rapidtide 3.0a11__py3-none-any.whl → 3.0a12__py3-none-any.whl

rapidtide/workflows/rapidtide_parser.py

@@ -80,6 +80,7 @@ DEFAULT_REFINE_PRENORM = "var"
 DEFAULT_REFINE_WEIGHTING = "None"
 DEFAULT_REFINE_PCACOMPONENTS = 0.8
 DEFAULT_GLMDERIVS = 0
+DEFAULT_REFINEGLMDERIVS = 1
 
 DEFAULT_DENOISING_LAGMIN = -10.0
 DEFAULT_DENOISING_LAGMAX = 10.0
@@ -309,7 +310,7 @@ def _get_parser():
         dest="realtr",
         action="store",
         metavar="TSTEP",
-        type=lambda x: pf.is_float(parser, x),
+        type=lambda x: pf.is_float(parser, x, minval=0.0),
         help=(
             "Set the timestep of the data file to TSTEP. "
             "This will override the TR in an "
@@ -395,7 +396,7 @@ def _get_parser():
         "--detrendorder",
         dest="detrendorder",
         action="store",
-        type=int,
+        type=lambda x: pf.is_int(parser, x, minval=0),
         metavar="ORDER",
         help=(f"Set order of trend removal (0 to disable). Default is {DEFAULT_DETREND_ORDER}."),
         default=DEFAULT_DETREND_ORDER,
@@ -514,7 +515,7 @@ def _get_parser():
         "--confoundpowers",
         dest="confound_power",
         metavar="N",
-        type=int,
+        type=lambda x: pf.is_int(parser, x, minval=1),
         help=(
             "Include powers of each confound regressor up to order N. Default is 1 (no expansion). "
         ),
@@ -580,7 +581,7 @@ def _get_parser():
         "--numskip",
         dest="preprocskip",
         action="store",
-        type=int,
+        type=lambda x: pf.is_int(parser, x, minval=0),
         metavar="SKIP",
         help=(
             "SKIP TRs were previously deleted during "
@@ -672,7 +673,7 @@ def _get_parser():
         "--regressorfreq",
         dest="inputfreq",
         action="store",
-        type=lambda x: pf.is_float(parser, x),
+        type=lambda x: pf.is_float(parser, x, minval=0.0),
         metavar="FREQ",
         help=(
             "Probe regressor in file has sample "
@@ -888,7 +889,7 @@ def _get_parser():
         "--despecklepasses",
         dest="despeckle_passes",
         action=pf.IndicateSpecifiedAction,
-        type=int,
+        type=lambda x: pf.is_int(parser, x, minval=0),
         metavar="PASSES",
         help=(
             "Detect and refit suspect correlations to "
@@ -943,7 +944,7 @@ def _get_parser():
         "--passes",
         dest="passes",
         action=pf.IndicateSpecifiedAction,
-        type=int,
+        type=lambda x: pf.is_int(parser, x, minval=1),
         metavar="PASSES",
         help=("Set the number of processing passes to PASSES.  " f"Default is {DEFAULT_PASSES}."),
         default=DEFAULT_PASSES,
@@ -1157,7 +1158,7 @@ def _get_parser():
         "--maxpasses",
         dest="maxpasses",
         action="store",
-        type=int,
+        type=lambda x: pf.is_int(parser, x, minval=1),
         metavar="MAXPASSES",
         help=(
             "Terminate refinement after MAXPASSES passes, whether or not convergence has occurred. "
@@ -1203,7 +1204,7 @@ def _get_parser():
         "--glmderivs",
         dest="glmderivs",
         action="store",
-        type=int,
+        type=lambda x: pf.is_int(parser, x, minval=0),
         metavar="NDERIVS",
         help=(
             f"When doing final GLM, include derivatives up to NDERIVS order. Default is {DEFAULT_GLMDERIVS}"
@@ -1221,7 +1222,9 @@ def _get_parser():
         "--refinedelay",
         dest="dummy",
         action="store_true",
-        help=("Calculate a refined delay map using GLM information. ***DEPRECATED*** - this is now on by default."),
+        help=(
+            "Calculate a refined delay map using GLM information. ***DEPRECATED*** - this is now on by default."
+        ),
         default=True,
     )
     glm.add_argument(
@@ -1297,7 +1300,7 @@ def _get_parser():
         "--histlen",  # was -h
         dest="histlen",
         action="store",
-        type=int,
+        type=lambda x: pf.is_int(parser, x, minval=5),
         metavar="HISTLEN",
         help=(f"Change the histogram length to HISTLEN.  Default is {DEFAULT_HISTLEN}."),
         default=DEFAULT_HISTLEN,
@@ -1349,7 +1352,7 @@ def _get_parser():
         "--mklthreads",
         dest="mklthreads",
         action="store",
-        type=int,
+        type=lambda x: pf.is_int(parser, x, minval=1),
         metavar="MKLTHREADS",
         help=(
             "If mkl library is installed, use no more than MKLTHREADS worker "
@@ -1463,6 +1466,25 @@ def _get_parser():
     experimental = parser.add_argument_group(
         "Experimental options (not fully tested, or not tested at all, may not work).  Beware!"
     )
+    experimental.add_argument(
+        "--refineglmderivs",
+        dest="refineglmderivs",
+        action="store",
+        type=lambda x: pf.is_int(parser, x, minval=1),
+        metavar="NDERIVS",
+        help=(
+            f"When doing GLM for delay refinement, include derivatives up to NDERIVS order. Must be 1 or more.  "
+            f"Default is {DEFAULT_REFINEGLMDERIVS}"
+        ),
+        default=DEFAULT_REFINEGLMDERIVS,
+    )
+    experimental.add_argument(
+        "--dofinalrefine",
+        dest="dofinalrefine",
+        action="store_true",
+        help=("Do regressor refinement on the final pass."),
+        default=False,
+    )
     experimental.add_argument(
         "--territorymap",
         dest="territorymap",
@@ -1542,7 +1564,7 @@ def _get_parser():
         "--noisefreq",
         dest="noisefreq",
         action="store",
-        type=lambda x: pf.is_float(parser, x),
+        type=lambda x: pf.is_float(parser, x, minval=0.0),
         metavar="FREQ",
         help=(
             "Noise timecourse in file has sample "

