Add test coverage checks to CI

[caiw]

Fixes #199

[neukym]

It should generate this (the manual version):

Name                                                        Stmts   Miss  Cover
-------------------------------------------------------------------------------
kymata/__init__.py                                              0      0   100%
kymata/datasets/__init__.py                                     0      0   100%
kymata/datasets/data_root.py                                   38     18    53%
kymata/datasets/fsaverage.py                                   20      0   100%
kymata/datasets/sample.py                                      78     18    77%
kymata/entities/__init__.py                                     0      0   100%
kymata/entities/datatypes.py                                    8      0   100%
kymata/entities/expression.py                                 215     50    77%
kymata/entities/functions.py                                   12      2    83%
kymata/entities/iterables.py                                   20      3    85%
kymata/entities/sparse_data.py                                 26      0   100%
kymata/io/__init__.py                                           0      0   100%
kymata/io/config.py                                            23     13    43%
kymata/io/file.py                                              17      1    94%
kymata/io/nkg.py                                              140     11    92%
kymata/io/nkg_compatibility.py                                 84      1    99%
kymata/ippm/__init__.py                                         0      0   100%
kymata/ippm/constants.py                                        6      0   100%
kymata/ippm/custom_clusterers.py                              112      1    99%
kymata/ippm/data_tools.py                                     202     98    51%
kymata/ippm/denoising_strategies.py                           106      4    96%
kymata/ippm/ippm_builder.py                                    65      1    98%
kymata/ippm/ippm_plotter.py                                    93     46    51%
kymata/math/__init__.py                                         0      0   100%
kymata/math/p_values.py                                         7      0   100%
kymata/math/rounding.py                                         5      0   100%
kymata/math/vector.py                                          20      6    70%
kymata/plot/__init__.py                                         0      0   100%
kymata/plot/color.py                                            8      1    88%
kymata/plot/layouts.py                                         47      9    81%
kymata/plot/plot.py                                           351    129    63%
tests/__init__.py                                               0      0   100%
tests/test_config.py                                            3      0   100%
tests/test_datasets.py                                         36      0   100%
tests/test_expression.py                                      108      0   100%
tests/test_ippm_builder.py                                     60      0   100%
tests/test_ippm_custom_clusterers_integration_tests.py        111      0   100%
tests/test_ippm_custom_clusterers_unit_tests.py                84      0   100%
tests/test_ippm_data_tools.py                                  99      0   100%
tests/test_ippm_denoising_strategies_integration_tests.py      96      0   100%
tests/test_ippm_denoising_strategies_unit_tests.py            105      0   100%
tests/test_ippm_plotter.py                                     34      0   100%
tests/test_iterables.py                                        24      0   100%
tests/test_plotting.py                                         64      0   100%
tests/test_saveload_nkg.py                                    102      0   100%
tests/test_sparse.py                                           28      0   100%
tests/test_vector.py                                            9      0   100%
-------------------------------------------------------------------------------
TOTAL                                                        2666    412    85%

[github-actions]

Tests coverage table for 67dc212 commit.

