rapidtide 2.9.5__py3-none-any.whl → 3.1.3__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 (405) hide show
  1. cloud/gmscalc-HCPYA +1 -1
  2. cloud/mount-and-run +2 -0
  3. cloud/rapidtide-HCPYA +3 -3
  4. rapidtide/Colortables.py +538 -38
  5. rapidtide/OrthoImageItem.py +1094 -51
  6. rapidtide/RapidtideDataset.py +1709 -114
  7. rapidtide/__init__.py +0 -8
  8. rapidtide/_version.py +4 -4
  9. rapidtide/calccoherence.py +242 -97
  10. rapidtide/calcnullsimfunc.py +240 -140
  11. rapidtide/calcsimfunc.py +314 -129
  12. rapidtide/correlate.py +1211 -389
  13. rapidtide/data/examples/src/testLD +56 -0
  14. rapidtide/data/examples/src/test_findmaxlag.py +2 -2
  15. rapidtide/data/examples/src/test_mlregressallt.py +32 -17
  16. rapidtide/data/examples/src/testalign +1 -1
  17. rapidtide/data/examples/src/testatlasaverage +35 -7
  18. rapidtide/data/examples/src/testboth +21 -0
  19. rapidtide/data/examples/src/testcifti +11 -0
  20. rapidtide/data/examples/src/testdelayvar +13 -0
  21. rapidtide/data/examples/src/testdlfilt +25 -0
  22. rapidtide/data/examples/src/testfft +35 -0
  23. rapidtide/data/examples/src/testfileorfloat +37 -0
  24. rapidtide/data/examples/src/testfmri +94 -27
  25. rapidtide/data/examples/src/testfuncs +3 -3
  26. rapidtide/data/examples/src/testglmfilt +8 -6
  27. rapidtide/data/examples/src/testhappy +84 -51
  28. rapidtide/data/examples/src/testinitdelay +19 -0
  29. rapidtide/data/examples/src/testmodels +33 -0
  30. rapidtide/data/examples/src/testnewrefine +26 -0
  31. rapidtide/data/examples/src/testnoiseamp +21 -0
  32. rapidtide/data/examples/src/testppgproc +17 -0
  33. rapidtide/data/examples/src/testrefineonly +22 -0
  34. rapidtide/data/examples/src/testretro +26 -13
  35. rapidtide/data/examples/src/testretrolagtcs +16 -0
  36. rapidtide/data/examples/src/testrolloff +11 -0
  37. rapidtide/data/examples/src/testsimdata +45 -28
  38. rapidtide/data/models/model_cnn_pytorch/loss.png +0 -0
  39. rapidtide/data/models/model_cnn_pytorch/loss.txt +1 -0
  40. rapidtide/data/models/model_cnn_pytorch/model.pth +0 -0
  41. rapidtide/data/models/model_cnn_pytorch/model_meta.json +68 -0
  42. rapidtide/data/models/model_cnn_pytorch_fulldata/loss.png +0 -0
  43. rapidtide/data/models/model_cnn_pytorch_fulldata/loss.txt +1 -0
  44. rapidtide/data/models/model_cnn_pytorch_fulldata/model.pth +0 -0
  45. rapidtide/data/models/model_cnn_pytorch_fulldata/model_meta.json +80 -0
  46. rapidtide/data/models/model_cnnbp_pytorch_fullldata/loss.png +0 -0
  47. rapidtide/data/models/model_cnnbp_pytorch_fullldata/loss.txt +1 -0
  48. rapidtide/data/models/model_cnnbp_pytorch_fullldata/model.pth +0 -0
  49. rapidtide/data/models/model_cnnbp_pytorch_fullldata/model_meta.json +138 -0
  50. rapidtide/data/models/model_cnnfft_pytorch_fulldata/loss.png +0 -0
  51. rapidtide/data/models/model_cnnfft_pytorch_fulldata/loss.txt +1 -0
  52. rapidtide/data/models/model_cnnfft_pytorch_fulldata/model.pth +0 -0
  53. rapidtide/data/models/model_cnnfft_pytorch_fulldata/model_meta.json +128 -0
  54. rapidtide/data/models/model_ppgattention_pytorch_w128_fulldata/loss.png +0 -0
  55. rapidtide/data/models/model_ppgattention_pytorch_w128_fulldata/loss.txt +1 -0
  56. rapidtide/data/models/model_ppgattention_pytorch_w128_fulldata/model.pth +0 -0
  57. rapidtide/data/models/model_ppgattention_pytorch_w128_fulldata/model_meta.json +49 -0
  58. rapidtide/data/models/model_revised_tf2/model.keras +0 -0
  59. rapidtide/data/models/{model_serdar → model_revised_tf2}/model_meta.json +1 -1
  60. rapidtide/data/models/model_serdar2_tf2/model.keras +0 -0
  61. rapidtide/data/models/{model_serdar2 → model_serdar2_tf2}/model_meta.json +1 -1
  62. rapidtide/data/models/model_serdar_tf2/model.keras +0 -0
  63. rapidtide/data/models/{model_revised → model_serdar_tf2}/model_meta.json +1 -1
  64. rapidtide/data/reference/HCP1200v2_MTT_2mm.nii.gz +0 -0
  65. rapidtide/data/reference/HCP1200v2_binmask_2mm.nii.gz +0 -0
  66. rapidtide/data/reference/HCP1200v2_csf_2mm.nii.gz +0 -0
  67. rapidtide/data/reference/HCP1200v2_gray_2mm.nii.gz +0 -0
  68. rapidtide/data/reference/HCP1200v2_graylaghist.json +7 -0
  69. rapidtide/data/reference/HCP1200v2_graylaghist.tsv.gz +0 -0
  70. rapidtide/data/reference/HCP1200v2_laghist.json +7 -0
  71. rapidtide/data/reference/HCP1200v2_laghist.tsv.gz +0 -0
  72. rapidtide/data/reference/HCP1200v2_mask_2mm.nii.gz +0 -0
  73. rapidtide/data/reference/HCP1200v2_maxcorr_2mm.nii.gz +0 -0
