rapidtide 3.0a14__py3-none-any.whl → 3.0.1__py3-none-any.whl

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (231) hide show
  1. rapidtide/Colortables.py +1 -1
  2. rapidtide/DerivativeDelay.py +1 -1
  3. rapidtide/OrthoImageItem.py +1 -1
  4. rapidtide/RapidtideDataset.py +3 -1
  5. rapidtide/RegressorRefiner.py +1 -1
  6. rapidtide/calcandfitcorrpairs.py +1 -1
  7. rapidtide/calccoherence.py +1 -1
  8. rapidtide/calcnullsimfunc.py +1 -1
  9. rapidtide/calcsimfunc.py +1 -1
  10. rapidtide/correlate.py +1 -1
  11. rapidtide/data/examples/src/test_findmaxlag.py +1 -1
  12. rapidtide/data/examples/src/testfmri +3 -2
  13. rapidtide/data/examples/src/testfuncs +1 -1
  14. rapidtide/data/examples/src/testhappy +12 -1
  15. rapidtide/data/examples/src/testmodels +33 -0
  16. rapidtide/data/models/model_cnn_w064_l13_fn20_fl08/loss.png +0 -0
  17. rapidtide/data/models/model_cnn_w064_l13_fn20_fl08/loss.txt +1 -0
  18. rapidtide/data/models/model_cnn_w064_l13_fn20_fl08/model.keras +0 -0
  19. rapidtide/data/models/model_cnn_w064_l13_fn20_fl08/model_meta.json +167 -0
  20. rapidtide/data/models/model_revised_tf2/model.keras +0 -0
  21. rapidtide/data/models/{model_serdar → model_revised_tf2}/model_meta.json +1 -1
  22. rapidtide/data/models/model_serdar2_tf2/model.keras +0 -0
  23. rapidtide/data/models/{model_serdar2 → model_serdar2_tf2}/model_meta.json +1 -1
  24. rapidtide/data/models/model_serdar_tf2/model.keras +0 -0
  25. rapidtide/data/models/{model_revised → model_serdar_tf2}/model_meta.json +1 -1
  26. rapidtide/dlfilter.py +325 -241
  27. rapidtide/externaltools.py +1 -1
  28. rapidtide/fMRIData_class.py +1 -1
  29. rapidtide/filter.py +1 -8
  30. rapidtide/fit.py +1 -8
  31. rapidtide/happy_supportfuncs.py +30 -1
  32. rapidtide/helper_classes.py +1 -1
  33. rapidtide/io.py +1 -1
  34. rapidtide/linfitfiltpass.py +1 -1
  35. rapidtide/makelaggedtcs.py +1 -1
  36. rapidtide/maskutil.py +1 -1
  37. rapidtide/miscmath.py +1 -8
  38. rapidtide/multiproc.py +1 -1
  39. rapidtide/patchmatch.py +1 -1
  40. rapidtide/peakeval.py +1 -1
  41. rapidtide/qualitycheck.py +1 -1
  42. rapidtide/refinedelay.py +1 -3
  43. rapidtide/refineregressor.py +1 -1
  44. rapidtide/resample.py +1 -1
  45. rapidtide/scripts/adjustoffset.py +1 -1
  46. rapidtide/scripts/aligntcs.py +1 -1
  47. rapidtide/scripts/applydlfilter.py +1 -1
  48. rapidtide/scripts/atlasaverage.py +1 -1
  49. rapidtide/scripts/atlastool.py +1 -1
  50. rapidtide/scripts/calcicc.py +1 -1
  51. rapidtide/scripts/calctexticc.py +1 -1
  52. rapidtide/scripts/calcttest.py +1 -1
  53. rapidtide/scripts/ccorrica.py +1 -1
  54. rapidtide/scripts/delayvar.py +2 -2
  55. rapidtide/scripts/diffrois.py +1 -1
  56. rapidtide/scripts/endtidalproc.py +1 -1
  57. rapidtide/scripts/fdica.py +1 -1
  58. rapidtide/scripts/filtnifti.py +1 -1
  59. rapidtide/scripts/filttc.py +1 -1
  60. rapidtide/scripts/fingerprint.py +1 -1
  61. rapidtide/scripts/fixtr.py +1 -1
  62. rapidtide/scripts/gmscalc.py +1 -1
  63. rapidtide/scripts/happy.py +1 -1
  64. rapidtide/scripts/happy2std.py +1 -1
  65. rapidtide/scripts/happywarp.py +1 -1
  66. rapidtide/scripts/histnifti.py +1 -1
  67. rapidtide/scripts/histtc.py +1 -1
  68. rapidtide/scripts/linfitfilt.py +1 -1
  69. rapidtide/scripts/localflow.py +1 -1
  70. rapidtide/scripts/mergequality.py +1 -1
  71. rapidtide/scripts/pairproc.py +1 -1
  72. rapidtide/scripts/pairwisemergenifti.py +1 -1
  73. rapidtide/scripts/physiofreq.py +1 -1
  74. rapidtide/scripts/pixelcomp.py +1 -1
