PMA.core 3.0.1

User Tools

Site Tools

Trace: • rootdir_security • meta_data • submitted_data • rootdir • working_with_annotations
working_with_annotations

Differences

This shows you the differences between two versions of the page.

Link to this comparison view

Both sides previous revisionPrevious revision
Next revision		Previous revision
working_with_annotations [2022/03/25 16:42] – yvesworking_with_annotations [2022/09/10 13:48] (current) – yves
Line 1: Line 1:
 ===== Working with annotations ===== ===== Working with annotations =====
- 
-==== Annotation types ==== 
  
 PMA.core supports three types of annotations PMA.core annotations, native annotations, and 3rd party annotations.  PMA.core supports three types of annotations PMA.core annotations, native annotations, and 3rd party annotations. 
  
 ^ Annotation type ^ Origin ^ Format ^ Read/Write ^ ^ Annotation type ^ Origin ^ Format ^ Read/Write ^
-| Pathomation | PMA.studio; SDK | WKT | Read/write | +| Pathomation | PMA.studio; SDK | [[https://en.wikipedia.org/wiki/Well-known_text_representation_of_geometry|WKT]] | Read/write | 
-| Native | Vendor-specific viewer; Pannotamic viewer; ImageScope | Embedded in the vendor file format | Read-only |+| Native | Vendor-specific viewer; Pannoramic viewer; ImageScope | Embedded in the vendor file format | Read-only |
 | Third-party | Indica Labs HALO; Definiens; Visiopharm | .Annotation XML; .XML; .MLD (binary) | Read-only | | Third-party | Indica Labs HALO; Definiens; Visiopharm | .Annotation XML; .XML; .MLD (binary) | Read-only |
  
 +==== Internal storage ==== 
 PMA.core uses its own internal format with the following structure: PMA.core uses its own internal format with the following structure:
-  * Geometry: based on WKT(Well-known text). Supports the following shapes //Polygon, Linestring, Point and Multipoint// +  * Geometry: based on WKT ([[https://en.wikipedia.org/wiki/Well-known_text_representation_of_geometry|Well-known text]]). Supports the following shapes //Polygon, Linestring, Point and Multipoint// 
-  * Color: the outline color in html format+  * Color: the outline color in [[https://www.w3schools.com/html/html_colors.asp|html format]]
   * Fill Color: the fill color(if any), only valid for closed shapes like polygon   * Fill Color: the fill color(if any), only valid for closed shapes like polygon
   * Classification: A text specifying the classification of an annotation like tumor, necrosis etc.   * Classification: A text specifying the classification of an annotation like tumor, necrosis etc.
Line 21: Line 20:
   * Indica Labs //.annotations//    * Indica Labs //.annotations// 
   * Aperio //.xml//   * Aperio //.xml//
 +
 +
 ==== Creating and saving ==== ==== Creating and saving ====
-== PMA.core annotations ==+ 
 +=== PMA.core annotations ===
  
 For reading the PMA.core annotations for a slide you can use the API call [[https://docs.pathomation.com/pma.core.api/#/Api/PMA.Services.Api.HistoScope.GetAnnotations|GetAnnotations]], that returns all PMA.core annotation in json format. For reading the PMA.core annotations for a slide you can use the API call [[https://docs.pathomation.com/pma.core.api/#/Api/PMA.Services.Api.HistoScope.GetAnnotations|GetAnnotations]], that returns all PMA.core annotation in json format.
Line 28: Line 30:
 All other PMA.core annotations functionality is provided via the [[https://docs.pathomation.com/pma.core.api/#/Api/PMA.Services.Api.HistoScope.SaveAnnotations|SaveAnnotations]] API call. This call can create new, update and delete many annotations in one API call. PMA.core also provides the functionality to get the length and/or the surface area for already saved annotations via the [[https://docs.pathomation.com/pma.core.api/#/Api/PMA.Services.Api.HistoScope.GetAnnotationDistance|GetAnnotationDistance]] and [[https://docs.pathomation.com/pma.core.api/#/Api/PMA.Services.Api.HistoScope.GetAnnotationSurfaceArea|GetAnnotationSurfaceArea]] API calls. All other PMA.core annotations functionality is provided via the [[https://docs.pathomation.com/pma.core.api/#/Api/PMA.Services.Api.HistoScope.SaveAnnotations|SaveAnnotations]] API call. This call can create new, update and delete many annotations in one API call. PMA.core also provides the functionality to get the length and/or the surface area for already saved annotations via the [[https://docs.pathomation.com/pma.core.api/#/Api/PMA.Services.Api.HistoScope.GetAnnotationDistance|GetAnnotationDistance]] and [[https://docs.pathomation.com/pma.core.api/#/Api/PMA.Services.Api.HistoScope.GetAnnotationSurfaceArea|GetAnnotationSurfaceArea]] API calls.
  
-== 3rd Party annotations ==+=== 3rd Party annotations ===
  
 PMA.core can leverage the use of 3rd party annotations via the External Files interface and the associated API calls.  PMA.core can leverage the use of 3rd party annotations via the External Files interface and the associated API calls. 
working_with_annotations.1648222971.txt.gz · Last modified: by yves
Donate Powered by PHP Valid HTML5 Valid CSS Driven by DokuWiki