Ecosyste.ms: Issues

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GitHub / biocypher/biochatter issues and pull requests

#268 - Run Longevity Benchmark

Pull Request - State: open - Opened by HansJarchow 10 days ago

#267 - remove non-number values from stats return

Pull Request - State: closed - Opened by slobentanzer 12 days ago

#266 - Demo bug on 9-th step

Issue - State: closed - Opened by sergeifedorenko 12 days ago - 3 comments
Labels: bug

#265 - [Model request] DeepSeek benchmark

Issue - State: open - Opened by Zeno-kimono 15 days ago - 1 comment
Labels: model request

#264 - Add liteLLM for LLM requests

Issue - State: open - Opened by slobentanzer 22 days ago

#263 - feat: add support for python API calling and scverse packages

Pull Request - State: closed - Opened by slobentanzer 23 days ago - 4 comments

#262 - feat: protect chat attributes and improve error handling

Pull Request - State: closed - Opened by slobentanzer 24 days ago - 1 comment

#261 - Add the benchmark judgement framework

Pull Request - State: closed - Opened by HansJarchow about 1 month ago - 21 comments

#259 - feat: support to inject token usage update callback

Pull Request - State: closed - Opened by fengsh27 about 1 month ago

#257 - Anndata concatentation + mapping integration

Pull Request - State: closed - Opened by noahbruderer about 2 months ago

#256 - Create pydantic classes for the scanpy pp

Pull Request - State: closed - Opened by kvitoslava-yarish about 2 months ago

#255 - Refactor manual pydantics for scanpy pl agents

Pull Request - State: open - Opened by mengerj about 2 months ago - 9 comments

#254 - Added create runnable test for Anndata

Pull Request - State: closed - Opened by vd-dragan21 about 2 months ago - 1 comment

#254 - Added create runnable test for Anndata

Pull Request - State: closed - Opened by vd-dragan21 about 2 months ago - 1 comment

#250 - Develop benchmarking test cases for AnnData IO Operations

Issue - State: open - Opened by anisdismail about 2 months ago - 1 comment

#249 - Create pydantic classes and mock test for scanpy pp module

Pull Request - State: closed - Opened by kvitoslava-yarish about 2 months ago

#249 - Create pydantic classes and mock test for scanpy pp module

Pull Request - State: closed - Opened by kvitoslava-yarish about 2 months ago

#248 - Create pydantic classes and mock test for scanpy pp module

Pull Request - State: closed - Opened by kvitoslava-yarish about 2 months ago

#248 - Create pydantic classes and mock test for scanpy pp module

Pull Request - State: closed - Opened by kvitoslava-yarish about 2 months ago

#246 - Refactor manual pydantics

Pull Request - State: closed - Opened by mengerj about 2 months ago

#246 - Refactor manual pydantics

Pull Request - State: closed - Opened by mengerj about 2 months ago

#245 - Refactor manual creation of pydantic classes

Issue - State: open - Opened by mengerj about 2 months ago - 3 comments

#245 - Refactor manual creation of pydantic classes

Issue - State: open - Opened by mengerj about 2 months ago - 3 comments

#244 - Fix_benchmark_sc_plot

Pull Request - State: closed - Opened by MDLDan about 2 months ago

#244 - Fix_benchmark_sc_plot

Pull Request - State: closed - Opened by MDLDan about 2 months ago

#243 - Refactor query builder to functionalize create_runnable

Issue - State: open - Opened by vd-dragan21 about 2 months ago

#243 - Refactor query builder to functionalize create_runnable

Issue - State: open - Opened by vd-dragan21 about 2 months ago

#242 - Cereate API function calling module for scanpy pp

Issue - State: open - Opened by kvitoslava-yarish about 2 months ago

#242 - Cereate API function calling module for scanpy pp

Issue - State: open - Opened by kvitoslava-yarish about 2 months ago

#241 - Generic function pydantic classes

Pull Request - State: closed - Opened by mengerj about 2 months ago

#241 - Generic function pydantic classes

Pull Request - State: closed - Opened by mengerj about 2 months ago

#240 - Client.init() got an unexpected keyword argument 'proxies'

Issue - State: open - Opened by stefanches7 about 2 months ago - 1 comment
Labels: bug

#240 - Client.init() got an unexpected keyword argument 'proxies'

Issue - State: open - Opened by stefanches7 about 2 months ago - 1 comment
Labels: bug

#239 - Resolve merge conflicts

Pull Request - State: closed - Opened by anisdismail about 2 months ago

#239 - Resolve merge conflicts

Pull Request - State: closed - Opened by anisdismail about 2 months ago

#238 - Add the scanpy tool `tl` modules to API agent, next and closing steps.

Pull Request - State: closed - Opened by bastienchassagnol about 2 months ago - 1 comment

#238 - Add the scanpy tool `tl` modules to API agent, next and closing steps.