  74. rapidtide/data/reference/HCP1200v2_maxtime_2mm.nii.gz +0 -0
  75. rapidtide/data/reference/HCP1200v2_maxwidth_2mm.nii.gz +0 -0
  76. rapidtide/data/reference/HCP1200v2_negmask_2mm.nii.gz +0 -0
  77. rapidtide/data/reference/HCP1200v2_timepercentile_2mm.nii.gz +0 -0
  78. rapidtide/data/reference/HCP1200v2_white_2mm.nii.gz +0 -0
  79. rapidtide/data/reference/HCP1200v2_whitelaghist.json +7 -0
  80. rapidtide/data/reference/HCP1200v2_whitelaghist.tsv.gz +0 -0
  81. rapidtide/data/reference/JHU-ArterialTerritoriesNoVent-LVL1-seg2.xml +131 -0
  82. rapidtide/data/reference/JHU-ArterialTerritoriesNoVent-LVL1-seg2_regions.txt +60 -0
  83. rapidtide/data/reference/JHU-ArterialTerritoriesNoVent-LVL1-seg2_space-MNI152NLin6Asym_2mm.nii.gz +0 -0
  84. rapidtide/data/reference/JHU-ArterialTerritoriesNoVent-LVL1_space-MNI152NLin2009cAsym_2mm.nii.gz +0 -0
  85. rapidtide/data/reference/JHU-ArterialTerritoriesNoVent-LVL1_space-MNI152NLin2009cAsym_2mm_mask.nii.gz +0 -0
  86. rapidtide/data/reference/JHU-ArterialTerritoriesNoVent-LVL1_space-MNI152NLin6Asym_2mm_mask.nii.gz +0 -0
  87. rapidtide/data/reference/JHU-ArterialTerritoriesNoVent-LVL2_space-MNI152NLin6Asym_2mm_mask.nii.gz +0 -0
  88. rapidtide/data/reference/MNI152_T1_1mm_Brain_FAST_seg.nii.gz +0 -0
  89. rapidtide/data/reference/MNI152_T1_1mm_Brain_Mask.nii.gz +0 -0
  90. rapidtide/data/reference/MNI152_T1_2mm_Brain_FAST_seg.nii.gz +0 -0
  91. rapidtide/data/reference/MNI152_T1_2mm_Brain_Mask.nii.gz +0 -0
  92. rapidtide/decorators.py +91 -0
  93. rapidtide/dlfilter.py +2553 -414
  94. rapidtide/dlfiltertorch.py +5201 -0
  95. rapidtide/externaltools.py +328 -13
  96. rapidtide/fMRIData_class.py +178 -0
  97. rapidtide/ffttools.py +168 -0
  98. rapidtide/filter.py +2704 -1462
  99. rapidtide/fit.py +2361 -579
  100. rapidtide/genericmultiproc.py +197 -0
  101. rapidtide/happy_supportfuncs.py +3255 -548
  102. rapidtide/helper_classes.py +590 -1181
  103. rapidtide/io.py +2569 -468
  104. rapidtide/linfitfiltpass.py +784 -0
  105. rapidtide/makelaggedtcs.py +267 -97
  106. rapidtide/maskutil.py +555 -25
  107. rapidtide/miscmath.py +867 -137
  108. rapidtide/multiproc.py +217 -44
  109. rapidtide/patchmatch.py +752 -0
  110. rapidtide/peakeval.py +32 -32
  111. rapidtide/ppgproc.py +2205 -0
  112. rapidtide/qualitycheck.py +353 -40
  113. rapidtide/refinedelay.py +854 -0
  114. rapidtide/refineregressor.py +939 -0
  115. rapidtide/resample.py +725 -204
  116. rapidtide/scripts/__init__.py +1 -0
  117. rapidtide/scripts/{adjustoffset → adjustoffset.py} +7 -2
  118. rapidtide/scripts/{aligntcs → aligntcs.py} +7 -2
  119. rapidtide/scripts/{applydlfilter → applydlfilter.py} +7 -2
  120. rapidtide/scripts/applyppgproc.py +28 -0
  121. rapidtide/scripts/{atlasaverage → atlasaverage.py} +7 -2
  122. rapidtide/scripts/{atlastool → atlastool.py} +7 -2
  123. rapidtide/scripts/{calcicc → calcicc.py} +7 -2
  124. rapidtide/scripts/{calctexticc → calctexticc.py} +7 -2
  125. rapidtide/scripts/{calcttest → calcttest.py} +7 -2
  126. rapidtide/scripts/{ccorrica → ccorrica.py} +7 -2
  127. rapidtide/scripts/delayvar.py +28 -0
  128. rapidtide/scripts/{diffrois → diffrois.py} +7 -2
  129. rapidtide/scripts/{endtidalproc → endtidalproc.py} +7 -2
  130. rapidtide/scripts/{fdica → fdica.py} +7 -2
  131. rapidtide/scripts/{filtnifti → filtnifti.py} +7 -2
  132. rapidtide/scripts/{filttc → filttc.py} +7 -2
  133. rapidtide/scripts/{fingerprint → fingerprint.py} +20 -16
  134. rapidtide/scripts/{fixtr → fixtr.py} +7 -2
  135. rapidtide/scripts/{gmscalc → gmscalc.py} +7 -2
  136. rapidtide/scripts/{happy → happy.py} +7 -2
  137. rapidtide/scripts/{happy2std → happy2std.py} +7 -2
  138. rapidtide/scripts/{happywarp → happywarp.py} +8 -4
  139. rapidtide/scripts/{histnifti → histnifti.py} +7 -2
  140. rapidtide/scripts/{histtc → histtc.py} +7 -2
  141. rapidtide/scripts/{glmfilt → linfitfilt.py} +7 -4
  142. rapidtide/scripts/{localflow → localflow.py} +7 -2
  143. rapidtide/scripts/{mergequality → mergequality.py} +7 -2
  144. rapidtide/scripts/{pairproc → pairproc.py} +7 -2
  145. rapidtide/scripts/{pairwisemergenifti → pairwisemergenifti.py} +7 -2
  146. rapidtide/scripts/{physiofreq → physiofreq.py} +7 -2
  147. rapidtide/scripts/{pixelcomp → pixelcomp.py} +7 -2
  148. rapidtide/scripts/{plethquality → plethquality.py} +7 -2
  149. rapidtide/scripts/{polyfitim → polyfitim.py} +7 -2
  150. rapidtide/scripts/{proj2flow → proj2flow.py} +7 -2