Name	Stmts	Miss	Cover	Missing
kymata/init.py	0	0	100.0%
kymata/datasets/init.py	0	0	100.0%
kymata/datasets/data_root.py	38	18	52.63%	30-31 33-36 38 51-56 58 60 62-63
kymata/datasets/fsaverage.py	20	0	100.0%
kymata/datasets/sample.py	78	20	74.36%	47 53 62 67-68 79-81 105-106 117-119 124-125 136-138
kymata/entities/init.py	0	0	100.0%
kymata/entities/datatypes.py	8	0	100.0%
kymata/entities/expression.py	215	50	76.74%	151 189 193 197 203 207 210 287 350-355 365 375-377 379-387 398 400 470-474 477 485-486 488-494
kymata/entities/functions.py	12	2	83.33%	13
kymata/entities/iterables.py	20	3	85.0%	47
kymata/entities/sparse_data.py	26	0	100.0%
kymata/gridsearch/init.py	0	0	100.0%
kymata/gridsearch/plain.py	96	96	0.0%	1-3 5-7 9-14 16 19 83 85-87 90 92 95 97-100 102 107-111 114 116 119 127-132 134 137-140 143-152 154 160 162 164 166-168 170-171 173 175 177 190-191 197-198 208 210 213 250 253 256-258 261-264 266-268 271-273 277 279-281 284-285
kymata/io/init.py	0	0	100.0%
kymata/io/cli.py	19	19	0.0%	1 3 6 8 11 13 16 41 43-45 47-50 52 54-55
kymata/io/config.py	23	13	43.48%	25-26 44-50 72 75-76
kymata/io/file.py	17	1	94.12%
kymata/io/functions.py	68	68	0.0%	1-3 5-7 9-10 13 16 18 20-25 27-28 30-41 43 45 47-48 51-53 55 57 59-60 62-66 69-74 76 78 80-81 83 90
kymata/io/logging.py	2	2	0.0%
kymata/io/matlab.py	84	84	0.0%	1 3-4 6-8 10-12 15 17-22 25 27 30 39-41 45 51 55-56 59 61-66 68 70-75 78 80-83 85-86 89-90 103 111-113 115-118 121-123 125 129 133 138 146 154-156 158-159 162-164 166 168 171 175 183 187-188 191 195-196
kymata/io/nkg.py	140	11	92.14%	40-41 43 51 144 146 171 200 234 267
kymata/io/nkg_compatibility.py	84	1	98.81%
kymata/ippm/init.py	0	0	100.0%
kymata/ippm/builder.py	49	49	0.0%	1-3 5 7 10 13 19 65 68 70-72 74-77 87 89-90 93-94 96 101 103 105 107-108 112 114 116 118 120 125 127 130-131 133 147-149 151 163-164 166 168-169 171
kymata/ippm/constants.py	6	0	100.0%
kymata/ippm/custom_clusterers.py	112	1	99.11%
kymata/ippm/data_tools.py	202	98	51.49%	79-81 97-108 157-158 161-163 165-167 169-171 173-174 176-177 180-185 188-193 195-203 205-215 217 260 263 271 278 281 400-404 406-407 409-416 444 447-448 450 453-459 461
kymata/ippm/denoising_strategies.py	106	4	96.23%	98-99 149
kymata/ippm/ippm.py	11	11	0.0%	1 3-5 8-9 14-15
kymata/ippm/ippm_builder.py	65	1	98.46%
kymata/ippm/ippm_plotter.py	93	46	50.54%	13-14 17-23 25-26 28-29 31-33 35-39 41 43 70-72 103-104 159-161 163-166 168 170-176 178-179
kymata/ippm/plotter.py	89	89	0.0%	1 3-6 8 11-12 31-38 40-42 44-46 48-49 51-54 56 58 60-61 63 65-67 69-70 72-78 80-81 85 100-105 107 110-112 114-115 117 119 136-139 141 143-144 146-147 150-151 154-155 157 159 161 163 175-176 178-181 183-185
kymata/math/init.py	0	0	100.0%
kymata/math/combinatorics.py	12	0	100.0%
kymata/math/p_values.py	7	0	100.0%
kymata/math/rounding.py	5	0	100.0%
kymata/math/vector.py	20	6	70.0%
kymata/plot/init.py	0	0	100.0%
kymata/plot/color.py	8	1	87.5%
kymata/plot/layouts.py	47	9	80.85%	46 94 99
kymata/plot/plot.py	351	129	63.25%	54 66-67 72 83-84 88-89 94 101-102 106 140-145 148-152 154-156 158 215 224-226 230-233 237 242-243 246-247 266-270 272-276 281-283 379 386 389-390 409 411-414 416 418 425 440-441 455 536-537 539-540 547 556 612-613 615-616 618 626-630 632 634 651 732-733 735-740 742-746 748-749 751-754 756-757 760-764 766-772 774-776 778-779 781 783-784
kymata/preproc/init.py	0	0	100.0%
kymata/preproc/data_cleansing.py	297	297	0.0%	1-3 5-13 15-17 19 21-22 25 37-41 43-45 48 50 52 56 59 61 65-66 70-73 76-79 82-83 85 87 91-93 95 98 103-105 107 110 112 114 117-119 121-123 125-128 130-132 135 137-138 140-141 144 156-157 159 162 172-173 175-176 178 180 182 187 190 194 196 198-199 202-204 206 209 211 216 220 222 225-226 230 233 235-236 238-240 245 247-248 251-252 254-255 257 259-260 262 266 270-273 275-276 278 280 282 284 286 289 293-296 298-299 301 303 305 307 309 312 316-323 326 336 338-339 341-342 344-345 347-358 360-365 367-368 370 379-381 383 385-395 397 400-409 412-414 416-417 419 428-429 432-436 438 441 451 453-454 456-457 459-460 462 464 466 468 470-475 477 479-480 482-483 486 490-492 494 497-498 504-505 508-509 512-515 518-519 521 524 526 528 531 535 538-539 541-542 544-545 547 550 553-558 562 568 573-574 576 578 580 583 586 588
kymata/preproc/hexel_current_estimation.py	147	147	0.0%	1-5 7 9 12 18-20 22 24 107 134 137 142 147 155 157 159 162-164 168-170 172 174 176-177 179-180 182-183 185-186 188-189 192 194 208 212 216 218-223 225 229 232-233 236-237 240-241 246-247 252 258 264 272-273 278-280 286 292-293 300 302 304-317 319-325 327 329-332 334-337 339 344-346 348 361-362 364 377-378 380 393-394 396 409-410 412 425-426 428 441-442 446-448 450 452 454-455 457-458 460-461 463-464 466 468 471 476 479 481 485 492
kymata/preproc/premorph.py	21	21	0.0%	1-3 7 13 15-16 19 32-36 40 42 44 48 52-53 55
kymata/preproc/source.py	167	167	0.0%	1-5 7-9 11-12 14 17 31-32 34-35 37 39-40 42 44-47 49 51-52 54 56-57 59 61 63 65-67 69 73 75-77 81-83 85 89 92 94 97-103 105-106 108 111-112 117-118 121 123-124 134 136-142 147-149 156 159 161 163-164 193-194 196-203 205-221 223 226 232-235 237-240 243-249 254 258-263 266 304 308-309 313 317-318 323 326-327 330-335 338 340-341 344 346 349-350 353 355 357-358 360 363-365 367 369
TOTAL	2765	1464	47.05%

[neukym]

Getting closer ...

[neukym]

I suggest we try and fix the following related issues in the this issue:

• Unit test test_expression.py intermittently fails when run in CI #350
• Tests for gridsearch #124
• Tests for preprocessing pipeline #93
• Tests for plotting code #169
• Add tests for morph maps #151