Code

Machine learning provider interface#631

Code

Open

Rui-Jesus wants to merge 54 commits intobioinformatics-ua:devbioinformatics-ua/dicoogle:devfrom BMDSoftware:new/machine-learning-providerBMDSoftware/dicoogle:new/machine-learning-providerCopy head branch name to clipboard

+4,381-39

Commits

Commits on Oct 1, 2024

• Implemented skeleton of MLProvider Interface and Servlets

  Rui-Jesus

  committed
  68a8a69

• Started implementation of build dataset endpoint

  Rui-Jesus

  committed
  7a0317c

• Added missing contributes

  Rui-Jesus

  committed
  27146b6

• Added new ImageWorkerInterface

  Rui-Jesus

  committed
  c8ee2a8

• Implemented new ImageWorker interface

  Rui-Jesus

  committed
  091aee5

• Removed image worker interface.

  Rui-Jesus

  committed
  2a2eebc

• Added new ImageWorkerInterface

  Rui-Jesus

  committed
  8ca7bf8

• Implemented new ImageWorker interface

  Rui-Jesus

  committed
  8c391d4

• Added ImageWorkerInterface to PlatformInterface

  Rui-Jesus

  committed
  b435067

• Changes to ImageROI and ImageWorker interfaces

  Rui-Jesus

  committed
  4dec4ec

• Removed unecessary dependency

  Rui-Jesus

  committed
  52d1643

• Removed Image worker interface. Introduced instead new module to extract WSI ROIs.

  Rui-Jesus

  committed
  bb21bf4

• Baseline ROI extractor servlet. Fully removed ImageWorkerInterface.

  Rui-Jesus

  committed
  0d87c2c

• Fixed compilation issues.

  Rui-Jesus

  committed
  268d7d3

• Finished implementation of ROI extractor. Added cache to make it faster.

  Rui-Jesus

  committed
  6633ada

• Moved some code into roi extractor.

  Rui-Jesus

  committed
  863dbd8

• Removed unused import.

  Rui-Jesus

  committed
  969beb0

• Started implementation of makePrediction endpoint.

  Rui-Jesus

  committed
  9d09bd6

• Finished baseline makePrediction endpoint.

  Rui-Jesus

  committed
  5afed6a

• Adjustments to makePrediction endpoint.

  Rui-Jesus

  committed
  eaf0de6

• Fixed a bug in roi extractor.

  Rui-Jesus

  committed
  bf4b495

• Added missing dependency. Removed duplicated dependencies.

  Rui-Jesus

  committed
  62f523a

• Fixed potential issue with dicoogle not initializing when a dicom provider was not set.

  Rui-Jesus

  committed
  d707dc1

• Fixed bug in annotation coordinate rescaling

  Rui-Jesus

  committed
  bba57d2

• ROI extractor now supports other shapes such as polygons and ellipses

  Rui-Jesus

  committed
  292e679

• Fixed issues with ellipse ROIs. Some code improvements.

  Rui-Jesus

  committed
  b11cfcb

• Removed problematic import

  Rui-Jesus

  committed
  e9ae2d6

• Fixed some compilation issues

  Rui-Jesus

  committed
  902fcb0

• Implemented list models endpoint. Changed make prediction endpoint to receive a model id.

  Rui-Jesus

  committed
  7d431e7

• Added new train model signature do provider interface. Renamed createDataset signature to dataStore. Added new server setting to enable WSI operation. Some code adjustments.

  Rui-Jesus

  committed
  3a7b451

• Improvements to datastore endpoint. New Train endpoint.

  Rui-Jesus

  committed
  94ed3d9

• New endpoints implemented. Code improvements.

  Rui-Jesus

  committed
  14d167c

• Re-organization of code to remove dcm4che3 dependency from sdk.

  Rui-Jesus

  committed
  90b2631

• Removed unecessary interfaces from MLProvider. Infer endpoint can now return DICOM Seg files.

  Rui-Jesus

  committed
  2f9c929

• Changed type of DICOM SEG. Improved make prediction servlet

  Rui-Jesus

  committed
  a8671dc

• Applied code review

  Rui-Jesus

  committed
  4e300a8

• New isAvailable method for mlprovider plugins. MLlabel.java extended with DICOM codes. Several code improvements.

  Rui-Jesus

  committed
  ce01b7c

• Code cleanup. More documentation added.

  Rui-Jesus

  committed
  eaa34c3

• Code cleanup. More documentation added.

  Rui-Jesus

  committed
  ad5f970

• Updated API docs with new endpoints

  Rui-Jesus

  committed
  22cd7fb

• Applied code review suggestions

  Rui-Jesus

  committed
  6648cb0

• Added license headers

  Rui-Jesus

  committed
  da55375

• Apply suggestions from code review

  Show description for 44c63f9
  

  Rui-Jesus

  and

  Enet4

  committed
  44c63f9

• Added documentation. Fixed issue with previous commit

  Rui-Jesus

  committed
  667b971

• Updated version

  Rui-Jesus

  committed
  8a217cb

• Some corrections to MLInference.java

  Rui-Jesus

  committed
  d5bf8c6

• Added capacity to define model parameters.

  Rui-Jesus

  committed
  0cd1d9b

• Started implementation of labeled datastore endpoint. Improvements to data models.

  Rui-Jesus

  committed
  dcb1667

• Added new model parameter to allow the specification of a preferred magnification level.

  Rui-Jesus

  committed
  56a8fd2

• Reworked bulk annotation to be compliant with the standard. Applied code suggestions.

  Rui-Jesus

  committed
  ee80127

• Implemented new getAvailableMethods and cache endpoints.

  Rui-Jesus

  committed
  9ade42e

• Added missing licenses.

  Rui-Jesus

  committed
  2115a69

• Added missing servlets and API documentation.

  Rui-Jesus

  committed
  14470f6

Commits on Dec 17, 2024

• auto-format code

  Enet4

  committed
  386ac92