  151. rapidtide/scripts/{rankimage → rankimage.py} +7 -2
  152. rapidtide/scripts/{rapidtide → rapidtide.py} +7 -2
  153. rapidtide/scripts/{rapidtide2std → rapidtide2std.py} +7 -2
  154. rapidtide/scripts/{resamplenifti → resamplenifti.py} +7 -2
  155. rapidtide/scripts/{resampletc → resampletc.py} +7 -2
  156. rapidtide/scripts/retrolagtcs.py +28 -0
  157. rapidtide/scripts/retroregress.py +28 -0
  158. rapidtide/scripts/{roisummarize → roisummarize.py} +7 -2
  159. rapidtide/scripts/{runqualitycheck → runqualitycheck.py} +7 -2
  160. rapidtide/scripts/{showarbcorr → showarbcorr.py} +7 -2
  161. rapidtide/scripts/{showhist → showhist.py} +7 -2
  162. rapidtide/scripts/{showstxcorr → showstxcorr.py} +7 -2
  163. rapidtide/scripts/{showtc → showtc.py} +7 -2
  164. rapidtide/scripts/{showxcorr_legacy → showxcorr_legacy.py} +8 -8
  165. rapidtide/scripts/{showxcorrx → showxcorrx.py} +7 -2
  166. rapidtide/scripts/{showxy → showxy.py} +7 -2
  167. rapidtide/scripts/{simdata → simdata.py} +7 -2
  168. rapidtide/scripts/{spatialdecomp → spatialdecomp.py} +7 -2
  169. rapidtide/scripts/{spatialfit → spatialfit.py} +7 -2
  170. rapidtide/scripts/{spatialmi → spatialmi.py} +7 -2
  171. rapidtide/scripts/{spectrogram → spectrogram.py} +7 -2
  172. rapidtide/scripts/stupidramtricks.py +238 -0
  173. rapidtide/scripts/{synthASL → synthASL.py} +7 -2
  174. rapidtide/scripts/{tcfrom2col → tcfrom2col.py} +7 -2
  175. rapidtide/scripts/{tcfrom3col → tcfrom3col.py} +7 -2
  176. rapidtide/scripts/{temporaldecomp → temporaldecomp.py} +7 -2
  177. rapidtide/scripts/{testhrv → testhrv.py} +1 -1
  178. rapidtide/scripts/{threeD → threeD.py} +7 -2
  179. rapidtide/scripts/{tidepool → tidepool.py} +7 -2
  180. rapidtide/scripts/{variabilityizer → variabilityizer.py} +7 -2
  181. rapidtide/simFuncClasses.py +2113 -0
  182. rapidtide/simfuncfit.py +312 -108
  183. rapidtide/stats.py +579 -247
  184. rapidtide/tests/.coveragerc +27 -6
  185. rapidtide-2.9.5.data/scripts/fdica → rapidtide/tests/cleanposttest +4 -6
  186. rapidtide/tests/happycomp +9 -0
  187. rapidtide/tests/resethappytargets +1 -1
  188. rapidtide/tests/resetrapidtidetargets +1 -1
  189. rapidtide/tests/resettargets +1 -1
  190. rapidtide/tests/runlocaltest +3 -3
  191. rapidtide/tests/showkernels +1 -1
  192. rapidtide/tests/test_aliasedcorrelate.py +4 -4
  193. rapidtide/tests/test_aligntcs.py +1 -1
  194. rapidtide/tests/test_calcicc.py +1 -1
  195. rapidtide/tests/test_cleanregressor.py +184 -0
  196. rapidtide/tests/test_congrid.py +70 -81
  197. rapidtide/tests/test_correlate.py +1 -1
  198. rapidtide/tests/test_corrpass.py +4 -4
  199. rapidtide/tests/test_delayestimation.py +54 -59
  200. rapidtide/tests/test_dlfiltertorch.py +437 -0
  201. rapidtide/tests/test_doresample.py +2 -2
  202. rapidtide/tests/test_externaltools.py +69 -0
  203. rapidtide/tests/test_fastresampler.py +9 -5
  204. rapidtide/tests/test_filter.py +96 -57
  205. rapidtide/tests/test_findmaxlag.py +50 -19
  206. rapidtide/tests/test_fullrunhappy_v1.py +15 -10
  207. rapidtide/tests/test_fullrunhappy_v2.py +19 -13
  208. rapidtide/tests/test_fullrunhappy_v3.py +28 -13
  209. rapidtide/tests/test_fullrunhappy_v4.py +30 -11
  210. rapidtide/tests/test_fullrunhappy_v5.py +62 -0
  211. rapidtide/tests/test_fullrunrapidtide_v1.py +61 -7
  212. rapidtide/tests/test_fullrunrapidtide_v2.py +27 -15
  213. rapidtide/tests/test_fullrunrapidtide_v3.py +28 -8
  214. rapidtide/tests/test_fullrunrapidtide_v4.py +16 -8
  215. rapidtide/tests/test_fullrunrapidtide_v5.py +15 -6
  216. rapidtide/tests/test_fullrunrapidtide_v6.py +142 -0
  217. rapidtide/tests/test_fullrunrapidtide_v7.py +114 -0
  218. rapidtide/tests/test_fullrunrapidtide_v8.py +66 -0
  219. rapidtide/tests/test_getparsers.py +158 -0
  220. rapidtide/tests/test_io.py +59 -18
  221. rapidtide/tests/{test_glmpass.py → test_linfitfiltpass.py} +10 -10
  222. rapidtide/tests/test_mi.py +1 -1
  223. rapidtide/tests/test_miscmath.py +1 -1
  224. rapidtide/tests/test_motionregress.py +5 -5
  225. rapidtide/tests/test_nullcorr.py +6 -9
  226. rapidtide/tests/test_padvec.py +216 -0
  227. rapidtide/tests/test_parserfuncs.py +101 -0
  228. rapidtide/tests/test_phaseanalysis.py +1 -1
  229. rapidtide/tests/test_rapidtideparser.py +59 -53
  230. rapidtide/tests/test_refinedelay.py +296 -0
  231. rapidtide/tests/test_runmisc.py +5 -5
  232. rapidtide/tests/test_sharedmem.py +60 -0
