'float' object is not subscriptable"
See original GitHub issueRan without modifications, running in the python:3-stretch docker container.
2019-05-06 22:08:10,702 - INFO - no display found. Using non-interactive Agg backend
2019-05-06 22:08:11,899 - WARNING - Configuration file not set (--config), using default: /var/www/HistoQC/config.ini
2019-05-06 22:08:11,902 - INFO - Pipeline will use these steps:
2019-05-06 22:08:11,903 - INFO - BasicModule getBasicStats
2019-05-06 22:08:12,267 - INFO - ClassificationModule byExampleWithFeatures:coverslip_edge
2019-05-06 22:08:12,402 - INFO - LightDarkModule getIntensityThresholdPercent:tissue
2019-05-06 22:08:12,404 - INFO - LightDarkModule getIntensityThresholdPercent:darktissue
2019-05-06 22:08:12,404 - INFO - BubbleRegionByRegion detectSmoothness
2019-05-06 22:08:12,406 - INFO - MorphologyModule removeFatlikeTissue
2019-05-06 22:08:12,408 - INFO - MorphologyModule fillSmallHoles
2019-05-06 22:08:12,408 - INFO - MorphologyModule removeSmallObjects
2019-05-06 22:08:12,409 - INFO - BlurDetectionModule identifyBlurryRegions
2019-05-06 22:08:12,410 - INFO - BasicModule finalProcessingSpur
2019-05-06 22:08:12,411 - INFO - BasicModule finalProcessingArea
2019-05-06 22:08:12,411 - INFO - HistogramModule compareToTemplates
2019-05-06 22:08:12,413 - INFO - HistogramModule getHistogram
2019-05-06 22:08:12,414 - INFO - BrightContrastModule getContrast
2019-05-06 22:08:12,415 - INFO - BrightContrastModule getBrightnessGray
2019-05-06 22:08:12,415 - INFO - BrightContrastModule getBrightnessByChannelinColorSpace:RGB
2019-05-06 22:08:12,416 - INFO - BrightContrastModule getBrightnessByChannelinColorSpace:YUV
2019-05-06 22:08:12,417 - INFO - DeconvolutionModule seperateStains
2019-05-06 22:08:12,418 - INFO - SaveModule saveFinalMask
2019-05-06 22:08:12,419 - INFO - SaveModule saveThumbnails
2019-05-06 22:08:12,420 - INFO - BasicModule finalComputations
2019-05-06 22:08:12,420 - INFO - ----------
2019-05-06 22:08:12,421 - INFO - Number of files detected by pattern: 1
2019-05-06 22:08:12,422 - INFO - -----Working on: /images/apply.svs 1 of 1
2019-05-06 22:08:12,458 - INFO - apply.svs - getMag
2019-05-06 22:08:15,450 - INFO - apply.svs - getBasicStats
2019-05-06 22:08:15,450 - INFO - apply.svs - ClassificationModule.byExample: coverslip_edge
2019-05-06 22:08:15,453 - INFO - apply.svs - Training model ClassificationModule.byExample:coverslip_edge
2019-05-06 22:08:15,489 - ERROR - /images/apply.svs - - Error analyzing file (skipping): <class 'TypeError'> Inappropriate argument type. ("'float' object is not subscriptable", '/images/apply.svs', '<code object byExampleWithFeatures at 0x7fdde4d93e40, file "/var/www/HistoQC/ClassificationModule.py", line 143>')
2019-05-06 22:08:15,496 - INFO - ------------Done---------
2019-05-06 22:08:15,496 - INFO - These images failed (available also in error.log), warnings are listed in warnings column in output:
2019-05-06 22:08:15,496 - INFO - /images/apply.svs <class 'TypeError'> Inappropriate argument type. ("'float' object is not subscriptable", '/images/apply.svs', '<code object byExampleWithFeatures at 0x7fdde4d93e40, file "/var/www/HistoQC/ClassificationModule.py", line 143>')
2019-05-06 22:08:15,497 - INFO - Symlink to output directory created
Issue Analytics
- State:
- Created 4 years ago
- Comments:27 (14 by maintainers)
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error caused by a difference between this version of frangi filter in skimage:
https://scikit-image.org/docs/dev/api/skimage.filters.html#skimage.filters.frangi
and this version:
https://scikit-image.org/docs/0.14.x/api/skimage.filters.html#frangi
requirements now has >=.15 for skimage
Thanks
On Wed, Jul 3, 2019 at 12:51 PM choosehappy notifications@github.com wrote: