Mark Hiner

Yen threshold differs from IJ1

4

[Sample Data](https://drive.google.com/file/d/1TlHlixXaKTOtpPTNgc4fqC8b3tFk0g6J/view?usp=sharing) When using `Image > Adjust > Threshold...` and selecting `Yen` to get the ImageJ 1.x threshold on a test image, we get:  Running a simple groovy script...

According to https://numpy.org/doc/stable/reference/arrays.scalars.html#numpy.int64, numpy.int64 can have many different aliases. This can lead to test failures on some platforms (Windows). However, numpy.int_ appears to consistent with the expected results for test_save_image_tiff_int32

Run the version check unit test on all platforms so that it runs on CI. Also fix the version string so this test passes.

**Describe the bug** When I start CellProfiler with a debug log level (e.g. `-L 10`) but also have a `logback.xml` defaulting to log-level `INFO`, debug output is not produced when...

Plugins with external dependencies CAN work with binary CP distributions

2

We got plugin modules working with binary CP distributions. To do so, any dependencies can be copied out of a conda environment's `lib/site-packages` into the top-level directory of the binary....

These three elements must all match for a plugin module to be discovered: * File name * Class name * Declared `module_name`  It seems that these items *can* be...

Remove the direct dependency on JPype and update the yml files to be compatible with RunImageJScript

RunImageJScript: improve param behavior

1

Fixes two bugs in the RunImageJScript: * Non-image parameters are no longer being aggressively claimed as images * Deleting parameters should now remove them appropriately

Support for List as an input type

7

It would be great if an input could be a List of a supported sub-type. The List widget would render plus and minus buttons to add or remove widgets of...