angelolab / toffy / 1844
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Add interactive tiled region overlay (#86)

* Initial commit of interactive display

* Add features (untested) to the tiled region interactive display

* Update save annotation function to work for both tiled regions and tma

* templates/generate_tiled_regions.ipynb

* Update notebook

* Fix formatting in test cases

* Ensure FOVs are named correctly in tiled regions

* Tiled region visualization test functions added

* Document tiled region notebook

* Remove extraneous comments

* More comment purging

* Update header of notebook to make consistent with tma notebook

* Delete extraneous tiled_region_fov save path

* Update toffy/tiling_utils.py

Co-authored-by: Noah F. Greenwald <noahfgreenwald@gmail.com>

* Address code review comments: first pass

* Final pass at code review (assert robustness to names with additional '_')

* Add status prints for tiling script to inform user of which ROIs have had FOVs generated

* Update the key in the print out statement

* Update tiling notebook with new documentation format

* Add tiled_region_prefix to the output file

* Add string formatting to Moly point setting prompts

* More doc changes

* Remove broken link

* Move documentation of directory structure

* Update name of tiled_regions_fov_path to tiled_region_path

* Add locking mechanism to prevent rectangles from interfering with each other during on_release

* Need to redraw the interactive figure when Patches are deleted

* Ensure figure refreshes for save annotation too

* Clarify documentation for paths

* Add documentation to immediately run Save Mapping if no FOVs need to be deselected

* Quotation OCD

* Simplify, simplify, simplify, simplify

* More doc fixes

* json_tiling_dir to tiled_regions_dir

* Adjust bounds for tiled_region_interactive tests so they don't fail (we're not asserting OOB for these)

* Add GIFs to notebook

* Address documentation fixes (more in line ... (continued)

2071 of 2188 relevant lines covered (94.65%)

0.95 hits per line

Jobs
ID Job ID Ran Files Coverage
1 1844.1 (MPLBACKEND=Agg) 0
94.65
 Travis Job 1844.1
Source Files on build 1844
Detailed source file information is not available for this build.