rapidtide/workflows/retroglm.py

@@ -57,6 +57,7 @@ DEFAULT_REFINEDELAYMINDELAY = -5.0
 DEFAULT_REFINEDELAYMAXDELAY = 5.0
 DEFAULT_REFINEDELAYNUMPOINTS = 501
 DEFAULT_DELAYOFFSETSPATIALFILT = -1
+DEFAULT_REFINEGLMDERIVS = 1
 
 
 def _get_parser():
@@ -91,7 +92,7 @@ def _get_parser():
         "--glmderivs",
         dest="glmderivs",
         action="store",
-        type=int,
+        type=lambda x: pf.is_int(parser, x, minval=0),
         metavar="NDERIVS",
         help=(
             f"When doing final GLM, include derivatives up to NDERIVS order. Default is {DEFAULT_GLMDERIVS}"
@@ -115,7 +116,7 @@ def _get_parser():
         "--numskip",
         dest="numskip",
         action="store",
-        type=int,
+        type=lambda x: pf.is_int(parser, x, minval=0),
         metavar="NUMSKIP",
         help=("Skip NUMSKIP points at the beginning of the fmri file."),
         default=0,
@@ -213,6 +214,21 @@ def _get_parser():
         help=("Output lots of helpful information on a limited subset of operations."),
         default=False,
     )
+    experimental = parser.add_argument_group(
+        "Experimental options (not fully tested, or not tested at all, may not work).  Beware!"
+    )
+    experimental.add_argument(
+        "--refineglmderivs",
+        dest="refineglmderivs",
+        action="store",
+        type=lambda x: pf.is_int(parser, x, minval=1),
+        metavar="NDERIVS",
+        help=(
+            f"When doing GLM for delay refinement, include derivatives up to NDERIVS order. Must be 1 or more.  "
+            f"Default is {DEFAULT_REFINEGLMDERIVS}"
+        ),
+        default=DEFAULT_REFINEGLMDERIVS,
+    )
 
     return parser
 
@@ -430,7 +446,7 @@ def retroglm(args):
         print(f"{numvalidspatiallocs=}")
     internalvalidspaceshape = numvalidspatiallocs
     if args.refinedelay:
-        derivaxissize = np.max([2, args.glmderivs + 1])
+        derivaxissize = np.max([args.refineglmderivs + 1, args.glmderivs + 1])
     else:
         derivaxissize = args.glmderivs + 1
     internalvalidspaceshapederivs = (
@@ -505,6 +521,7 @@ def retroglm(args):
         threshval = therunoptions["glmthreshval"]
     except KeyError:
         threshval = 0.0
+        therunoptions["glmthreshval"] = threshval
     mode = "glm"
 
     if args.debug or args.focaldebug:
@@ -579,54 +596,94 @@ def retroglm(args):
             glmmean,
             rvalue,
             r2value,
-            fitNorm[:, :2],
-            fitcoeff[:, :2],
+            fitNorm[:, : (args.refineglmderivs + 1)],
+            fitcoeff[:, : (args.refineglmderivs + 1)],
             movingsignal,
             lagtc,
             filtereddata,
             LGR,
             TimingLGR,
             therunoptions,
+            glmderivs=args.refineglmderivs,
             debug=args.debug,
         )
 