  75. rapidtide/scripts/plethquality.py +1 -1
  76. rapidtide/scripts/polyfitim.py +1 -1
  77. rapidtide/scripts/proj2flow.py +1 -1
  78. rapidtide/scripts/rankimage.py +1 -1
  79. rapidtide/scripts/rapidtide.py +1 -1
  80. rapidtide/scripts/rapidtide2std.py +1 -1
  81. rapidtide/scripts/resamplenifti.py +1 -1
  82. rapidtide/scripts/resampletc.py +1 -1
  83. rapidtide/scripts/retrolagtcs.py +1 -1
  84. rapidtide/scripts/retroregress.py +1 -1
  85. rapidtide/scripts/roisummarize.py +1 -1
  86. rapidtide/scripts/runqualitycheck.py +1 -1
  87. rapidtide/scripts/showarbcorr.py +1 -1
  88. rapidtide/scripts/showhist.py +1 -1
  89. rapidtide/scripts/showstxcorr.py +1 -1
  90. rapidtide/scripts/showtc.py +1 -1
  91. rapidtide/scripts/showxcorr_legacy.py +1 -1
  92. rapidtide/scripts/showxcorrx.py +1 -1
  93. rapidtide/scripts/showxy.py +1 -1
  94. rapidtide/scripts/simdata.py +1 -1
  95. rapidtide/scripts/spatialdecomp.py +1 -1
  96. rapidtide/scripts/spatialfit.py +1 -1
  97. rapidtide/scripts/spatialmi.py +1 -1
  98. rapidtide/scripts/spectrogram.py +1 -1
  99. rapidtide/scripts/stupidramtricks.py +1 -1
  100. rapidtide/scripts/synthASL.py +1 -1
  101. rapidtide/scripts/tcfrom2col.py +1 -1
  102. rapidtide/scripts/tcfrom3col.py +1 -1
  103. rapidtide/scripts/temporaldecomp.py +1 -1
  104. rapidtide/scripts/testhrv.py +1 -1
  105. rapidtide/scripts/threeD.py +1 -1
  106. rapidtide/scripts/tidepool.py +1 -1
  107. rapidtide/scripts/variabilityizer.py +1 -1
  108. rapidtide/simfuncfit.py +1 -1
  109. rapidtide/stats.py +1 -8
  110. rapidtide/tests/cleanposttest +1 -1
  111. rapidtide/tests/resethappytargets +1 -1
  112. rapidtide/tests/resetrapidtidetargets +1 -1
  113. rapidtide/tests/resettargets +1 -1
  114. rapidtide/tests/runlocaltest +1 -1
  115. rapidtide/tests/showkernels +1 -1
  116. rapidtide/tests/test_aliasedcorrelate.py +1 -1
  117. rapidtide/tests/test_aligntcs.py +1 -1
  118. rapidtide/tests/test_calcicc.py +1 -1
  119. rapidtide/tests/test_congrid.py +1 -1
  120. rapidtide/tests/test_correlate.py +1 -1
  121. rapidtide/tests/test_corrpass.py +1 -1
  122. rapidtide/tests/test_delayestimation.py +1 -1
  123. rapidtide/tests/test_doresample.py +1 -1
  124. rapidtide/tests/test_fastresampler.py +1 -1
  125. rapidtide/tests/test_findmaxlag.py +1 -1
  126. rapidtide/tests/test_fullrunhappy_v1.py +2 -2
  127. rapidtide/tests/test_fullrunhappy_v2.py +2 -2
  128. rapidtide/tests/test_fullrunhappy_v3.py +2 -2
  129. rapidtide/tests/test_fullrunhappy_v4.py +2 -2
  130. rapidtide/tests/test_fullrunhappy_v5.py +1 -3
  131. rapidtide/tests/test_fullrunrapidtide_v1.py +1 -1
  132. rapidtide/tests/test_fullrunrapidtide_v2.py +3 -1
  133. rapidtide/tests/test_fullrunrapidtide_v3.py +1 -1
  134. rapidtide/tests/test_fullrunrapidtide_v4.py +1 -1
  135. rapidtide/tests/test_fullrunrapidtide_v5.py +1 -1
  136. rapidtide/tests/test_fullrunrapidtide_v6.py +1 -1
  137. rapidtide/tests/test_io.py +1 -1
  138. rapidtide/tests/test_linfitfiltpass.py +1 -1
  139. rapidtide/tests/test_mi.py +1 -1
  140. rapidtide/tests/test_miscmath.py +1 -1
  141. rapidtide/tests/test_motionregress.py +1 -1
  142. rapidtide/tests/test_nullcorr.py +1 -1
  143. rapidtide/tests/test_padvec.py +1 -1
  144. rapidtide/tests/test_phaseanalysis.py +1 -1
  145. rapidtide/tests/test_rapidtideparser.py +1 -1
  146. rapidtide/tests/test_refinedelay.py +1 -2
  147. rapidtide/tests/test_runmisc.py +1 -1
  148. rapidtide/tests/test_sharedmem.py +1 -1
  149. rapidtide/tests/test_simulate.py +1 -1