  233. rapidtide/tests/test_simroundtrip.py +132 -0
  234. rapidtide/tests/test_simulate.py +1 -1
  235. rapidtide/tests/test_stcorrelate.py +4 -2
  236. rapidtide/tests/test_timeshift.py +2 -2
  237. rapidtide/tests/test_valtoindex.py +1 -1
  238. rapidtide/tests/test_zRapidtideDataset.py +5 -3
  239. rapidtide/tests/utils.py +10 -9
  240. rapidtide/tidepoolTemplate.py +88 -70
  241. rapidtide/tidepoolTemplate.ui +60 -46
  242. rapidtide/tidepoolTemplate_alt.py +88 -53
  243. rapidtide/tidepoolTemplate_alt.ui +62 -52
  244. rapidtide/tidepoolTemplate_alt_qt6.py +921 -0
  245. rapidtide/tidepoolTemplate_big.py +1125 -0
  246. rapidtide/tidepoolTemplate_big.ui +2386 -0
  247. rapidtide/tidepoolTemplate_big_qt6.py +1129 -0
  248. rapidtide/tidepoolTemplate_qt6.py +793 -0
  249. rapidtide/util.py +1389 -148
  250. rapidtide/voxelData.py +1048 -0
  251. rapidtide/wiener.py +138 -25
  252. rapidtide/wiener2.py +114 -8
  253. rapidtide/workflows/adjustoffset.py +107 -5
  254. rapidtide/workflows/aligntcs.py +86 -3
  255. rapidtide/workflows/applydlfilter.py +231 -89
  256. rapidtide/workflows/applyppgproc.py +540 -0
  257. rapidtide/workflows/atlasaverage.py +309 -48
  258. rapidtide/workflows/atlastool.py +130 -9
  259. rapidtide/workflows/calcSimFuncMap.py +490 -0
  260. rapidtide/workflows/calctexticc.py +202 -10
  261. rapidtide/workflows/ccorrica.py +123 -15
  262. rapidtide/workflows/cleanregressor.py +415 -0
  263. rapidtide/workflows/delayvar.py +1268 -0
  264. rapidtide/workflows/diffrois.py +84 -6
  265. rapidtide/workflows/endtidalproc.py +149 -9
  266. rapidtide/workflows/fdica.py +197 -17
  267. rapidtide/workflows/filtnifti.py +71 -4
  268. rapidtide/workflows/filttc.py +76 -5
  269. rapidtide/workflows/fitSimFuncMap.py +578 -0
  270. rapidtide/workflows/fixtr.py +74 -4
  271. rapidtide/workflows/gmscalc.py +116 -6
  272. rapidtide/workflows/happy.py +1242 -480
  273. rapidtide/workflows/happy2std.py +145 -13
  274. rapidtide/workflows/happy_parser.py +277 -59
  275. rapidtide/workflows/histnifti.py +120 -4
  276. rapidtide/workflows/histtc.py +85 -4
  277. rapidtide/workflows/{glmfilt.py → linfitfilt.py} +128 -14
  278. rapidtide/workflows/localflow.py +329 -29
  279. rapidtide/workflows/mergequality.py +80 -4
  280. rapidtide/workflows/niftidecomp.py +323 -19
  281. rapidtide/workflows/niftistats.py +178 -8
  282. rapidtide/workflows/pairproc.py +99 -5
  283. rapidtide/workflows/pairwisemergenifti.py +86 -3
  284. rapidtide/workflows/parser_funcs.py +1488 -56
  285. rapidtide/workflows/physiofreq.py +139 -12
  286. rapidtide/workflows/pixelcomp.py +211 -9
  287. rapidtide/workflows/plethquality.py +105 -23
  288. rapidtide/workflows/polyfitim.py +159 -19
  289. rapidtide/workflows/proj2flow.py +76 -3
  290. rapidtide/workflows/rankimage.py +115 -8
  291. rapidtide/workflows/rapidtide.py +1833 -1919
  292. rapidtide/workflows/rapidtide2std.py +101 -3
  293. rapidtide/workflows/rapidtide_parser.py +607 -372
  294. rapidtide/workflows/refineDelayMap.py +249 -0
  295. rapidtide/workflows/refineRegressor.py +1215 -0
  296. rapidtide/workflows/regressfrommaps.py +308 -0
  297. rapidtide/workflows/resamplenifti.py +86 -4
  298. rapidtide/workflows/resampletc.py +92 -4
  299. rapidtide/workflows/retrolagtcs.py +442 -0
  300. rapidtide/workflows/retroregress.py +1501 -0
  301. rapidtide/workflows/roisummarize.py +176 -7
  302. rapidtide/workflows/runqualitycheck.py +72 -7
  303. rapidtide/workflows/showarbcorr.py +172 -16
  304. rapidtide/workflows/showhist.py +87 -3
  305. rapidtide/workflows/showstxcorr.py +161 -4
  306. rapidtide/workflows/showtc.py +172 -10
  307. rapidtide/workflows/showxcorrx.py +250 -62
  308. rapidtide/workflows/showxy.py +186 -16
  309. rapidtide/workflows/simdata.py +418 -112
  310. rapidtide/workflows/spatialfit.py +83 -8
  311. rapidtide/workflows/spatialmi.py +252 -29
  312. rapidtide/workflows/spectrogram.py +306 -33
  313. rapidtide/workflows/synthASL.py +157 -6
  314. rapidtide/workflows/tcfrom2col.py +77 -3
  315. rapidtide/workflows/tcfrom3col.py +75 -3
  316. rapidtide/workflows/tidepool.py +3829 -666
  317. rapidtide/workflows/utils.py +45 -19
  318. rapidtide/workflows/utils_doc.py +293 -0
  319. rapidtide/workflows/variabilityizer.py +118 -5
  320. {rapidtide-2.9.5.dist-info → rapidtide-3.1.3.dist-info}/METADATA +30 -223
  321. rapidtide-3.1.3.dist-info/RECORD +393 -0
  322. {rapidtide-2.9.5.dist-info → rapidtide-3.1.3.dist-info}/WHEEL +1 -1