-        medfiltglmderivratios, filteredglmderivratios, delayoffsetMAD = (
-            tide_refinedelay.filterderivratios(
-                glmderivratios,
-                (xsize, ysize, numslices),
-                validvoxels,
-                (xdim, ydim, slicedim),
-                gausssigma=args.delayoffsetgausssigma,
-                patchthresh=args.delaypatchthresh,
-                fileiscifti=False,
-                textio=False,
-                rt_floattype=rt_floattype,
+        if args.refineglmderivs == 1:
+            medfiltglmderivratios, filteredglmderivratios, delayoffsetMAD = (
+                tide_refinedelay.filterderivratios(
+                    glmderivratios,
+                    (xsize, ysize, numslices),
+                    validvoxels,
+                    (xdim, ydim, slicedim),
+                    gausssigma=args.delayoffsetgausssigma,
+                    patchthresh=args.delaypatchthresh,
+                    fileiscifti=False,
+                    textio=False,
+                    rt_floattype=rt_floattype,
+                    debug=args.debug,
+                )
+            )
+
+            # find the mapping of glm ratios to delays
+            tide_refinedelay.trainratiotooffset(
+                genlagtc,
+                initial_fmri_x,
+                outputname,
+                args.outputlevel,
+                mindelay=args.mindelay,
+                maxdelay=args.maxdelay,
+                numpoints=args.numpoints,
                 debug=args.debug,
             )
-        )
+            TimingLGR.info("Refinement calibration end")
+
+            # now calculate the delay offsets
+            TimingLGR.info("Calculating delay offsets")
+            delayoffset = np.zeros_like(filteredglmderivratios)
+            if args.focaldebug:
+                print(f"calculating delayoffsets for {filteredglmderivratios.shape[0]} voxels")
+            for i in range(filteredglmderivratios.shape[0]):
+                delayoffset[i] = tide_refinedelay.ratiotodelay(filteredglmderivratios[i])
+                """delayoffset[i] = tide_refinedelay.coffstodelay(
+                    np.asarray([filteredglmderivratios[i]]),
+                    mindelay=args.mindelay,
+                    maxdelay=args.maxdelay,
+                )"""
+
+            refinedvoxelstoreport = filteredglmderivratios.shape[0]
+        else:
+            medfiltglmderivratios = np.zeros_like(glmderivratios)
+            filteredglmderivratios = np.zeros_like(glmderivratios)
+            delayoffsetMAD = np.zeros(args.refineglmderivs, dtype=float)
+            for i in range(args.refineglmderivs):
+                medfiltglmderivratios[i, :], filteredglmderivratios[i, :], delayoffsetMAD[i] = (
+                    tide_refinedelay.filterderivratios(
+                        glmderivratios[i, :],
+                        (xsize, ysize, numslices),
+                        validvoxels,
+                        (xdim, ydim, slicedim),
+                        gausssigma=args.delayoffsetgausssigma,
+                        patchthresh=args.delaypatchthresh,
+                        fileiscifti=False,
+                        textio=False,
+                        rt_floattype=rt_floattype,
+                        debug=args.debug,
+                    )
+                )
+
+            # now calculate the delay offsets
+            delayoffset = np.zeros_like(filteredglmderivratios[0, :])
+            if args.debug:
+                print(f"calculating delayoffsets for {filteredglmderivratios.shape[1]} voxels")
+            for i in range(filteredglmderivratios.shape[1]):
+                delayoffset[i] = tide_refinedelay.coffstodelay(
+                    filteredglmderivratios[:, i],
+                    mindelay=args.mindelay,
+                    maxdelay=args.maxdelay,
+                )
+            refinedvoxelstoreport = filteredglmderivratios.shape[1]
 
-        # find the mapping of glm ratios to delays
-        tide_refinedelay.trainratiotooffset(
-            genlagtc,
-            initial_fmri_x,
-            outputname,
-            args.outputlevel,
-            mindelay=args.mindelay,
-            maxdelay=args.maxdelay,
-            numpoints=args.numpoints,
-            debug=args.debug,
-        )
-        TimingLGR.info("Refinement calibration end")
-
-        # now calculate the delay offsets
-        TimingLGR.info("Calculating delay offsets")
-        delayoffset = filteredglmderivratios * 0.0
-        if args.focaldebug:
-            print(f"calculating delayoffsets for {filteredglmderivratios.shape[0]} voxels")
-        for i in range(filteredglmderivratios.shape[0]):
-            delayoffset[i] = tide_refinedelay.ratiotodelay(filteredglmderivratios[i])
         namesuffix = "_desc-delayoffset_hist"
-
         tide_stats.makeandsavehistogram(
             delayoffset,
             therunoptions["histlen"],
@@ -641,7 +698,7 @@ def retroglm(args):
         TimingLGR.info(
             "Delay offset calculation done",
             {
-                "message2": filteredglmderivratios.shape[0],
+                "message2": refinedvoxelstoreport,
                 "message3": "voxels",
             },
         )
@@ -824,28 +881,56 @@ def retroglm(args):
             ]
 