  150. rapidtide/tests/test_stcorrelate.py +1 -1
  151. rapidtide/tests/test_timeshift.py +1 -1
  152. rapidtide/tests/test_valtoindex.py +1 -1
  153. rapidtide/tests/test_zRapidtideDataset.py +1 -1
  154. rapidtide/tests/utils.py +1 -1
  155. rapidtide/transformerdlfilter.py +2 -4
  156. rapidtide/util.py +37 -14
  157. rapidtide/voxelData.py +278 -0
  158. rapidtide/wiener.py +1 -1
  159. rapidtide/wiener2.py +1 -1
  160. rapidtide/workflows/adjustoffset.py +1 -1
  161. rapidtide/workflows/aligntcs.py +1 -1
  162. rapidtide/workflows/applydlfilter.py +20 -65
  163. rapidtide/workflows/atlasaverage.py +1 -1
  164. rapidtide/workflows/atlastool.py +1 -1
  165. rapidtide/workflows/calctexticc.py +1 -1
  166. rapidtide/workflows/ccorrica.py +1 -1
  167. rapidtide/workflows/cleanregressor.py +243 -0
  168. rapidtide/workflows/delayestimation.py +488 -0
  169. rapidtide/workflows/delayvar.py +1 -1
  170. rapidtide/workflows/diffrois.py +1 -1
  171. rapidtide/workflows/endtidalproc.py +1 -1
  172. rapidtide/workflows/fdica.py +1 -1
  173. rapidtide/workflows/filtnifti.py +1 -1
  174. rapidtide/workflows/filttc.py +1 -1
  175. rapidtide/workflows/fixtr.py +1 -1
  176. rapidtide/workflows/gmscalc.py +1 -1
  177. rapidtide/workflows/happy.py +49 -3
  178. rapidtide/workflows/happy2std.py +1 -1
  179. rapidtide/workflows/happy_parser.py +30 -6
  180. rapidtide/workflows/histnifti.py +1 -1
  181. rapidtide/workflows/histtc.py +1 -1
  182. rapidtide/workflows/linfitfilt.py +1 -1
  183. rapidtide/workflows/localflow.py +1 -1
  184. rapidtide/workflows/mergequality.py +1 -1
  185. rapidtide/workflows/niftidecomp.py +1 -1
  186. rapidtide/workflows/niftistats.py +1 -1
  187. rapidtide/workflows/pairproc.py +1 -1
  188. rapidtide/workflows/pairwisemergenifti.py +1 -1
  189. rapidtide/workflows/parser_funcs.py +1 -1
  190. rapidtide/workflows/physiofreq.py +1 -1
  191. rapidtide/workflows/pixelcomp.py +1 -1
  192. rapidtide/workflows/plethquality.py +1 -1
  193. rapidtide/workflows/polyfitim.py +1 -1
  194. rapidtide/workflows/proj2flow.py +1 -1
  195. rapidtide/workflows/rankimage.py +1 -1
  196. rapidtide/workflows/rapidtide.py +163 -679
  197. rapidtide/workflows/rapidtide2std.py +1 -1
  198. rapidtide/workflows/rapidtide_parser.py +1 -98
  199. rapidtide/workflows/regressfrommaps.py +4 -48
  200. rapidtide/workflows/resamplenifti.py +1 -1
  201. rapidtide/workflows/resampletc.py +1 -1
  202. rapidtide/workflows/retrolagtcs.py +1 -1
  203. rapidtide/workflows/retroregress.py +1 -1
  204. rapidtide/workflows/roisummarize.py +1 -1
  205. rapidtide/workflows/runqualitycheck.py +1 -1
  206. rapidtide/workflows/showarbcorr.py +1 -1
  207. rapidtide/workflows/showhist.py +1 -1
  208. rapidtide/workflows/showstxcorr.py +1 -1
  209. rapidtide/workflows/showtc.py +1 -1
  210. rapidtide/workflows/showxcorrx.py +1 -1
  211. rapidtide/workflows/showxy.py +1 -1
  212. rapidtide/workflows/simdata.py +1 -1
  213. rapidtide/workflows/spatialfit.py +1 -1
  214. rapidtide/workflows/spatialmi.py +1 -1
  215. rapidtide/workflows/spectrogram.py +1 -1
  216. rapidtide/workflows/synthASL.py +1 -1
  217. rapidtide/workflows/tcfrom2col.py +1 -1
  218. rapidtide/workflows/tcfrom3col.py +1 -1
  219. rapidtide/workflows/tidepool.py +2 -1
  220. rapidtide/workflows/utils.py +1 -1
  221. rapidtide/workflows/variabilityizer.py +1 -1
  222. {rapidtide-3.0a14.dist-info → rapidtide-3.0.1.dist-info}/METADATA +7 -9
  223. rapidtide-3.0.1.dist-info/RECORD +353 -0
  224. {rapidtide-3.0a14.dist-info → rapidtide-3.0.1.dist-info}/WHEEL +1 -1