  323. rapidtide-3.1.3.dist-info/entry_points.txt +65 -0
  324. rapidtide-3.1.3.dist-info/top_level.txt +2 -0
  325. rapidtide/calcandfitcorrpairs.py +0 -262
  326. rapidtide/data/examples/src/testoutputsize +0 -45
  327. rapidtide/data/models/model_revised/model.h5 +0 -0
  328. rapidtide/data/models/model_serdar/model.h5 +0 -0
  329. rapidtide/data/models/model_serdar2/model.h5 +0 -0
  330. rapidtide/data/reference/ASPECTS_nlin_asym_09c_2mm.nii.gz +0 -0
  331. rapidtide/data/reference/ASPECTS_nlin_asym_09c_2mm_mask.nii.gz +0 -0
  332. rapidtide/data/reference/ATTbasedFlowTerritories_split_nlin_asym_09c_2mm.nii.gz +0 -0
  333. rapidtide/data/reference/ATTbasedFlowTerritories_split_nlin_asym_09c_2mm_mask.nii.gz +0 -0
  334. rapidtide/data/reference/HCP1200_binmask_2mm_2009c_asym.nii.gz +0 -0
  335. rapidtide/data/reference/HCP1200_lag_2mm_2009c_asym.nii.gz +0 -0
  336. rapidtide/data/reference/HCP1200_mask_2mm_2009c_asym.nii.gz +0 -0
  337. rapidtide/data/reference/HCP1200_negmask_2mm_2009c_asym.nii.gz +0 -0
  338. rapidtide/data/reference/HCP1200_sigma_2mm_2009c_asym.nii.gz +0 -0
  339. rapidtide/data/reference/HCP1200_strength_2mm_2009c_asym.nii.gz +0 -0
  340. rapidtide/glmpass.py +0 -434
  341. rapidtide/refine_factored.py +0 -641
  342. rapidtide/scripts/retroglm +0 -23
  343. rapidtide/workflows/glmfrommaps.py +0 -202
  344. rapidtide/workflows/retroglm.py +0 -643
  345. rapidtide-2.9.5.data/scripts/adjustoffset +0 -23
  346. rapidtide-2.9.5.data/scripts/aligntcs +0 -23
  347. rapidtide-2.9.5.data/scripts/applydlfilter +0 -23
  348. rapidtide-2.9.5.data/scripts/atlasaverage +0 -23
  349. rapidtide-2.9.5.data/scripts/atlastool +0 -23
  350. rapidtide-2.9.5.data/scripts/calcicc +0 -22
  351. rapidtide-2.9.5.data/scripts/calctexticc +0 -23
  352. rapidtide-2.9.5.data/scripts/calcttest +0 -22
  353. rapidtide-2.9.5.data/scripts/ccorrica +0 -23
  354. rapidtide-2.9.5.data/scripts/diffrois +0 -23
  355. rapidtide-2.9.5.data/scripts/endtidalproc +0 -23
  356. rapidtide-2.9.5.data/scripts/filtnifti +0 -23
  357. rapidtide-2.9.5.data/scripts/filttc +0 -23
  358. rapidtide-2.9.5.data/scripts/fingerprint +0 -593
  359. rapidtide-2.9.5.data/scripts/fixtr +0 -23
  360. rapidtide-2.9.5.data/scripts/glmfilt +0 -24
  361. rapidtide-2.9.5.data/scripts/gmscalc +0 -22
  362. rapidtide-2.9.5.data/scripts/happy +0 -25
  363. rapidtide-2.9.5.data/scripts/happy2std +0 -23
  364. rapidtide-2.9.5.data/scripts/happywarp +0 -350
  365. rapidtide-2.9.5.data/scripts/histnifti +0 -23
  366. rapidtide-2.9.5.data/scripts/histtc +0 -23
  367. rapidtide-2.9.5.data/scripts/localflow +0 -23
  368. rapidtide-2.9.5.data/scripts/mergequality +0 -23
  369. rapidtide-2.9.5.data/scripts/pairproc +0 -23
  370. rapidtide-2.9.5.data/scripts/pairwisemergenifti +0 -23
  371. rapidtide-2.9.5.data/scripts/physiofreq +0 -23
  372. rapidtide-2.9.5.data/scripts/pixelcomp +0 -23
  373. rapidtide-2.9.5.data/scripts/plethquality +0 -23
  374. rapidtide-2.9.5.data/scripts/polyfitim +0 -23
  375. rapidtide-2.9.5.data/scripts/proj2flow +0 -23
  376. rapidtide-2.9.5.data/scripts/rankimage +0 -23
  377. rapidtide-2.9.5.data/scripts/rapidtide +0 -23
  378. rapidtide-2.9.5.data/scripts/rapidtide2std +0 -23
  379. rapidtide-2.9.5.data/scripts/resamplenifti +0 -23
  380. rapidtide-2.9.5.data/scripts/resampletc +0 -23
  381. rapidtide-2.9.5.data/scripts/retroglm +0 -23
  382. rapidtide-2.9.5.data/scripts/roisummarize +0 -23
  383. rapidtide-2.9.5.data/scripts/runqualitycheck +0 -23
  384. rapidtide-2.9.5.data/scripts/showarbcorr +0 -23
  385. rapidtide-2.9.5.data/scripts/showhist +0 -23
  386. rapidtide-2.9.5.data/scripts/showstxcorr +0 -23
  387. rapidtide-2.9.5.data/scripts/showtc +0 -23
  388. rapidtide-2.9.5.data/scripts/showxcorr_legacy +0 -536
  389. rapidtide-2.9.5.data/scripts/showxcorrx +0 -23
  390. rapidtide-2.9.5.data/scripts/showxy +0 -23
  391. rapidtide-2.9.5.data/scripts/simdata +0 -23
  392. rapidtide-2.9.5.data/scripts/spatialdecomp +0 -23
  393. rapidtide-2.9.5.data/scripts/spatialfit +0 -23
  394. rapidtide-2.9.5.data/scripts/spatialmi +0 -23
  395. rapidtide-2.9.5.data/scripts/spectrogram +0 -23
  396. rapidtide-2.9.5.data/scripts/synthASL +0 -23
  397. rapidtide-2.9.5.data/scripts/tcfrom2col +0 -23
  398. rapidtide-2.9.5.data/scripts/tcfrom3col +0 -23
  399. rapidtide-2.9.5.data/scripts/temporaldecomp +0 -23
  400. rapidtide-2.9.5.data/scripts/threeD +0 -236
  401. rapidtide-2.9.5.data/scripts/tidepool +0 -23