     if args.refinedelay:
+        if args.refineglmderivs > 1:
+            for i in range(args.refineglmderivs):
+                maplist += [
+                    (
+                        glmderivratios[i, :],
+                        f"glmderivratios_{i}",
+                        "map",
+                        None,
+                        f"Ratio of derivative {i+1} of delayed sLFO to the delayed sLFO",
+                    ),
+                    (
+                        medfiltglmderivratios[i, :],
+                        f"medfiltglmderivratios_{i}",
+                        "map",
+                        None,
+                        f"Median filtered version of the glmderivratios_{i} map",
+                    ),
+                    (
+                        filteredglmderivratios[i, :],
+                        f"filteredglmderivratios_{i}",
+                        "map",
+                        None,
+                        f"glmderivratios_{i}, with outliers patched using median filtered data",
+                    ),
+                ]
+        else:
+            maplist += [
+                (
+                    glmderivratios,
+                    "glmderivratios",
+                    "map",
+                    None,
+                    "Ratio of the first derivative of delayed sLFO to the delayed sLFO",
+                ),
+                (
+                    medfiltglmderivratios,
+                    "medfiltglmderivratios",
+                    "map",
+                    None,
+                    "Median filtered version of the glmderivratios map",
+                ),
+                (
+                    filteredglmderivratios,
+                    "filteredglmderivratios",
+                    "map",
+                    None,
+                    "glmderivratios, with outliers patched using median filtered data",
+                ),
+            ]
         maplist += [
-            (
-                glmderivratios,
-                "glmderivratios",
-                "map",
-                None,
-                "Ratio of the first derivative of delayed sLFO to the delayed sLFO",
-            ),
-            (
-                medfiltglmderivratios,
-                "medfiltglmderivratios",
-                "map",
-                None,
-                "Median filtered version of the glmderivratios map",
-            ),
-            (
-                filteredglmderivratios,
-                "filteredglmderivratios",
-                "map",
-                None,
-                "glmderivratios, with outliers patched using median filtered data",
-            ),
             (
                 delayoffset,
                 "delayoffset",

rapidtide/workflows/tidepool.py

@@ -1982,13 +1982,13 @@ def tidepool(args):
             "funcmask": "p_lt_0p050_mask",
         },
         "lagsigma": {
-            "colormap": gen_spectrum_state(),
+            "colormap": gen_plasma_state(),
             "label": "Similarity width",
             "display": True,
             "funcmask": "p_lt_0p050_mask",
         },
         "MTT": {
-            "colormap": gen_spectrum_state(),
+            "colormap": gen_plasma_state(),
             "label": "MTT",
             "display": extramaps,
             "funcmask": "p_lt_0p050_mask",

{rapidtide-3.0a11.dist-info → rapidtide-3.0a12.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.2
 Name: rapidtide
-Version: 3.0a11
+Version: 3.0a12
 Summary: Tools for performing correlation analysis on fMRI data.
 Author: Taylor Salo, Daniel M. Drucker, Ph.D., Jeffrey N Stout, Yaroslav O. Halchenko, Derek Monroe
 Author-email: "Blaise deB. Frederick" <blaise.frederick@gmail.com>

