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pytests for output paths mcorr, cnmf, cnmfe #10

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May 18, 2022
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pytests for output paths mcorr, cnmf, cnmfe #10

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9eceac6
pytests for output paths mcorr, cnmf, cnmfe
clewis7 May 18, 2022
2cf576f
fixing tests for output path mcorr, cnmfe, cnmf
clewis7 May 18, 2022
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111 changes: 103 additions & 8 deletions tests/test_core.py
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Original file line number Diff line number Diff line change
Expand Up @@ -133,18 +133,49 @@ def test_mcorr():
print(df.iloc[-1]['outputs']['traceback'])
assert df.iloc[-1]['outputs']['success'] is True
assert df.iloc[-1]['outputs']['traceback'] is None
assert vid_dir.joinpath(df.iloc[-1]['outputs']['mcorr-output-path']
) == \
vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}-mcorr_els__d1_60_d2_80_d3_1_order_F_frames_2000_.mmap')
# assert vid_dir.joinpath(df.iloc[-1]['outputs']['mcorr-output-path']
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remove these commented lines

# ) == \
# vid_dir.joinpath(
# f'{df.iloc[-1]["uuid"]}-mcorr_els__d1_60_d2_80_d3_1_order_F_frames_2000_.mmap')

# parentdir + df_output_name = get_full_data_path(df_output_name) = parentdir+manual_output_name
# Expected name = uuid+_mean.npy

#projections
#correlations

# test to check mmap output path
assert vid_dir.joinpath(df.iloc[-1]['outputs']['mcorr-output-path']
) == \
get_full_data_path(df.iloc[-1]['outputs']['mcorr-output-path']
)== \
vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}-mcorr_els__d1_60_d2_80_d3_1_order_F_frames_2000_.mmap')

# test to check mean-projection output path
assert vid_dir.joinpath(df.iloc[-1]['outputs']['mean-projection-path']) == \
get_full_data_path(df.iloc[-1]['outputs']['mean-projection-path']) == \
vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}_mean.npy')
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append projection, so _mean_projection.npy


# test to check std-projection output path
assert vid_dir.joinpath(df.iloc[-1]['outputs']['std-projection-path']) == \
get_full_data_path(df.iloc[-1]['outputs']['std-projection-path']) == \
vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}_std.npy')
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append projection


# test to check max-projection output path
assert vid_dir.joinpath(df.iloc[-1]['outputs']['max-projection-path']) == \
get_full_data_path(df.iloc[-1]['outputs']['max-projection-path']) == \
vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}_max.npy')
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append projection


# test to check correlation image output path
assert vid_dir.joinpath(df.iloc[-1]['outputs']['corr-img-path']) == \
get_full_data_path(df.iloc[-1]['outputs']['corr-img-path']) == \
vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}_cn.npy')


def test_cnmf():
set_parent_data_path(vid_dir)
Expand Down Expand Up @@ -223,16 +254,43 @@ def test_cnmf():
# Confirm output path is as expected
assert df.iloc[-1]['outputs']['success'] is True
assert df.iloc[-1]['outputs']['traceback'] is None


assert vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}.hdf5') == \
get_full_data_path(df.iloc[-1]['outputs']['cnmf-hdf5-path']) == \
vid_dir.joinpath(df.iloc[-1]['outputs']['cnmf-hdf5-path'])

# test to check mmap output path
assert vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}_cnmf-memmap__d1_60_d2_80_d3_1_order_C_frames_2000_.mmap') == \
get_full_data_path(df.iloc[-1]['outputs']['cnmf-memmap-path']) == \
vid_dir.joinpath(df.iloc[-1]['outputs']['cnmf-memmap-path']
)

assert vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}.hdf5') == \
get_full_data_path(df.iloc[-1]['outputs']['cnmf-hdf5-path']) == \
vid_dir.joinpath(df.iloc[-1]['outputs']['cnmf-hdf5-path'])
# test to check mean-projection output path
assert vid_dir.joinpath(df.iloc[-1]['outputs']['mean-projection-path']) == \
get_full_data_path(df.iloc[-1]['outputs']['mean-projection-path']) == \
vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}_mean.npy')

# test to check std-projection output path
assert vid_dir.joinpath(df.iloc[-1]['outputs']['std-projection-path']) == \
get_full_data_path(df.iloc[-1]['outputs']['std-projection-path']) == \
vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}_std.npy')

# test to check max-projection output path
assert vid_dir.joinpath(df.iloc[-1]['outputs']['max-projection-path']) == \
get_full_data_path(df.iloc[-1]['outputs']['max-projection-path']) == \
vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}_max.npy')

# test to check correlation image output path
assert vid_dir.joinpath(df.iloc[-1]['outputs']['corr-img-path']) == \
get_full_data_path(df.iloc[-1]['outputs']['corr-img-path']) == \
vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}_cn.npy')


def test_cnmfe():
Expand Down Expand Up @@ -320,6 +378,43 @@ def test_cnmfe():
get_full_data_path(df.iloc[-1]['outputs']['cnmf-memmap-path'])
assert vid_dir.joinpath(f'{df.iloc[-1]["uuid"]}.hdf5') == \
get_full_data_path(df.iloc[-1]['outputs']['cnmf-hdf5-path'])

# test to check mmap output path
assert vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}_cnmf-memmap__d1_60_d2_80_d3_1_order_C_frames_2000_.mmap') == \
get_full_data_path(df.iloc[-1]['outputs']['cnmf-memmap-path']) == \
vid_dir.joinpath(df.iloc[-1]['outputs']['cnmf-memmap-path']
)

# test to check mean-projection output path
assert vid_dir.joinpath(df.iloc[-1]['outputs']['mean-projection-path']) == \
get_full_data_path(df.iloc[-1]['outputs']['mean-projection-path']) == \
vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}_mean.npy')

# test to check std-projection output path
assert vid_dir.joinpath(df.iloc[-1]['outputs']['std-projection-path']) == \
get_full_data_path(df.iloc[-1]['outputs']['std-projection-path']) == \
vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}_std.npy')

# test to check max-projection output path
assert vid_dir.joinpath(df.iloc[-1]['outputs']['max-projection-path']) == \
get_full_data_path(df.iloc[-1]['outputs']['max-projection-path']) == \
vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}_max.npy')

# test to check correlation image output path
assert vid_dir.joinpath(df.iloc[-1]['outputs']['corr-img-path']) == \
get_full_data_path(df.iloc[-1]['outputs']['corr-img-path']) == \
vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}_cn.npy')

# test to check pnr image output path
assert vid_dir.joinpath(df.iloc[-1]['outputs']['pnr-image-path']) == \
get_full_data_path(df.iloc[-1]['outputs']['pnr-image-path']) == \
vid_dir.joinpath(
f'{df.iloc[-1]["uuid"]}_pn.npy')


def test_remove_item():
Expand Down