35)) (2.0.0) Requirement already satisfied: dash-core-components==2.0.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from dash>=1.1.1->dash-auth==1.4.1->-r requirements_mac.txt (line 35)) (2.0.0) Requirement already satisfied: dash-table==5.0.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from dash>=1.1.1->dash-auth==1.4.1->-r requirements_mac.txt (line 35)) (5.0.0) INFO: pip is looking at multiple versions of distributed to determine which version is compatible with other requirements. This could take a while. 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This could take a while. Collecting scikit-image>=0.16 (from torchxrayvision==1.2.1->-r requirements_mac.txt (line 280)) Downloading scikit_image-0.21.0-cp39-cp39-macosx_10_9_x86_64.whl.metadata (14 kB) Downloading scikit_image-0.20.0-cp39-cp39-macosx_10_9_x86_64.whl (13.1 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 13.1/13.1 MB 8.8 MB/s eta 0:00:00 Collecting scipy>=1.2.0 (from autograd-gamma==0.5.0->-r requirements_mac.txt (line 17)) Downloading scipy-1.9.1-cp39-cp39-macosx_12_0_universal2.macosx_10_9_x86_64.whl (58.4 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 58.4/58.4 MB 8.1 MB/s eta 0:00:00 Collecting lazy_loader>=0.1 (from scikit-image>=0.16->torchxrayvision==1.2.1->-r requirements_mac.txt (line 280)) Downloading lazy_loader-0.3-py3-none-any.whl.metadata (4.3 kB) Collecting numpy (from altair==5.1.1->-r requirements_mac.txt (line 5)) Downloading numpy-1.24.4-cp39-cp39-macosx_10_9_x86_64.whl.metadata (5.6 kB) Requirement already satisfied: widgetsnbextension~=4.0 in /usr/local/Caskroom/miniforge/base/envs/med_conda_env/lib/python3.9/site-packages (from ipywidgets->jupyter==1.0.0->-r requirements_mac.txt (line 109)) (4.0.9) Downloading dask-2023.11.0-py3-none-any.whl (1.2 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.2/1.2 MB 7.9 MB/s eta 0:00:00 Downloading torch-2.1.0-cp39-none-macosx_10_9_x86_64.whl (147.0 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 147.0/147.0 MB 7.9 MB/s eta 0:00:00 Downloading torchvision-0.16.0-cp39-cp39-macosx_10_13_x86_64.whl (1.7 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━

Sari27 commented 9 months ago

Temporary solution: Set server path to /usr/local/Caskroom/miniforge/base/envs/med_conda_env/bin/python in settings (usr is a hidden file)