{rapidtide-3.0a11.dist-info → rapidtide-3.0a12.dist-info}/RECORD

@@ -9,6 +9,7 @@ cloud/simple-cp-test,sha256=5ef8wmLfcKdny59BV6_DnAPj7O_mi0rOHdFZVN2iiLA,421
 rapidtide/Colortables.py,sha256=AQC-aHwgemxZNKtf8du7Oe08IKKxuOsUF1bDEdSyleY,5804
 rapidtide/OrthoImageItem.py,sha256=uN-fMX4vVB00-AFoUnfOXXq1qjLXruzOqYttNJYpIpM,21669
 rapidtide/RapidtideDataset.py,sha256=BEGznVDvLzL1Cd9TtuwicCYXcVug8hX1t-6qnEjMEDg,52239
+rapidtide/Refiner.py,sha256=9__em_DB8apzId7joLC0L_eermTUVMWDN8P9I54Gurc,17223
 rapidtide/__init__.py,sha256=DrceP8tLrtTWV8PwS7YAgw6NuFkKAREFM7FsTaZob-s,96
 rapidtide/_version.py,sha256=cTDBv24D1_YgVeFU_x3GvlNlQD-clOji6E0Sb34osJY,24506
 rapidtide/calcandfitcorrpairs.py,sha256=UmCp9eSU--HCYd7frdO9ctnMeDK32D1Eb53b1hdzw9w,7397
@@ -21,7 +22,7 @@ rapidtide/externaltools.py,sha256=YhxuSn5z3v5E7PzB07yftXJGw95rs95Nmxbq4Wo2fhU,39
 rapidtide/fMRIData_class.py,sha256=TrR-MyIBEzbUgUq8oQVmjkddnrhxeN_rHlX-En0p4Ao,5102
 rapidtide/filter.py,sha256=Ci62Vcw_qKX--Hzut9kb6XmBLjEe773JyGkGJtnH2g4,71773
 rapidtide/fit.py,sha256=lAzLc19VAhq3QJFSbaCbAWCNDefxSCsJfjW5WLHABMk,67130
-rapidtide/glmpass.py,sha256=Krdgj-pP2Vtelr6qYtMgh2u2C-9thJGwp2FKiEzo-7M,15681
+rapidtide/glmpass.py,sha256=1Wd91y9KrJm2jAccFe7DYBVZCQBab8mQ2TkjDdW1dRM,15953
 rapidtide/happy_supportfuncs.py,sha256=3AuKqhWApvSiHUJS8YGyuuB66pEuodd6rmOp83JEKiU,47839
 rapidtide/helper_classes.py,sha256=jMS1SIU8YFZrZ10s3kOwbT0139CtTG3DLkJoyuDiiNQ,51401
 rapidtide/io.py,sha256=8J57TnfsYtOHJ1fSVGyy4Wnz5tH6djS-d7-i22-M-2c,74421
@@ -32,20 +33,20 @@ rapidtide/multiproc.py,sha256=Ri40ebUkxofKwqIKuZ0_FuQvp4uWFPE8yWMOau3TJ78,6238
 rapidtide/patchmatch.py,sha256=ZhGuJSwd_UBBJERuABLWzE-HvHLtMgP_Ep4-jq3q1rI,20643
 rapidtide/peakeval.py,sha256=4wboYOtGX1q9p2LmAX_eXcw1YsDWhzlGd-hMVQaso9Y,5198
 rapidtide/qualitycheck.py,sha256=VL4vA4IRoTPZ4fJHwKrYXsJDmsEs4qUV9xvxjvKpchA,11917
-rapidtide/refinedelay.py,sha256=lvLGzulhJLkHEXBmC6zBXiHg2UBfrG4yPTczE2qq1Zs,9903
-rapidtide/refineregressor.py,sha256=-_2Vm5YBkIwVkOe8oGCjJP4H3fsn8b4FREKf2Ji26Wo,22375
+rapidtide/refinedelay.py,sha256=Ue3KH1K3S34RaWs6KvmVNCPzyHOYruTXk13VSFdAGCI,11552
+rapidtide/refineregressor.py,sha256=50CXj57k5gccTqfn6tugLM1UxSvr_ImPDch9YwMkL5o,22950
 rapidtide/resample.py,sha256=wM3Ssq71EhAxNYcCmL-5-n6vMgx63S5g9nKOZBOWSLw,30473
 rapidtide/simfuncfit.py,sha256=YEgt-NYp0rVCCcGqnu8FFIQaNLqAJ_6CMg86_ShYHKg,11833
 rapidtide/stats.py,sha256=_UnjWwXo6LjYvaLfwrRhfdQ8wBXXuiuWnTqcld-myDA,29356
-rapidtide/tidepoolTemplate.py,sha256=KFG3UVA2xDKYlxUrboKSFdSZEdMJMpDhXwuq3uw6usg,46225
-rapidtide/tidepoolTemplate.ui,sha256=srYs8VZWgWFgTTJW6sTpzWYch_7iU-xgpTuXHCgefwU,46651
-rapidtide/tidepoolTemplate_alt.py,sha256=tKHsAs1eeP9dyTs6LjsJ5GeF1eLfQW7XDgSvacUfT3M,51839
