angelolab / ark-analysis / 1429
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Test utils (#203)

* better test_cols in dim reduction test

* created test utils and move some data_utils_test functions in

* paired xr, tiff generation added to test_utils

* restructured fill variable in test utils

* added clear directory method to test utils

* swap one test in load_imgs_from_mibitiff with new format

* switch to set order filling and remove unneeded functionality from test_utils

* test_load_imgs_from_mibitiff uses test_utils

* unabreviate test utils import and clarify xarray comparison function

* moved all channels testing for mibitiffs into load_imgs_from_mibitiff test function

* rewrite test_load_imgs_from_multitiff

* use test_utils in test_load_imgs_from_tree

* added label generation and testing for load_imgs_from_dir

* refactor generate deepcell input tests

* refactor test_combine_xarrays

* refactor crop test functions

* reduce sizes in test_split_img_stack

* refactored image stitching and img stack splitting test functions

* segmented df generator added to test utils and included in analysis testing

* added recursion to xarray comparison to loop over multiple dims

* move create_test_extraction_data to test_utils.py

* small refactor of test_compute_marker_counts

* chaned np.alls to np.array_equals and clarified args in image xarray creation function

* fixed all zero checks in data_utils_test

* clarified args in xarray label making function in test_compute_marker_counts

* small refactor of expression matrix generation test functions

* refactor of complete extraction matrix generation tests

* removed .DS_Stores (idk how they got added)

* corrected errors in refactor

* got tired of writing f strings for test points and channel names

* added some doc strings to test_utils

* image and xarrays have default row and col size in test utils generators

* clarified 4D to 3D conversion in marker_quantification_test

* default arg support for xarr... (continued)

981 of 1093 relevant lines covered (89.75%)

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Jobs
ID Job ID Ran Files Coverage
1 1429.1 (MPLBACKEND=Agg) 0
89.75
 Travis Job 1429.1
Source Files on build 1429
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