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--- documents:120206pyip_cooking:python_imagej_cookbook [2018/12/18 22:50] – [Python + ImageJ, Fiji Cookbook] kota
+++ documents:120206pyip_cooking:python_imagej_cookbook [2020/11/26 07:16] – [Plugin: MorpholibJ] connected component labeling added. kota
@@ Line 221: / Line 221: @@
 print ff.getParent()
 print ff.getName()
+</code>
+==== Loading a textfile as String ====
+<code python linenums:1>
+path = "/Users/miura/data.txt"
+with open(inpath, 'r') as myfile:
+  data = myfile.read()
+print data
 </code>
@@ Line 1911: / Line 1919: @@
 h-dome is useful for spot detection in a noisy background. [[https://www.researchgate.net/publication/261206082_A_new_approach_for_spot_detection_in_total_internal_reflection_fluorescence_microscopy | For example, see this reference]]. The example here uses Plugin MiToBo, a huge collection of various components.
-<code python>
+<code:py>
 from de.unihalle.informatik.MiToBo.core.datatypes.images import MTBImage
 from de.unihalle.informatik.MiToBo.morphology import HDomeTransform3D
@@ Line 1925: / Line 1933: @@
 </code>
+===== Plugin: MorphoLibJ =====
+==== Connected Component 3D labeling ====
+<code:py>
+from ij import IJ, ImagePlus
+from inra.ijpb.binary import BinaryImages
+imp = IJ.getImage()
+connectivity = 6
+outbitDepth = 16
+outimp = BinaryImages.componentsLabeling(imp, connectivity, outbitDepth)
+outimp.setTitle(imp.getShortTitle() + "-labeled")
+outimp.show()
+</code>
@@ Line 2024: / Line 2050: @@
 See explanation in [[http://www.prasannatech.net/2008/09/implementing-java-interfaces-in-jython.html|here]].
+===== JAVADOCS =====
+  * 3D ImageJ Suite [[http://wiki.cmci.info/javaapi/mcib-javadoc/|JAVADOC]]
+    * [[https://github.com/mcib3d/mcib3d-core|Core Source]]
+    * [[https://github.com/mcib3d/mcib3d-plugins|Plugin Source]]
+  * 3D Viewer [[http://wiki.cmci.info/javaapi/3Dprocessor/|JAVADOC]]
+  * MultistackReg [[http://wiki.cmci.info/javaapi/multiStackReg_/|JAVADOC]]
 ====== Discussions? ======