-rapidtide/tidepoolTemplate_alt.ui,sha256=PKWsr59XCUAMeKtQliV2AxIo4_shgjedCCuwLKzhias,52212
-rapidtide/tidepoolTemplate_alt_qt6.py,sha256=Jef-eekrhR_UJxOttBzz9uxeRoP8CMVcfAQNR7bwD70,52494
-rapidtide/tidepoolTemplate_big.py,sha256=uNWwEeVOdGgOwVIrYXCQE30D2jLxjfrXesBAL5Q42Hk,64978
-rapidtide/tidepoolTemplate_big.ui,sha256=tiOtHirD69_MMFPP4Df4C5JEBoY6v7da-C5xW7-5WOw,65527
-rapidtide/tidepoolTemplate_big_qt6.py,sha256=hzXmpJtEf6M6Zh_OrYfnkEc54AuKFkEU494uN646_dg,65801
-rapidtide/tidepoolTemplate_qt6.py,sha256=8xY0nuF9nEfeQWQPRuglxw6nRaKhIKkLMMIvELJRXSg,46872
+rapidtide/tidepoolTemplate.py,sha256=YK6vXIXfgAq5OHa67RjvL0MhMJIIgjmDpxQY16Cwnl4,46252
+rapidtide/tidepoolTemplate.ui,sha256=WX_ppn1meIWXl_yw0bkSmrsPw_YpylQzPJlf8XYob5w,46676
+rapidtide/tidepoolTemplate_alt.py,sha256=09p8J2a5xJEm8y3VNTCYOHOdDBsFx2W838RgYTnK-r4,51866
+rapidtide/tidepoolTemplate_alt.ui,sha256=PMvFcSKJKfGboq-YOntzGqwIg1xLHfCnbXEW0ooI5A0,52237
+rapidtide/tidepoolTemplate_alt_qt6.py,sha256=FivtOPUCQifXrvjYFhkJ-z05fHD2yJYbKKfIT4nr2Fc,52521
+rapidtide/tidepoolTemplate_big.py,sha256=60RdSehVFi2V38G_8ByhGILfCGf4g6lSnKV42HdCAoQ,65005
+rapidtide/tidepoolTemplate_big.ui,sha256=lJYAJHJA8iJYJTlnq5GllkW-VMRrpLhDL4kskwU14Xw,65552
+rapidtide/tidepoolTemplate_big_qt6.py,sha256=iD8q4FhTyMknjhRy5H_EFQliW4cWIwyL43EE1v5Kujw,65828
+rapidtide/tidepoolTemplate_qt6.py,sha256=MGgLo3q8RnvM4uuWIIEqNz0tRil7dGweyX5jF8lNUtQ,46899
 rapidtide/transformerdlfilter.py,sha256=oODhn4CVtlT7ua72ADWw0LYmkJznDfH8gB3YmlY_w00,4551
 rapidtide/util.py,sha256=Su9SUUR3_KVUzLyzTfCzXO9mDbdO-AD99MlIrn_YPoA,35926
 rapidtide/wiener.py,sha256=ls3jJvuTRlyJl1qL8SxYdct1vZD3yQ9Mhp8hb2lpx1E,4128
@@ -62,18 +63,21 @@ rapidtide/data/examples/src/testcomplex,sha256=PFY_d30eqYBx5K8cPP_WxsP2YPlYuawo8
 rapidtide/data/examples/src/testdecomp,sha256=xxxr510aOBjtpJy4aQNAFTyEFZD6QdHp6-Aa_esYalY,269
 rapidtide/data/examples/src/testfileorfloat,sha256=9r4mz7pBV_8iFZya9kmtfbnTRS3-94Cx9Q63Ni3mkZs,815
 rapidtide/data/examples/src/testfingerprint,sha256=RlAIC1lMDWMGzZKxY24DJRuaUEL0BenSFBey0gL5dqU,402
-rapidtide/data/examples/src/testfmri,sha256=vLftCOpC0rWy0QNNv-7FdWvDQLBRPOYIEYlViXn2r8g,3161
+rapidtide/data/examples/src/testfmri,sha256=b76qgfPF3MhJt3lSN60glr8jdNQ63Y-Zxb8JsDl3lww,203
 rapidtide/data/examples/src/testfmridocker,sha256=jjL7bK29rrcog6uO9BtvcyAU3Sv8_5cbw2nqKoiZ95o,1193
 rapidtide/data/examples/src/testfrozen,sha256=K3qUWDRKPPiCXRgIFuPdwUUjUTzf4QBW8UUhR75NzDM,283
 rapidtide/data/examples/src/testfuncs,sha256=QmVJP8vjr-HqKCAaIz7McdADVZru6Nvwq16h5KPs9ek,1551
 rapidtide/data/examples/src/testglmfilt,sha256=LD2cTB-7yyCc31jAr8UtYksf-Cn-YLC3ScnV3olvpFE,3333
 rapidtide/data/examples/src/testhappy,sha256=7dKe3PM-nPRbsroGRq3RQFFABPdNuByS3aEddgu_Oyc,1712
