Curtis Rueden
Curtis Rueden
This issue describes a blanket problem that we may want to file into separate issues on a per-artifact basis. There will always be some discrepancies between what is built from...
Some third party dependencies have a different version uploaded to the Fiji update site than is declared in Maven POM(s). This results in a "Locally modified" discrepancy for that library....
From Ann Wheeler: > This all needs to be scriptable so if one has 100 - 200 images Fiji can munch through them and generate an results file exportable to...
From Ann Wheeler: > menu functionality e.g. selecting what to colocalise and which coefficients are needed. This is implemented in colocalisation threshold (set options checkbox), though this is mathematically weaker...
The goal of the [Fiji Cookbook](http://imagej.net/Cookbook) was to migrate the functionality of the [MBF ImageJ](http://imagej.net/MBF) distribution. However, some plugins are definitely missing: e.g., the `RGB_Montage` plugin. There are probably others—we...
The [Delta F Up](https://github.com/fiji/cookbook/blob/master/cookbook_/src/main/java/Delta_F_up.java) plugin loops over all image slices, and does not differentiate between Z, T and C positions. It should do so if it truly intends to provide...
The [Delta F Down](https://github.com/fiji/cookbook/blob/master/cookbook_/src/main/java/Delta_F_down.java) plugin does not actually do anything. It has an empty for loop. [Reported by Christine Labno](https://list.nih.gov/cgi-bin/wa.exe?A2=IMAGEJ;31d1e6c5.1405).
We need to double check the licensing and authorship of all these plugins. I'm not sure whether the provenance is actually known in every case. Ideally our README would list,...
Right now, all the examples implement `ij.plugin.PlugIn`, which is the ImageJ 1.x interface for plugins. If the examples instead used `org.scijava.command.Command`, you could gain the advantages of SciJava parameterized modules,...
The following macro: ```javascript newImage("Untitled", "RGB ramp", 64, 64, 1); makeOval(16, 18, 35, 27); setForegroundColor(255, 255, 255); run("Fill", "slice"); run("Select None"); run("BlackHatJ ", "x=2 y=2"); ``` produces this result: ...