  402. rapidtide-2.9.5.data/scripts/variabilityizer +0 -23
  403. rapidtide-2.9.5.dist-info/RECORD +0 -357
  404. rapidtide-2.9.5.dist-info/top_level.txt +0 -86
  405. {rapidtide-2.9.5.dist-info → rapidtide-3.1.3.dist-info/licenses}/LICENSE +0 -0
rapidtide/tidepoolTemplate.ui CHANGED
@@ -80,6 +80,7 @@
80
80
  <property name="font">
81
81
  <font>
82
82
  <family>Courier</family>
83
+ <bold>true</bold>
83
84
  </font>
84
85
  </property>
85
86
  </widget>
@@ -135,13 +136,13 @@
135
136
  <rect>
136
137
  <x>10</x>
137
138
  <y>20</y>
138
- <width>1073</width>
139
+ <width>1074</width>
139
140
  <height>286</height>
140
141
  </rect>
141
142
  </property>
142
143
  <layout class="QHBoxLayout" name="largeimage_horizontalLayout">
143
144
  <property name="sizeConstraint">
144
- <enum>QLayout::SetNoConstraint</enum>
145
+ <enum>QLayout::SizeConstraint::SetNoConstraint</enum>
145
146
  </property>
146
147
  <property name="topMargin">
147
148
  <number>0</number>
@@ -173,10 +174,10 @@
173
174
  </size>
174
175
  </property>
175
176
  <property name="frameShape">
176
- <enum>QFrame::NoFrame</enum>
177
+ <enum>QFrame::Shape::NoFrame</enum>
177
178
  </property>
178
179
  <property name="alignment">
179
- <set>Qt::AlignCenter</set>
180
+ <set>Qt::AlignmentFlag::AlignCenter</set>
180
181
  </property>
181
182
  </widget>
182
183
  </item>
@@ -207,10 +208,10 @@
207
208
  </size>
208
209
  </property>
209
210
  <property name="frameShape">
210
- <enum>QFrame::NoFrame</enum>
211
+ <enum>QFrame::Shape::NoFrame</enum>
211
212
  </property>
212
213
  <property name="alignment">
213
- <set>Qt::AlignCenter</set>
214
+ <set>Qt::AlignmentFlag::AlignCenter</set>
214
215
  </property>
215
216
  </widget>
216
217
  </item>
@@ -241,10 +242,10 @@
241
242
  </size>
242
243
  </property>
243
244
  <property name="frameShape">
244
- <enum>QFrame::NoFrame</enum>
245
+ <enum>QFrame::Shape::NoFrame</enum>
245
246
  </property>
246
247
  <property name="alignment">
247
- <set>Qt::AlignCenter</set>
248
+ <set>Qt::AlignmentFlag::AlignCenter</set>
248
249
  </property>
249
250
  </widget>
250
251
  </item>
@@ -282,7 +283,7 @@
282
283
  <number>0</number>
283
284
  </property>
284
285
  <property name="sizeConstraint">
285
- <enum>QLayout::SetMaximumSize</enum>
286
+ <enum>QLayout::SizeConstraint::SetMaximumSize</enum>
286
287
  </property>
287
288
  <property name="topMargin">
288
289
  <number>5</number>
@@ -293,7 +294,7 @@
293
294
  <item>
294
295
  <widget class="QDoubleSpinBox" name="dispmax_doubleSpinBox">
295
296
  <property name="alignment">
296
- <set>Qt::AlignRight|Qt::AlignTrailing|Qt::AlignVCenter</set>
297
+ <set>Qt::AlignmentFlag::AlignRight|Qt::AlignmentFlag::AlignTrailing|Qt::AlignmentFlag::AlignVCenter</set>
297
298
  </property>
298
299
  <property name="decimals">
299
300
  <number>3</number>
@@ -303,7 +304,7 @@
303
304
  <item>
304
305
  <spacer name="verticalSpacer_4">
305
306
  <property name="orientation">
306
- <enum>Qt::Vertical</enum>
307
+ <enum>Qt::Orientation::Vertical</enum>
307
308
  </property>
308
309
  <property name="sizeHint" stdset="0">
309
310
  <size>
@@ -344,7 +345,7 @@
344
345
  <item>
345
346
  <spacer name="verticalSpacer_2">
346
347
  <property name="orientation">
347
- <enum>Qt::Vertical</enum>
348
+ <enum>Qt::Orientation::Vertical</enum>
348
349
  </property>
349
350
  <property name="sizeHint" stdset="0">
350
351
  <size>
@@ -354,10 +355,23 @@
354
355
  </property>
355
356
  </spacer>
356
357
  </item>
358
+ <item>
359
+ <widget class="QCheckBox" name="transparency_checkBox">
360
+ <property name="toolTip">
361
+ <string>With transparency on, map values outside the range limits are not displayed.</string>
362
+ </property>
363
+ <property name="text">
364
+ <string>Transparency</string>
365
+ </property>
366
+ <property name="checked">
367
+ <bool>false</bool>
368
+ </property>
369
+ </widget>
370
+ </item>
357
371
  <item>
358
372
  <widget class="QDoubleSpinBox" name="dispmin_doubleSpinBox">
359
373
  <property name="alignment">
360
- <set>Qt::AlignRight|Qt::AlignTrailing|Qt::AlignVCenter</set>
374
+ <set>Qt::AlignmentFlag::AlignRight|Qt::AlignmentFlag::AlignTrailing|Qt::AlignmentFlag::AlignVCenter</set>
361
375
  </property>
362
376
  <property name="decimals">
363
377
  <number>3</number>
@@ -420,14 +434,14 @@
420
434
  </widget>
421
435
  </item>
422
436
  <item>
423
- <widget class="QRadioButton" name="GYR_radioButton">
437
