bioimageflow
Main-process orchestrator for BioImageFlow workflows.
This package builds workflow DAGs, resolves column bindings, executes tools, and publishes cache records and run views.
Worker-safe tool authoring primitives live in bioimageflow-core; optional domain tools live in separate bioimageflow-*-tools packages.
Install:
pip install bioimageflow
Install the optional distributed runtime when using ParslEngine:
pip install "bioimageflow[parsl]"
Install the PSI/J cluster orchestrator launcher with Parsl:
pip install "bioimageflow[parsl,psij]"
For workspace development, use the repository root:
uv sync
uv run pytest packages/bioimageflow tests
Wetlands worker environments install bioimageflow-core independently from the orchestrator environment.
By default WetlandsEnvManager injects bioimageflow-core==<installed version> for reproducible runtime environments.
Set BIOIMAGEFLOW_USE_LOCAL_CORE=1 while developing from a source checkout to inject the local editable bioimageflow-core project into newly created worker environments.
Existing Wetlands workspaces are not migrated automatically, so recreate stale tool workspaces after changing this setting.
1 maintainer
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
Built Distribution
Filter files by name, interpreter, ABI, and platform.
If you're not sure about the file name format, learn more about wheel file names.
Copy a direct link to the current filters
File details
Details for the file bioimageflow-0.2.1.tar.gz.
File metadata
- Download URL: bioimageflow-0.2.1.tar.gz
- Upload date:
- Size: 250.0 kB
- Tags: Source
- Uploaded using Trusted Publishing? Yes
- Uploaded via:
uv/0.10.9 {"installer":{"name":"uv","version":"0.10.9","subcommand":["publish"]},"python":null,"implementation":{"name":null,"version":null},"distro":{"name":"Ubuntu","version":"24.04","id":"noble","libc":null},"system":{"name":null,"release":null},"cpu":null,"openssl_version":null,"setuptools_version":null,"rustc_version":null,"ci":true}
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 |
3b7fed6df4941bcd8f5814a65d37150702da1fddff4b8462dbc965052ca1c86b
|
|
| MD5 |
561a3746ebd648d77b9b3d1041f56c45
|
|
| BLAKE2b-256 |
6b8453eddabac536018288b9ecd665b21af2324c414b27580d485c0c84048b4f
|
File details
Details for the file bioimageflow-0.2.1-py3-none-any.whl.
File metadata
- Download URL: bioimageflow-0.2.1-py3-none-any.whl
- Upload date:
- Size: 321.2 kB
- Tags: Python 3
- Uploaded using Trusted Publishing? Yes
- Uploaded via:
uv/0.10.9 {"installer":{"name":"uv","version":"0.10.9","subcommand":["publish"]},"python":null,"implementation":{"name":null,"version":null},"distro":{"name":"Ubuntu","version":"24.04","id":"noble","libc":null},"system":{"name":null,"release":null},"cpu":null,"openssl_version":null,"setuptools_version":null,"rustc_version":null,"ci":true}
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 |
cc01ff3d6a6759972dc791fcfc6deb1cb8ff5e0eab3b49c4d48847a7526f19a9
|
|
| MD5 |
8f8569b28c75e3f616159b544aa9e6ed
|
|
| BLAKE2b-256 |
97741f9ea19cfdc21de3d1e052d3b673a5994a71d282a5d659e0844e590fe5bd
|