  225. rapidtide/data/models/model_revised/model.h5 +0 -0
  226. rapidtide/data/models/model_serdar/model.h5 +0 -0
  227. rapidtide/data/models/model_serdar2/model.h5 +0 -0
  228. rapidtide-3.0a14.dist-info/RECORD +0 -345
  229. {rapidtide-3.0a14.dist-info → rapidtide-3.0.1.dist-info}/entry_points.txt +0 -0
  230. {rapidtide-3.0a14.dist-info → rapidtide-3.0.1.dist-info}/licenses/LICENSE +0 -0
  231. {rapidtide-3.0a14.dist-info → rapidtide-3.0.1.dist-info}/top_level.txt +0 -0
rapidtide/scripts/rapidtide.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/rapidtide2std.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/resamplenifti.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/resampletc.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/retrolagtcs.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/retroregress.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/roisummarize.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/runqualitycheck.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/showarbcorr.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/showhist.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/showstxcorr.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/showtc.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/showxcorr_legacy.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/showxcorrx.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/showxy.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/simdata.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/spatialdecomp.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/spatialfit.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/spatialmi.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/spectrogram.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/stupidramtricks.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/synthASL.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/tcfrom2col.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/tcfrom3col.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/temporaldecomp.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/testhrv.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/threeD.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/tidepool.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/scripts/variabilityizer.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/simfuncfit.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/stats.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
@@ -47,13 +47,6 @@ MAXLINES = 10000000
47
47
  donotbeaggressive = True
48
48
 
49
49
  # ----------------------------------------- Conditional imports ---------------------------------------
50
- try:
51
- from memory_profiler import profile
52
-
53
- memprofilerexists = True
54
- except ImportError:
55
- memprofilerexists = False
56
-
57
50
  try:
58
51
  from numba import jit
59
52
  except ImportError:
rapidtide/tests/cleanposttest CHANGED
@@ -17,5 +17,5 @@
17
17
  #
18
18
 
19
19
  rm tmp/*
20
- rm testdata/*
20
+ #rm testdata/*
21
21
  rm .coveragerc.*
rapidtide/tests/resethappytargets CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: latin-1 -*-
3
3
  #
4
- # Copyright 2016-2021 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/tests/resetrapidtidetargets CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: latin-1 -*-
3
3
  #
4
- # Copyright 2016-2021 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/tests/resettargets CHANGED
