biobricks-ai/biobricks issues and pull requests

#43 - Python 3.8: TypeError: 'type' object is not subscriptable

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

#42 - SS-2: Add Odorants and Odorless Compounds

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

#41 - installing bricks is cap sensitive so loading doesn't always work

Issue - State: closed - Opened by tomlue 3 months ago

#40 - increase the number of threads for downloads

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

#39 - DB-1: Turn GlobalChem Into BRICK

Issue - State: open - Opened by Nickspizza001 4 months ago

#38 - SS-1: Potential New Biobricks

Issue - State: open - Opened by Sulstice 4 months ago - 1 comment

#37 - threading refactor

Pull Request - State: open - Opened by bhlieberman 6 months ago

#36 - Typo: `s/get_depencies/get_dependencies/g`

Pull Request - State: open - Opened by zmughal 6 months ago

#35 - Refactor threading in DownloadManager

Pull Request - State: closed - Opened by bhlieberman 6 months ago - 3 comments

#34 - `biobricks install openfda` is not working

Issue - State: open - Opened by zmughal 7 months ago

#32 - data description in the .bb/linkml.yaml becomes the source of truth for brick readers

Issue - State: open - Opened by tomlue 8 months ago

#30 - add data description to the linkml.yaml

Issue - State: open - Opened by tomlue 8 months ago

#29 - iterate through bricks and add .bb directory with linkml.yaml

Issue - State: open - Opened by tomlue 8 months ago - 2 comments

#28 - biobricks should be required to have the .bb directory

Issue - State: open - Opened by tomlue 8 months ago - 1 comment

#27 - brick metadata

Issue - State: open - Opened by tomlue 8 months ago

#26 - need more clarity in the terminal when we ask for a token. Can we copy what `gh` does?

Issue - State: open - Opened by tomlue 8 months ago

#25 - Checking downloaded files: after download and on reinstall

Issue - State: open - Opened by zmughal 8 months ago - 1 comment

#24 - after downloading a brick generate a summary report

Issue - State: open - Opened by tomlue 9 months ago

#23 - Only add to git safe.directory when needed

Issue - State: open - Opened by zmughal 9 months ago

#22 - Refactor downloader

Pull Request - State: closed - Opened by zmughal 9 months ago - 1 comment

#21 - install pubchem and chembl seems to be having issues?

Issue - State: closed - Opened by tomlue 9 months ago

#20 - when running the tests don't overwrite the .biobricks config

Issue - State: closed - Opened by tomlue 9 months ago - 1 comment

#19 - add parallel downloading

Issue - State: closed - Opened by tomlue 9 months ago - 1 comment

#18 - Biobricks Fails on Windows for Users Without Symlink Capabilities

Issue - State: closed - Opened by tomlue 9 months ago

#17 - get pipx install biobricks working

Issue - State: closed - Opened by tomlue 10 months ago - 1 comment

#16 - Pushing a single directory (e.g., `brick/`) with `dvc` then pulling fails

Issue - State: closed - Opened by zmughal 11 months ago - 1 comment

#15 - Regression with biobricks-0.2.0: file not found error for missing directory `data/`

Issue - State: closed - Opened by zmughal 12 months ago - 1 comment
Labels: bug

#14 - cannot uninstall bricks

Issue - State: closed - Opened by tomlue about 1 year ago

#13 - When multiple users are using the same biobricks library there are ownership issues

Issue - State: closed - Opened by tomlue about 1 year ago - 1 comment

#12 - Upgrading brick: missing remove subcommand

Issue - State: closed - Opened by zmughal about 1 year ago

#11 - Data downloads are too big for clinvar download

Issue - State: closed - Opened by svsuresh about 1 year ago - 2 comments

#10 - Logging should go to stderr

Issue - State: closed - Opened by zmughal about 1 year ago

#9 - Broken requirements

Issue - State: closed - Opened by AndresMpa over 1 year ago

#8 - Issue with loading CTDbase brick

Issue - State: closed - Opened by Larsdegroot over 1 year ago - 2 comments
Labels: question

#7 - add a biobricks update function to cli

Issue - State: open - Opened by tomlue over 1 year ago

#6 - `biobricks add` duplicates dependencies in dependencies.txt when they are added twice

Issue - State: closed - Opened by tomlue over 1 year ago

#5 - add environmental variable overrides for config

Issue - State: open - Opened by tomlue over 1 year ago

#4 - add logging to bb.pull function with progress bars

Issue - State: closed - Opened by tomlue almost 2 years ago

#3 - add nested namespaces to biobrick load function

Issue - State: open - Opened by tomlue almost 2 years ago

#2 - Add email to config and generate custom token

Issue - State: closed - Opened by tomlue almost 2 years ago - 1 comment

#1 - bb.load('chemharmony') gives empty namespace

Issue - State: open - Opened by tomlue almost 2 years ago

GitHub / biobricks-ai/biobricks issues and pull requests