NL-BioImaging / biomero / 26874415141

90%

Build Type

push

github

Committed by web-flow

Commit Message

Dev bilayers (#29)

* Add mito segmentation model

* Read yaml descriptor format as well

* Update pyproject.toml

* Update pyproject.toml

* Generalise descriptor into cytomine descriptor

* Corrected docker image dict

* Fix command-line-flag

* Small fix

* Update slurm_client.py

* Update slurm-config.ini

* Remove tag in URL

* Update slurm_client.py

* Extended bilayers parameters

* Ensure general description

* Include bilayers types

* Update slurm-config.ini

* Generic wf schema support

* Added bilayers schema construction

* Use schema parser when getting descriptor

* Remove bilayer hacking, use generic format now

* Convert descriptor to dict

* Restore __init__

* underscore

* Fixed serialization

* Use docker type

* Update test_schema_parsers.py

* Put get_workflow_parameters back

* Simplified param type to omtype

* Set values if used for bilayers

* logging change and call to workflow_params

* Stupid f-string

* support value-choices

* Support dropdown and support tag in docker

* Fix for bilayers tag

* Add second template for bilayers I/O

* Fix test after merge

* Handle output_set_dir as I/O param too

* Parse more params in omero + test coverage

* Allow getting descr from URL directly

* Fix test

* Allow list of subtypes and formats

* Add (optional) advanced mode and value choice labels

* add number tests

* Allow clitags with =, add = to i/o calls

* Add other inputs support

* Add file attachment support

* add back the workflow_status

* Fix tests

* Add formats

* Update gh action

* Map outputs to their type instead of String

* new param

* Update constants

* Add more constants

* Use diff schema version

* Bump py version

* Bump versions of dependencies

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Co-authored-by: Joost de Folter <folterj@gmail.com>

Coverage Stats

328 of 360 new or added lines in 3 files covered. (91.11%)

100 existing lines in 2 files now uncovered.

3622 of 3996 relevant lines covered (90.64%)

0.91 hits per line