+ <widget class="QRadioButton" name="plasma_radioButton">
424
438
  <property name="font">
425
439
  <font>
426
440
  <pointsize>10</pointsize>
427
441
  </font>
428
442
  </property>
429
443
  <property name="text">
430
- <string>GYR</string>
444
+ <string>Plasma</string>
431
445
  </property>
432
446
  <attribute name="buttonGroup">
433
447
  <string notr="true">colormap_buttonGroup</string>
@@ -549,14 +563,14 @@
549
563
  </widget>
550
564
  </item>
551
565
  <item>
552
- <widget class="QRadioButton" name="robustmean_radioButton">
566
+ <widget class="QRadioButton" name="CoV_radioButton">
553
567
  <property name="font">
554
568
  <font>
555
569
  <pointsize>10</pointsize>
556
570
  </font>
557
571
  </property>
558
572
  <property name="text">
559
- <string>Robust mean</string>
573
+ <string>CoV</string>
560
574
  </property>
561
575
  <attribute name="buttonGroup">
562
576
  <string notr="true">stats_buttonGroup</string>
@@ -678,10 +692,10 @@
678
692
  </size>
679
693
  </property>
680
694
  <property name="frameShape">
681
- <enum>QFrame::NoFrame</enum>
695
+ <enum>QFrame::Shape::NoFrame</enum>
682
696
  </property>
683
697
  <property name="alignment">
684
- <set>Qt::AlignCenter</set>
698
+ <set>Qt::AlignmentFlag::AlignCenter</set>
685
699
  </property>
686
700
  </widget>
687
701
  <widget class="QRadioButton" name="overlay_radioButton_01">
@@ -854,10 +868,10 @@
854
868
  </size>
855
869
  </property>
856
870
  <property name="frameShape">
857
- <enum>QFrame::NoFrame</enum>
871
+ <enum>QFrame::Shape::NoFrame</enum>
858
872
  </property>
859
873
  <property name="alignment">
860
- <set>Qt::AlignCenter</set>
874
+ <set>Qt::AlignmentFlag::AlignCenter</set>
861
875
  </property>
862
876
  </widget>
863
877
  <widget class="GraphicsLayoutWidget" name="overlay_graphicsView_06">
@@ -888,10 +902,10 @@
888
902
  </size>
889
903
  </property>
890
904
  <property name="frameShape">
891
- <enum>QFrame::NoFrame</enum>
905
+ <enum>QFrame::Shape::NoFrame</enum>
892
906
  </property>
893
907
  <property name="alignment">
894
- <set>Qt::AlignCenter</set>
908
+ <set>Qt::AlignmentFlag::AlignCenter</set>
895
909
  </property>
896
910
  </widget>
897
911
  <widget class="GraphicsLayoutWidget" name="overlay_graphicsView_03">
@@ -922,10 +936,10 @@
922
936
  </size>
923
937
  </property>
924
938
  <property name="frameShape">
925
- <enum>QFrame::NoFrame</enum>
939
+ <enum>QFrame::Shape::NoFrame</enum>
926
940
  </property>
927
941
  <property name="alignment">
928
- <set>Qt::AlignCenter</set>
942
+ <set>Qt::AlignmentFlag::AlignCenter</set>
929
943
  </property>
930
944
  </widget>
931
945
  <widget class="GraphicsLayoutWidget" name="overlay_graphicsView_08">
@@ -956,10 +970,10 @@
956
970
  </size>
957
971
  </property>
958
972
  <property name="frameShape">
959
- <enum>QFrame::NoFrame</enum>
973
+ <enum>QFrame::Shape::NoFrame</enum>
960
974
  </property>
961
975
  <property name="alignment">
962
- <set>Qt::AlignCenter</set>
976
+ <set>Qt::AlignmentFlag::AlignCenter</set>
963
977
  </property>
964
978
  </widget>
965
979
  <widget class="GraphicsLayoutWidget" name="overlay_graphicsView_05">
@@ -990,10 +1004,10 @@
990
1004
  </size>
991
1005
  </property>
992
1006
  <property name="frameShape">
993
- <enum>QFrame::NoFrame</enum>
1007
+ <enum>QFrame::Shape::NoFrame</enum>
994
1008
  </property>
995
1009
  <property name="alignment">
996
- <set>Qt::AlignCenter</set>
1010
+ <set>Qt::AlignmentFlag::AlignCenter</set>
997
1011
  </property>
998
1012
  </widget>
999
1013
  <widget class="GraphicsLayoutWidget" name="overlay_graphicsView_02">
@@ -1024,10 +1038,10 @@
1024
1038
  </size>
1025
1039
  </property>
1026
1040
  <property name="frameShape">
1027
- <enum>QFrame::NoFrame</enum>
1041
+ <enum>QFrame::Shape::NoFrame</enum>
1028
1042
  </property>
1029
1043
  <property name="alignment">
1030
- <set>Qt::AlignCenter</set>
1044
+ <set>Qt::AlignmentFlag::AlignCenter</set>
1031
1045
  </property>
1032
1046
  </widget>
1033
1047
  <widget class="GraphicsLayoutWidget" name="overlay_graphicsView_07">
@@ -1058,10 +1072,10 @@
1058
1072
  </size>
1059
1073
  </property>
1060
1074
  <property name="frameShape">
1061
- <enum>QFrame::NoFrame</enum>
1075
+ <enum>QFrame::Shape::NoFrame</enum>
1062
1076
  </property>
1063
1077
  <property name="alignment">
1064
- <set>Qt::AlignCenter</set>
1078
+ <set>Qt::AlignmentFlag::AlignCenter</set>
1065
1079
  </property>
1066
1080
  </widget>
1067
1081
  <zorder>overlay_graphicsView_01</zorder>