Pull Request - State: closed - Opened by bastienchassagnol about 2 months ago - 1 comment

#237 - Instill system prompts in conversation using the conversation init

Issue - State: open - Opened by slobentanzer about 2 months ago - 1 comment

#237 - Instill system prompts in conversation using the conversation init

Issue - State: open - Opened by slobentanzer about 2 months ago - 1 comment

#235 - added support for concatenation operations in `anndata`

Issue - State: open - Opened by anisdismail about 2 months ago - 1 comment

#234 - first version of a function to build pydantic classes for all functions

Pull Request - State: closed - Opened by mengerj about 2 months ago

#234 - first version of a function to build pydantic classes for all functions

Pull Request - State: closed - Opened by mengerj about 2 months ago

#233 - add generic formatter

Pull Request - State: closed - Opened by slobentanzer about 2 months ago

#233 - add generic formatter

Pull Request - State: closed - Opened by slobentanzer about 2 months ago

#232 - Add the scanpy tool `tl` modules to API agent.

Pull Request - State: closed - Opened by bastienchassagnol about 2 months ago
Labels: enhancement

#232 - Add the scanpy tool `tl` modules to API agent.

Pull Request - State: closed - Opened by bastienchassagnol about 2 months ago
Labels: enhancement

#230 - Create generic method to generate a pydantic class for each function in a module:

Issue - State: open - Opened by mengerj about 2 months ago - 2 comments

#230 - Create generic method to generate a pydantic class for each function in a module:

Issue - State: open - Opened by mengerj about 2 months ago - 2 comments

#229 - Anndata api integration

Pull Request - State: closed - Opened by noahbruderer about 2 months ago - 1 comment

#229 - Anndata api integration

Pull Request - State: closed - Opened by noahbruderer about 2 months ago - 1 comment

#228 - add the tools `tl` modules to API agent __init__.py

Pull Request - State: closed - Opened by bastienchassagnol about 2 months ago
Labels: enhancement

#228 - add the tools `tl` modules to API agent __init__.py

Pull Request - State: closed - Opened by bastienchassagnol about 2 months ago
Labels: enhancement

#227 - Update-openai

Pull Request - State: open - Opened by slobentanzer about 2 months ago

#227 - Update-openai

Pull Request - State: closed - Opened by slobentanzer about 2 months ago - 1 comment

#226 - Scanpy-pl

Pull Request - State: closed - Opened by slobentanzer about 2 months ago

#226 - Scanpy-pl

Pull Request - State: closed - Opened by slobentanzer about 2 months ago

#225 - Extended benchmarking cases

Pull Request - State: open - Opened by jwagner02 about 2 months ago

#225 - Extended benchmarking cases

Pull Request - State: open - Opened by jwagner02 about 2 months ago - 1 comment

#224 - Create `anndata` function calling modules

Issue - State: closed - Opened by noahbruderer about 2 months ago - 1 comment

#224 - Create `anndata` function calling modules

Issue - State: closed - Opened by noahbruderer about 2 months ago - 1 comment

#223 - Create `scverse` function calling modules

Issue - State: closed - Opened by slobentanzer about 2 months ago

#223 - Create `scverse` function calling modules

Issue - State: open - Opened by slobentanzer about 2 months ago

#222 - Create API function calling module for `scanpy` `tl`

Issue - State: open - Opened by mengerj about 2 months ago - 4 comments

#222 - Create API function calling module for `scanpy` `tl`

Issue - State: closed - Opened by mengerj about 2 months ago - 4 comments

#221 - Create API module for calling the `scanpy` `pl` module

Issue - State: closed - Opened by slobentanzer about 2 months ago - 3 comments

#221 - Create API module for calling the `scanpy` `pl` module

Issue - State: open - Opened by slobentanzer about 2 months ago - 3 comments

#220 - Fix-blast

Pull Request - State: closed - Opened by slobentanzer 2 months ago

#219 - Ruff

Pull Request - State: closed - Opened by slobentanzer 2 months ago

#218 - Docs update

Pull Request - State: closed - Opened by slobentanzer 2 months ago

#217 - Move API calling to separate page in docs

Issue - State: closed - Opened by slobentanzer 2 months ago

#215 - Implement Ruff linting

Issue - State: closed - Opened by slobentanzer 2 months ago

#213 - Relationship generation: allow no directionality

Issue - State: open - Opened by slobentanzer 3 months ago

#211 - BrAPi test

Pull Request - State: open - Opened by cpommier 3 months ago

#208 - Biotools-API

Pull Request - State: closed - Opened by slobentanzer 3 months ago

#206 - Benchmark: run on new GPT 4o model, maybe 'o1' as well?

Issue - State: open - Opened by slobentanzer 5 months ago - 1 comment
Labels: model request

#201 - Ubuntu 24: Python 3.12 leads to package incompatibility

Issue - State: open - Opened by slobentanzer 5 months ago - 1 comment

#158 - Language Option, Relevance Score,

Pull Request - State: open - Opened by WagnerJon 8 months ago - 2 comments

#144 - Gorilla models for API calls

Issue - State: open - Opened by slobentanzer 10 months ago - 1 comment
Labels: model request

#141 - Llama-3-instruct

Issue - State: closed - Opened by slobentanzer 10 months ago - 2 comments
Labels: model request

#102 - Benchmark

Pull Request - State: closed - Opened by slobentanzer about 1 year ago - 1 comment

#101 - Benchmark: skip open source tasks (subtasks) earlier

Issue - State: open - Opened by slobentanzer about 1 year ago