@@ -1,6 +1,6 @@
1
1
  #!/bin/csh -f
2
2
  #
3
- # Copyright 2016-2021 Blaise Frederick
3
+ # Copyright 2016-2025 Blaise Frederick
4
4
  #
5
5
  # Licensed under the Apache License, Version 2.0 (the "License");
6
6
  # you may not use this file except in compliance with the License.
rapidtide/tests/runlocaltest CHANGED
@@ -1,6 +1,6 @@
1
1
  #!/bin/sh
2
2
  #
3
- # Copyright 2016-2021 Blaise Frederick
3
+ # Copyright 2016-2025 Blaise Frederick
4
4
  #
5
5
  # Licensed under the Apache License, Version 2.0 (the "License");
6
6
  # you may not use this file except in compliance with the License.
rapidtide/tests/showkernels CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: latin-1 -*-
3
3
  #
4
- # Copyright 2016-2021 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/tests/test_aliasedcorrelate.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/tests/test_aligntcs.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/tests/test_calcicc.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/tests/test_congrid.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/tests/test_correlate.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/tests/test_corrpass.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/tests/test_delayestimation.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/tests/test_doresample.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/tests/test_fastresampler.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/tests/test_findmaxlag.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/tests/test_fullrunhappy_v1.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
@@ -43,7 +43,7 @@ def test_fullrunhappy_v1(debug=False, local=False, displayplots=False):
43
43
  "-1",
44
44
  "--spatialregression",
45
45
  "--model",
46
- "model_revised",
46
+ "model_revised_tf2",
47
47
  ]
48
48
  happy_workflow.happy_main(happy_parser.process_args(inputargs=inputargs))
49
49
 
rapidtide/tests/test_fullrunhappy_v2.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
@@ -46,7 +46,7 @@ def test_fullrunhappy_v2(debug=False, local=False, displayplots=False):
46
46
  "--mklthreads",
47
47
  "-1",
48
48
  "--model",
49
- "model_revised",
49
+ "model_revised_tf2",
50
50
  "--fliparteries",
51
51
  "--temporalregression",
52
52
  "--cardiacfile",
rapidtide/tests/test_fullrunhappy_v3.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
@@ -46,7 +46,7 @@ def test_fullrunhappy_v3(debug=False, local=False, displayplots=False):
46
46
  "--mklthreads",
47
47
  "-1",
48
48
  "--model",
49
- "model_revised",
49
+ "model_revised_tf2",
50
50
  "--cardcalconly",
51
51
  ]
52
52
  # "--motionfile",
rapidtide/tests/test_fullrunhappy_v4.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
@@ -46,7 +46,7 @@ def test_fullrunhappy_v4(debug=False, local=False, displayplots=False):
46
46
  "--mklthreads",
47
47
  "-1",
48
48
  "--model",
49
- "model_revised",
49
+ "model_revised_tf2",
50
50
  "--motionfile",
51
51
  os.path.join(exampleroot, "sub-HAPPYTEST_mcf.par"),
52
52
  "--aliasedcorrelation",
rapidtide/tests/test_fullrunhappy_v5.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
@@ -39,8 +39,6 @@ def test_fullrunhappy_v4(debug=False, local=False, displayplots=False):
39
39
  os.path.join(exampleroot, "sub-HAPPYTEST.nii.gz"),
40
40
  os.path.join(exampleroot, "sub-HAPPYTEST.json"),
41
41
  os.path.join(testtemproot, "happyout5"),
42
- "--model",
43
- "model_revised",
44
42
  "--motionfile",
45
43
  os.path.join(exampleroot, "sub-HAPPYTEST_mcf.par"),
46
44
  "--nomotderiv",
rapidtide/tests/test_fullrunrapidtide_v1.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/tests/test_fullrunrapidtide_v2.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
@@ -83,6 +83,8 @@ def test_fullrunrapidtide_v2(debug=False, local=False, displayplots=False):
83
83
  "var",
84
84
  "--motionfile",
85
85
  os.path.join(exampleroot, "fakemotion.par"),
86
+ "--denoisesourcefile",
87
+ os.path.join(exampleroot, "sub-RAPIDTIDETEST.nii.gz"),
86
88
  ]
87
89
  if debug:
88
90
  print(inputargs)
rapidtide/tests/test_fullrunrapidtide_v3.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/tests/test_fullrunrapidtide_v4.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.
rapidtide/tests/test_fullrunrapidtide_v5.py CHANGED
@@ -1,7 +1,7 @@
1
1
  #!/usr/bin/env python
2
2
  # -*- coding: utf-8 -*-
3
3
  #
4
- # Copyright 2016-2024 Blaise Frederick
4
+ # Copyright 2016-2025 Blaise Frederick
5
5
  #
6
6
  # Licensed under the Apache License, Version 2.0 (the "License");
7
7
  # you may not use this file except in compliance with the License.