@@ -1176,7 +1190,7 @@
1176
1190
  </rect>
1177
1191
  </property>
1178
1192
  <property name="alignment">
1179
- <set>Qt::AlignRight|Qt::AlignTrailing|Qt::AlignVCenter</set>
1193
+ <set>Qt::AlignmentFlag::AlignRight|Qt::AlignmentFlag::AlignTrailing|Qt::AlignmentFlag::AlignVCenter</set>
1180
1194
  </property>
1181
1195
  <property name="decimals">
1182
1196
  <number>0</number>
@@ -1210,7 +1224,7 @@
1210
1224
  </rect>
1211
1225
  </property>
1212
1226
  <property name="alignment">
1213
- <set>Qt::AlignRight|Qt::AlignTrailing|Qt::AlignVCenter</set>
1227
+ <set>Qt::AlignmentFlag::AlignRight|Qt::AlignmentFlag::AlignTrailing|Qt::AlignmentFlag::AlignVCenter</set>
1214
1228
  </property>
1215
1229
  <property name="decimals">
1216
1230
  <number>3</number>
@@ -1244,7 +1258,7 @@
1244
1258
  </rect>
1245
1259
  </property>
1246
1260
  <property name="alignment">
1247
- <set>Qt::AlignRight|Qt::AlignTrailing|Qt::AlignVCenter</set>
1261
+ <set>Qt::AlignmentFlag::AlignRight|Qt::AlignmentFlag::AlignTrailing|Qt::AlignmentFlag::AlignVCenter</set>
1248
1262
  </property>
1249
1263
  <property name="decimals">
1250
1264
  <number>0</number>
@@ -1260,7 +1274,7 @@
1260
1274
  </rect>
1261
1275
  </property>
1262
1276
  <property name="alignment">
1263
- <set>Qt::AlignRight|Qt::AlignTrailing|Qt::AlignVCenter</set>
1277
+ <set>Qt::AlignmentFlag::AlignRight|Qt::AlignmentFlag::AlignTrailing|Qt::AlignmentFlag::AlignVCenter</set>
1264
1278
  </property>
1265
1279
  <property name="decimals">
1266
1280
  <number>3</number>
@@ -1276,7 +1290,7 @@
1276
1290
  </rect>
1277
1291
  </property>
1278
1292
  <property name="alignment">
1279
- <set>Qt::AlignRight|Qt::AlignTrailing|Qt::AlignVCenter</set>
1293
+ <set>Qt::AlignmentFlag::AlignRight|Qt::AlignmentFlag::AlignTrailing|Qt::AlignmentFlag::AlignVCenter</set>
1280
1294
  </property>
1281
1295
  <property name="decimals">
1282
1296
  <number>0</number>
@@ -1292,7 +1306,7 @@
1292
1306
  </rect>
1293
1307
  </property>
1294
1308
  <property name="alignment">
1295
- <set>Qt::AlignRight|Qt::AlignTrailing|Qt::AlignVCenter</set>
1309
+ <set>Qt::AlignmentFlag::AlignRight|Qt::AlignmentFlag::AlignTrailing|Qt::AlignmentFlag::AlignVCenter</set>
1296
1310
  </property>
1297
1311
  <property name="decimals">
1298
1312
  <number>3</number>
@@ -1334,7 +1348,7 @@
1334
1348
  </rect>
1335
1349
  </property>
1336
1350
  <property name="alignment">
1337
- <set>Qt::AlignRight|Qt::AlignTrailing|Qt::AlignVCenter</set>
1351
+ <set>Qt::AlignmentFlag::AlignRight|Qt::AlignmentFlag::AlignTrailing|Qt::AlignmentFlag::AlignVCenter</set>
1338
1352
  </property>
1339
1353
  <property name="decimals">
1340
1354
  <number>3</number>
@@ -1350,7 +1364,7 @@
1350
1364
  </rect>
1351
1365
  </property>
1352
1366
  <property name="alignment">
1353
- <set>Qt::AlignRight|Qt::AlignTrailing|Qt::AlignVCenter</set>
1367
+ <set>Qt::AlignmentFlag::AlignRight|Qt::AlignmentFlag::AlignTrailing|Qt::AlignmentFlag::AlignVCenter</set>
1354
1368
  </property>
1355
1369
  <property name="decimals">
1356
1370
  <number>0</number>
@@ -1379,7 +1393,7 @@
1379
1393
  </rect>
1380
1394
  </property>
1381
1395
  <property name="orientation">
1382
- <enum>Qt::Horizontal</enum>
1396
+ <enum>Qt::Orientation::Horizontal</enum>
1383
1397
  </property>
1384
1398
  </widget>
1385
1399
  <widget class="QLabel" name="label_10">
@@ -1619,7 +1633,7 @@
1619
1633
  <string>Timecourse (seconds)</string>
1620
1634
  </property>
1621
1635
  <property name="alignment">
1622
- <set>Qt::AlignCenter</set>
1636
+ <set>Qt::AlignmentFlag::AlignCenter</set>
1623
1637
  </property>
1624
1638
  </widget>
1625
1639
  <widget class="QLabel" name="label_12">
@@ -1635,7 +1649,7 @@
1635
1649
  <string>Power spectrum (Hz)</string>
1636
1650
  </property>
1637
1651
  <property name="alignment">
1638
- <set>Qt::AlignCenter</set>
1652
+ <set>Qt::AlignmentFlag::AlignCenter</set>
1639
1653
  </property>
1640
1654
  </widget>
1641
1655
  </widget>
@@ -1646,7 +1660,7 @@
1646
1660
  <x>0</x>
1647
1661
  <y>0</y>
1648
1662
  <width>1129</width>
1649
- <height>22</height>
1663
+ <height>24</height>
1650
1664
  </rect>
1651
1665
  </property>
1652
1666
  </widget>
@@ -1689,7 +1703,7 @@
1689
1703
  </property>
1690
1704
  </designerdata>
1691
1705
  <buttongroups>
1692
- <buttongroup name="colormap_buttonGroup"/>
1693
1706
  <buttongroup name="stats_buttonGroup"/>
1707
+ <buttongroup name="colormap_buttonGroup"/>
1694
1708
  </buttongroups>
1695
1709
  </ui>