+rapidtide/data/examples/src/testinitdelay,sha256=ts_r5WZBLJDQ3UfPmJ9sfXlO0arO9dhGCQ_Y1wYvjMk,559
 rapidtide/data/examples/src/testlinfit,sha256=oPnkHJ6lcwsuJhnSMMK7Gx3DHSCf6JK7CIYuIMHbyNA,471
 rapidtide/data/examples/src/testlocalflow,sha256=hEwstisbWVuALr_29fBJ2nHETKkEF_9qK8wJ4kzuiJk,596
+rapidtide/data/examples/src/testnewrefine,sha256=-Y2eK4LGPvPwYCeUt6nGRuuzk468dHsbnnSZplj6L_o,1100
 rapidtide/data/examples/src/testnoiseamp,sha256=ZRu3GstBhdnwZmDF7ExZynOXFFMElWiZuod8LbUKa-I,612
 rapidtide/data/examples/src/testoscorr,sha256=gsQcclL6Il5ir5X1QKZtvqeYBNtCkrYCcJ_3kOcQ2H0,591
 rapidtide/data/examples/src/testoutputsize,sha256=lkF3cWuHCVPn0IVdTaDt-CcKpkXUzusoESLCPriNfsY,1806
 rapidtide/data/examples/src/testpad,sha256=O4bgGWNTMjaitT_yT7UXRKwOl5UFS9nnXjcQTKtIBk0,717
+rapidtide/data/examples/src/testrefineonly,sha256=PyYGqga3b25hgbscX1wrIqvyYDHJ8udD60c5tDPHFTs,595
 rapidtide/data/examples/src/testretro,sha256=6YkGcdCAqPZTgRGQTMMQeNEYmIqKl7wcGe1ip9iIeuM,2559
 rapidtide/data/examples/src/testretrolagtcs,sha256=w86cpMH4Cthx6f8HYNiTnkIL5b86QHb2z1Xq5AUkdiE,567
 rapidtide/data/examples/src/testsimdata,sha256=zqbuBMGMGvwnqfXcmPJoKksC0D4LoykP3s_JktoMyqI,1042
@@ -296,19 +300,19 @@ rapidtide/workflows/niftidecomp.py,sha256=_v4eLxPyQ5YKKjHB8vvqV47Uh3ITcQV4PRq2ks
 rapidtide/workflows/niftistats.py,sha256=jlvdmiat9OOxiWn31UNsxLd5s1_zbFsqU8wNrQ9uLYU,18231
 rapidtide/workflows/pairproc.py,sha256=B0TabhgYZiH4oMqi3n28a2UelaUylrRsHig8zLl3hFs,6584
 rapidtide/workflows/pairwisemergenifti.py,sha256=liE-Jkeh98JXTHU2eQFozuTOhkeMNaFaJ0wGtG1QiyQ,3751
-rapidtide/workflows/parser_funcs.py,sha256=wDghbN0jMIuMIoKGr-OxLkfvYVO10uNl35yS7PMgKwY,27609
+rapidtide/workflows/parser_funcs.py,sha256=GIvkJ9fgk7Xkf6vE3M-sQfcCDMJDFjeCnTuI3nAlCMY,28163
 rapidtide/workflows/physiofreq.py,sha256=cpBaRTS1U4luBfuqtDI3S-lNkNmcIiFviTxMXba4P-E,5194
 rapidtide/workflows/pixelcomp.py,sha256=Z4MOr6b0MVqSvIvJMzV-DubYBgAicRSw47y4_t5vSX4,6545
 rapidtide/workflows/plethquality.py,sha256=ZNkMS6cGkM2UG796KwCrhiCC7mzEmFt62Nxy1-LsV3E,4021
 rapidtide/workflows/polyfitim.py,sha256=18pCkdk176_hyWdCgRe-B4AEP0wjHheWdPq25SsKy6w,10184
 rapidtide/workflows/proj2flow.py,sha256=MWtf0eTyQ7MfIbWRup4s6TLuk-vKbYgWkSZC9BOBYcM,7290
 rapidtide/workflows/rankimage.py,sha256=twZsGJaVd0raffzKlI0Tupy4DJxHyhBv8WqIUNEtiNM,3482
-rapidtide/workflows/rapidtide.py,sha256=fuc4dXb5_FogrkkbPknQYPw_mtULtQfW-aypue-I1k0,177741
+rapidtide/workflows/rapidtide.py,sha256=lQAGLyalyLHDc--7O57TGkk1ppZF0D4AdIKDw2n_uT0,171455
 rapidtide/workflows/rapidtide2std.py,sha256=wGNwyAPnaI3sCG14ORWmlFQRgXmNn6uVVlPirwk1URg,10413
-rapidtide/workflows/rapidtide_parser.py,sha256=dolWcymDQ5w6j9BVotP1Dv9IimjIFRIn187ec2L48Tk,77445
