Workspace loading incomplete gating hierarchy

[ldrufuca]

Hi, thanks for the very useful package!

I recently encountered an unexpected behavior while loading a workspace instance. In particular it appears that the gating hierarchy tree is incompletely loaded. As a comment to the workspace loading routine I found the following note:

# Incomplete group tree: The collection of group gates is not # guaranteed to have the complete gate tree. This occurs if all # samples have a custom gate for a particular gate tree node.

but as I went back to flowjo it appears that while some samples have 'custom' gates, most of them share the same gating hierarchy as defined for the group with no modifications.

Incidentally I realized that the missing gating subtree starts with a 'NOT' boolean gate and it is the only boolean gate in the hierarchy though I do not know whether the two facts are related.

Could someone help me understanding what is happening?

[whitews]

Hi & apologies for the late response!

Would you be able to share the workspace (can be privately via email)? Or, even better, would be to attempt to replicate the issue using the 8-color data set in data/8_color_data_set.

Regards, Scott

[whitews]

OK, I created a workspace file incorporating the Boolean NOT gate and can confirm they do not get imported. These gates are implemented very differently in the XML structure and it'll take a bit to properly support them. Unfortunately, this won't make it in the upcoming 1.1 release but I'll get to it in the next one and keep this open in the meantime. Thanks for reporting this!