Commits · 5ba5f929c652d0f7ccf7d5723c7a200a5627b77f · ALMF / SVLT · GitLab

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Nov 11, 2024
- Implemented batch runner client, can lazy load accessors, still much to do · 5ba5f929
  Christopher Randolph Rhodes authored 4 months ago
  
  5ba5f929
Nov 10, 2024
- Added and tested endpoint to run all unfinished tasks · d4abdc40
  Christopher Randolph Rhodes authored 4 months ago
  
  d4abdc40
- Finished test deletion of accessors associated with a pipeline task_id · 1cb2c3ae
  Christopher Randolph Rhodes authored 4 months ago
  
  1cb2c3ae
- Removed notion on unloading data from accessor · e4e4e23e
  Christopher Randolph Rhodes authored 4 months ago
  
  e4e4e23e
- Added unload method · 08628f0c
  Christopher Randolph Rhodes authored 4 months ago
  
  08628f0c
- Completed lazy loading implementation at acccesor level · e78c0358
  Christopher Randolph Rhodes authored 4 months ago
  
  e78c0358
- File-backed accessors no longer keep file handle open; lazy loading passes in principle · 1aac54b4
  Christopher Randolph Rhodes authored 4 months ago
  
  1aac54b4
- load method returns data array, init assigns it · a8fb9158
  Christopher Randolph Rhodes authored 4 months ago
  
  a8fb9158
Nov 09, 2024
- Test covers failure originating in task execution · 69283c41
  Christopher Randolph Rhodes authored 4 months ago
  
  69283c41
- Test covers task API · 5c797626
  Christopher Randolph Rhodes authored 4 months ago
  
  5c797626
- Option to schedule pipeline as a task · 82d4eaf7
  Christopher Randolph Rhodes authored 4 months ago
  
  82d4eaf7
- Tests pass using task queue · 794d976c
  Christopher Randolph Rhodes authored 4 months ago
  
  794d976c
- Tasks runs, just need to hook up result with pipeline test · 2a3f7bab
  Christopher Randolph Rhodes authored 4 months ago
  
  2a3f7bab
- Implemented queue, basic endpoints, and first pipeline example. Did not yet test execution. · ff6e182d
  Christopher Randolph Rhodes authored 4 months ago
  
  ff6e182d
Nov 02, 2024
- Removed aggregation method, instead can filter by other classification results · 1819a0f6
  Christopher Randolph Rhodes authored 4 months ago
  
  1819a0f6
Nov 01, 2024
- IntensityThresholdInstanceMaskSegmentationModel enforces a mono image but... · ef72ee95
  Christopher Randolph Rhodes authored 4 months ago
  
  IntensityThresholdInstanceMaskSegmentationModel enforces a mono image but itself is not initiated with a channel
  ef72ee95
- Method to test whether accessor can be used as a mask · ee2d250e
  Christopher Randolph Rhodes authored 4 months ago
  
  ee2d250e
Oct 31, 2024
- Can filter ROI by minimum of height and width · a67869dc
  Christopher Randolph Rhodes authored 4 months ago
  
  a67869dc
- Can filter ROI by diagonal dimension, too · a76604bc
  Christopher Randolph Rhodes authored 4 months ago
  
  a76604bc
- Can also pass ndarray to PipelineTrace · e79f7a30
  Christopher Randolph Rhodes authored 4 months ago
  
  e79f7a30
- Skip first item when appending traces by default · 7266637c
  Christopher Randolph Rhodes authored 4 months ago
  
  7266637c
- Can append stacks for tracking pipelines · 423afe65
  Christopher Randolph Rhodes authored 4 months ago
  
  423afe65
- PatchStack no longer loses slice information when doing channel separation · a851ef4a
  Christopher Randolph Rhodes authored 4 months ago
  
  a851ef4a
- IlastikPixelClassifierModel can optionally rescale pxmap output to range of its input · b5d80b38
  Christopher Randolph Rhodes authored 4 months ago
  
  b5d80b38
- Simplified RoiSetWithDerivedChannels, now simply appends all derived channels... · 39c75c95
  Christopher Randolph Rhodes authored 4 months ago
  
  Simplified RoiSetWithDerivedChannels, now simply appends all derived channels in series. Test confirms that multichannel derived accessor is used.
  39c75c95
- Added option to crop list representation of patch stack · c038f5b1
  Christopher Randolph Rhodes authored 4 months ago
  
  c038f5b1
Oct 30, 2024
- Can create accessor that concatenates two channels · 18ace72f
  Christopher Randolph Rhodes authored 4 months ago
  
  18ace72f
- Ilastik pixel classifier calls batch mode for performance reasons; removed... · a6e13287
  Christopher Randolph Rhodes authored 4 months ago
  
  Ilastik pixel classifier calls batch mode for performance reasons; removed handling of ilastik.applets.featureSelection.opFeatureSelection.FeatureSelectionConstraintError; unsure if this remains a risk
  a6e13287
- Repaired get_list method of patch stack · 50d37fc0
  Christopher Randolph Rhodes authored 4 months ago
  
  50d37fc0
- RoiSet method to create an aggregate column based on dataframe query · 53d15e47
  Christopher Randolph Rhodes authored 4 months ago
  
  53d15e47
- Threshold object classifier using PatchStacks passes tests · 644b4e69
  Christopher Randolph Rhodes authored 4 months ago
  
  644b4e69
- Added and covered PatchStack dataframe with summary stats · 881f1fde
  Christopher Randolph Rhodes authored 4 months ago
  
  881f1fde
- Added and covered PatchStack dataframe with summary stats · 0f3f110c
  Christopher Randolph Rhodes authored 4 months ago
  
  0f3f110c
- Implemented patch stack data access functions · ddbf2ab6
  Christopher Randolph Rhodes authored 4 months ago
  
  ddbf2ab6
- Implemented and tested intensity threshold · a85d3d35
  Christopher Randolph Rhodes authored 4 months ago
  
  a85d3d35
- Fixed references to moved model · c0c7200a
  Christopher Randolph Rhodes authored 4 months ago
  
  c0c7200a
- Moved intensity gate model to RoiSet module · f9f86211
  Christopher Randolph Rhodes authored 4 months ago
  
  f9f86211
Oct 28, 2024
- Tests all pass once test client passes model parameters over query, not body. · 623f707c
  Christopher Randolph Rhodes authored 4 months ago
  
  623f707c
- Threshold models now take threshold relative to full data range; last two tests are hanging up · f8e3dcb7
  Christopher Randolph Rhodes authored 4 months ago
  
  f8e3dcb7
- Applied new model init parameterization to ilastik · 49e86683
  Christopher Randolph Rhodes authored 4 months ago
  
  49e86683