+rapidtide/workflows/rapidtide_parser.py,sha256=rmbJ-Wy9SUbb4iMeLTfZH2X2xBasPJc5ZK3SMY-MLLM,78508
 rapidtide/workflows/resamplenifti.py,sha256=48vf0JT0C4gjPty_R0RDMRd6opilUQ3stevzAvdKInc,4717
 rapidtide/workflows/resampletc.py,sha256=OZJOHnQAaN371pFt_qb8hY8JQ12WggHK6ZP7Q84rvOk,3959
-rapidtide/workflows/retroglm.py,sha256=CIacdcO7T25E3GJhydF77UaUTT-5HM0MU9RvK2CKzY4,37425
+rapidtide/workflows/retroglm.py,sha256=cM3MBjUgrYcJfyaj6VoT3lBpvSaKeMKU7GzN5Pc9mY0,41453
 rapidtide/workflows/retrolagtcs.py,sha256=uewpP6ZpimLrmrRN_iZPjvzITUTWE-mNh1tipFWwVWA,10747
 rapidtide/workflows/roisummarize.py,sha256=hFYkkYV7fL3gNpAu6Diu1KhOUwLm0cNjWX7V2UNhy4M,6710
 rapidtide/workflows/runqualitycheck.py,sha256=zFjyhfh_9A5U5GIFIIkITuYa8XlwiEM_1dYg7IJgF6w,2434
@@ -325,12 +329,12 @@ rapidtide/workflows/spectrogram.py,sha256=ATe6baNL-Rv6rvV6rCcxcBO2naFu0v4UDJ2hX6
 rapidtide/workflows/synthASL.py,sha256=fRfu2lAQwC1Ahi_Sz-mvmp3yZCV_zUWFbu8F9-8RHxM,4971
 rapidtide/workflows/tcfrom2col.py,sha256=El9pjrCfxANFA3s60YvHOTUx3UYaavJgCOIYtMcvKlk,1936
 rapidtide/workflows/tcfrom3col.py,sha256=6tV2lGEtXpI4dn_8kcTCVzZxpJzmopuDwpXvOIE7vzQ,1938
-rapidtide/workflows/tidepool.py,sha256=14yrUQ87syFeTuU0lJBxVz3rBrwV9f4A4fGwVW5Bj_g,86399
+rapidtide/workflows/tidepool.py,sha256=1nYPa_-Z-nYZR-fZNo_8dY9LoO_vl7kwiRC_reM2044,86395
 rapidtide/workflows/utils.py,sha256=k2m2F1-tWxhcUYvk5geO1yl-c5bKcDX7Jv7ohvJZaOk,5379
 rapidtide/workflows/variabilityizer.py,sha256=yQFDTBcGehxW44R_FQHeeKrTpeYrrh96xcW1uWbPtYo,3167
-rapidtide-3.0a11.dist-info/LICENSE,sha256=psuoW8kuDP96RQsdhzwOqi6fyWv0ct8CR6Jr7He_P_k,10173
-rapidtide-3.0a11.dist-info/METADATA,sha256=zVdYRWhcyzi1lh3_CiHvi_yduUOXQLzLep58HsqEQuA,15624
-rapidtide-3.0a11.dist-info/WHEEL,sha256=jB7zZ3N9hIM9adW7qlTAyycLYW9npaWKLRzaoVcLKcM,91
-rapidtide-3.0a11.dist-info/entry_points.txt,sha256=76O4RdCVLd7YrASvmgJQWaRUlgmBzMDU5_XkGIlmuTk,3260
-rapidtide-3.0a11.dist-info/top_level.txt,sha256=MnNXGfbrIBc9RnAqzBHOWd3GQO-aIUDnRTz4_5VjH5g,16
-rapidtide-3.0a11.dist-info/RECORD,,
+rapidtide-3.0a12.dist-info/LICENSE,sha256=psuoW8kuDP96RQsdhzwOqi6fyWv0ct8CR6Jr7He_P_k,10173
+rapidtide-3.0a12.dist-info/METADATA,sha256=T2uFP-QmpBzvvF4DijO6gn0BpQB-292z6PLF3eEjtSo,15624
+rapidtide-3.0a12.dist-info/WHEEL,sha256=beeZ86-EfXScwlR_HKu4SllMC9wUEj_8Z_4FJ3egI2w,91
+rapidtide-3.0a12.dist-info/entry_points.txt,sha256=76O4RdCVLd7YrASvmgJQWaRUlgmBzMDU5_XkGIlmuTk,3260
+rapidtide-3.0a12.dist-info/top_level.txt,sha256=MnNXGfbrIBc9RnAqzBHOWd3GQO-aIUDnRTz4_5VjH5g,16
+rapidtide-3.0a12.dist-info/RECORD,,

{rapidtide-3.0a11.dist-info → rapidtide-3.0a12.dist-info}/WHEEL

@@ -1,5 +1,5 @@
 Wheel-Version: 1.0
-Generator: setuptools (75.8.2)
+Generator: setuptools (76.1.0)
 Root-Is-Purelib: true
 Tag: py3-none-any