What’s new?#

+
+

2.8.1 (January 22, 2024)#

+

Bug-fix release in the 2.8.x series.

+

Fixes doc builds and CLI support for fieldmapless workflows. +Introduces support for BIDS-URIs.

+
    +

  • FIX: Enable fieldmapless by default in CLI (#426)

    • +

  • FIX: Pandoc requires Texlive to render LaTeX in notebook (#427)

    • +

  • FIX: New test test_wrangler_URIs had the wrong oracle (#425)

    • +

  • ENH: Resolve BIDS-URIs (#349)

    • +

  • TEST: Use less confusing function name for testing CLI with –dry-run (#424)

    • +

  • MNT: Bump actions/download-artifact from 3 to 4 (#418)

    • +

  • MNT: Bump actions/upload-artifact from 3 to 4 (#417)

    • +

  • CI: Move PR doc build into main doc build, add texlive to build dependencies (#428)

    • +
+

2.8.0 (January 10, 2024)#

-

New feature release in the 2.8.0 series.

+

New feature release in the 2.8.x series.

This release fixes a bug in converting SyN-SDC displacements to fieldmaps, resulting in exaggerated corrections. As this makes changes to the structure of a workflow and the expected inputs of a workflow node, this release is @@ -951,6 +967,7 @@

0.1.0 (July 22, 2019)
  • What’s new?
  • What’s new?
      +
    • 2.8.1 (January 22, 2024)
    • 2.8.0 (January 10, 2024)
    • 2.7.0 (December 18, 2023)
    • 2.6.0 (November 10, 2023)
      • diff --git a/master/notebooks/SDC - Theory and physics.ipynb b/master/notebooks/SDC - Theory and physics.ipynb index 3541d924d3..84aa8955d4 100644 --- a/master/notebooks/SDC - Theory and physics.ipynb +++ b/master/notebooks/SDC - Theory and physics.ipynb @@ -16,10 +16,10 @@ "id": "031f06b5", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:48.080947Z", - "iopub.status.busy": "2024-01-18T18:52:48.080739Z", - "iopub.status.idle": "2024-01-18T18:52:49.114348Z", - "shell.execute_reply": "2024-01-18T18:52:49.113702Z" + "iopub.execute_input": "2024-01-22T15:30:38.841562Z", + "iopub.status.busy": "2024-01-22T15:30:38.841053Z", + "iopub.status.idle": "2024-01-22T15:30:39.674885Z", + "shell.execute_reply": "2024-01-22T15:30:39.674309Z" } }, "outputs": [], @@ -33,10 +33,10 @@ "id": "bd6b80c5", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:49.117096Z", - "iopub.status.busy": "2024-01-18T18:52:49.116834Z", - "iopub.status.idle": "2024-01-18T18:52:49.135878Z", - "shell.execute_reply": "2024-01-18T18:52:49.135253Z" + "iopub.execute_input": "2024-01-22T15:30:39.677813Z", + "iopub.status.busy": "2024-01-22T15:30:39.677291Z", + "iopub.status.idle": "2024-01-22T15:30:39.695504Z", + "shell.execute_reply": "2024-01-22T15:30:39.694929Z" } }, "outputs": [], @@ -65,10 +65,10 @@ "id": "900e432b", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:49.138774Z", - "iopub.status.busy": "2024-01-18T18:52:49.138389Z", - "iopub.status.idle": "2024-01-18T18:52:51.199177Z", - "shell.execute_reply": "2024-01-18T18:52:51.198513Z" + "iopub.execute_input": "2024-01-22T15:30:39.698024Z", + "iopub.status.busy": "2024-01-22T15:30:39.697678Z", + "iopub.status.idle": "2024-01-22T15:30:41.706934Z", + "shell.execute_reply": "2024-01-22T15:30:41.706342Z" } }, "outputs": [], @@ -86,10 +86,10 @@ "id": "e41f635f", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:51.201834Z", - "iopub.status.busy": "2024-01-18T18:52:51.201652Z", - "iopub.status.idle": "2024-01-18T18:52:51.208928Z", - "shell.execute_reply": "2024-01-18T18:52:51.208437Z" + "iopub.execute_input": "2024-01-22T15:30:41.709825Z", + "iopub.status.busy": "2024-01-22T15:30:41.709299Z", + "iopub.status.idle": "2024-01-22T15:30:41.716985Z", + "shell.execute_reply": "2024-01-22T15:30:41.716513Z" } }, "outputs": [], @@ -169,10 +169,10 @@ "id": "e5f439e3", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:51.211143Z", - "iopub.status.busy": "2024-01-18T18:52:51.210788Z", - "iopub.status.idle": "2024-01-18T18:52:51.279852Z", - "shell.execute_reply": "2024-01-18T18:52:51.279245Z" + "iopub.execute_input": "2024-01-22T15:30:41.719227Z", + "iopub.status.busy": "2024-01-22T15:30:41.718842Z", + "iopub.status.idle": "2024-01-22T15:30:41.784238Z", + "shell.execute_reply": "2024-01-22T15:30:41.783714Z" } }, "outputs": [], @@ -186,10 +186,10 @@ "id": "4b65f3fe", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:51.282374Z", - "iopub.status.busy": "2024-01-18T18:52:51.282185Z", - "iopub.status.idle": "2024-01-18T18:52:51.285632Z", - "shell.execute_reply": "2024-01-18T18:52:51.285084Z" + "iopub.execute_input": "2024-01-22T15:30:41.786837Z", + "iopub.status.busy": "2024-01-22T15:30:41.786461Z", + "iopub.status.idle": "2024-01-22T15:30:41.789858Z", + "shell.execute_reply": "2024-01-22T15:30:41.789279Z" } }, "outputs": [], @@ -205,10 +205,10 @@ "id": "a3e1240b", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:51.287718Z", - "iopub.status.busy": "2024-01-18T18:52:51.287411Z", - "iopub.status.idle": "2024-01-18T18:52:51.583143Z", - "shell.execute_reply": "2024-01-18T18:52:51.582516Z" + "iopub.execute_input": "2024-01-22T15:30:41.792085Z", + "iopub.status.busy": "2024-01-22T15:30:41.791751Z", + "iopub.status.idle": "2024-01-22T15:30:42.063745Z", + "shell.execute_reply": "2024-01-22T15:30:42.063120Z" } }, "outputs": [ @@ -243,10 +243,10 @@ "id": "39451ae7", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:51.585618Z", - "iopub.status.busy": "2024-01-18T18:52:51.585270Z", - "iopub.status.idle": "2024-01-18T18:52:51.996467Z", - "shell.execute_reply": "2024-01-18T18:52:51.995862Z" + "iopub.execute_input": "2024-01-22T15:30:42.066231Z", + "iopub.status.busy": "2024-01-22T15:30:42.065875Z", + "iopub.status.idle": "2024-01-22T15:30:42.442038Z", + "shell.execute_reply": "2024-01-22T15:30:42.441399Z" } }, "outputs": [ @@ -279,10 +279,10 @@ "id": "acb35b9f", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:51.999371Z", - "iopub.status.busy": "2024-01-18T18:52:51.998917Z", - "iopub.status.idle": "2024-01-18T18:52:52.321911Z", - "shell.execute_reply": "2024-01-18T18:52:52.321316Z" + "iopub.execute_input": "2024-01-22T15:30:42.444534Z", + "iopub.status.busy": "2024-01-22T15:30:42.444137Z", + "iopub.status.idle": "2024-01-22T15:30:42.721320Z", + "shell.execute_reply": "2024-01-22T15:30:42.720807Z" } }, "outputs": [ @@ -319,10 +319,10 @@ "id": "668ea6a6", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:52.324560Z", - "iopub.status.busy": "2024-01-18T18:52:52.324085Z", - "iopub.status.idle": "2024-01-18T18:52:52.329767Z", - "shell.execute_reply": "2024-01-18T18:52:52.329325Z" + "iopub.execute_input": "2024-01-22T15:30:42.724424Z", + "iopub.status.busy": "2024-01-22T15:30:42.724017Z", + "iopub.status.idle": "2024-01-22T15:30:42.729487Z", + "shell.execute_reply": "2024-01-22T15:30:42.729003Z" } }, "outputs": [], @@ -336,10 +336,10 @@ "id": "3cbfad11", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:52.331920Z", - "iopub.status.busy": "2024-01-18T18:52:52.331586Z", - "iopub.status.idle": "2024-01-18T18:52:52.698190Z", - "shell.execute_reply": "2024-01-18T18:52:52.697616Z" + "iopub.execute_input": "2024-01-22T15:30:42.731659Z", + "iopub.status.busy": "2024-01-22T15:30:42.731328Z", + "iopub.status.idle": "2024-01-22T15:30:43.046009Z", + "shell.execute_reply": "2024-01-22T15:30:43.045464Z" } }, "outputs": [ @@ -373,10 +373,10 @@ "id": "1ee31e08", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:52.701150Z", - "iopub.status.busy": "2024-01-18T18:52:52.700763Z", - "iopub.status.idle": "2024-01-18T18:52:52.703968Z", - "shell.execute_reply": "2024-01-18T18:52:52.703490Z" + "iopub.execute_input": "2024-01-22T15:30:43.049023Z", + "iopub.status.busy": "2024-01-22T15:30:43.048613Z", + "iopub.status.idle": "2024-01-22T15:30:43.051752Z", + "shell.execute_reply": "2024-01-22T15:30:43.051205Z" } }, "outputs": [], @@ -391,10 +391,10 @@ "id": "396081d6", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:52.706254Z", - "iopub.status.busy": "2024-01-18T18:52:52.705907Z", - "iopub.status.idle": "2024-01-18T18:52:53.069651Z", - "shell.execute_reply": "2024-01-18T18:52:53.068988Z" + "iopub.execute_input": "2024-01-22T15:30:43.053818Z", + "iopub.status.busy": "2024-01-22T15:30:43.053503Z", + "iopub.status.idle": "2024-01-22T15:30:43.406248Z", + "shell.execute_reply": "2024-01-22T15:30:43.405608Z" } }, "outputs": [ @@ -428,10 +428,10 @@ "id": "e62a83e0", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:53.072182Z", - "iopub.status.busy": "2024-01-18T18:52:53.071830Z", - "iopub.status.idle": "2024-01-18T18:52:53.398167Z", - "shell.execute_reply": "2024-01-18T18:52:53.397612Z" + "iopub.execute_input": "2024-01-22T15:30:43.408750Z", + "iopub.status.busy": "2024-01-22T15:30:43.408394Z", + "iopub.status.idle": "2024-01-22T15:30:43.729185Z", + "shell.execute_reply": "2024-01-22T15:30:43.728665Z" } }, "outputs": [ @@ -472,10 +472,10 @@ "id": "cc305def", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:53.401434Z", - "iopub.status.busy": "2024-01-18T18:52:53.400934Z", - "iopub.status.idle": "2024-01-18T18:52:53.403766Z", - "shell.execute_reply": "2024-01-18T18:52:53.403269Z" + "iopub.execute_input": "2024-01-22T15:30:43.732153Z", + "iopub.status.busy": "2024-01-22T15:30:43.731768Z", + "iopub.status.idle": "2024-01-22T15:30:43.734467Z", + "shell.execute_reply": "2024-01-22T15:30:43.733969Z" } }, "outputs": [], @@ -489,10 +489,10 @@ "id": "daf70d82", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:53.405815Z", - "iopub.status.busy": "2024-01-18T18:52:53.405635Z", - "iopub.status.idle": "2024-01-18T18:52:53.754050Z", - "shell.execute_reply": "2024-01-18T18:52:53.753487Z" + "iopub.execute_input": "2024-01-22T15:30:43.736586Z", + "iopub.status.busy": "2024-01-22T15:30:43.736243Z", + "iopub.status.idle": "2024-01-22T15:30:44.072721Z", + "shell.execute_reply": "2024-01-22T15:30:44.072150Z" } }, "outputs": [ @@ -548,10 +548,10 @@ "id": "c0daa39a", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:53.757436Z", - "iopub.status.busy": "2024-01-18T18:52:53.757234Z", - "iopub.status.idle": "2024-01-18T18:52:53.761002Z", - "shell.execute_reply": "2024-01-18T18:52:53.760501Z" + "iopub.execute_input": "2024-01-22T15:30:44.075976Z", + "iopub.status.busy": "2024-01-22T15:30:44.075584Z", + "iopub.status.idle": "2024-01-22T15:30:44.079079Z", + "shell.execute_reply": "2024-01-22T15:30:44.078500Z" } }, "outputs": [], @@ -566,10 +566,10 @@ "id": "48a18834", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:53.762978Z", - "iopub.status.busy": "2024-01-18T18:52:53.762801Z", - "iopub.status.idle": "2024-01-18T18:52:53.765980Z", - "shell.execute_reply": "2024-01-18T18:52:53.765507Z" + "iopub.execute_input": "2024-01-22T15:30:44.081200Z", + "iopub.status.busy": "2024-01-22T15:30:44.080855Z", + "iopub.status.idle": "2024-01-22T15:30:44.083695Z", + "shell.execute_reply": "2024-01-22T15:30:44.083246Z" } }, "outputs": [], @@ -584,10 +584,10 @@ "id": "a66a77e1", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:53.767914Z", - "iopub.status.busy": "2024-01-18T18:52:53.767739Z", - "iopub.status.idle": "2024-01-18T18:52:53.928598Z", - "shell.execute_reply": "2024-01-18T18:52:53.927927Z" + "iopub.execute_input": "2024-01-22T15:30:44.086101Z", + "iopub.status.busy": "2024-01-22T15:30:44.085664Z", + "iopub.status.idle": "2024-01-22T15:30:44.214674Z", + "shell.execute_reply": "2024-01-22T15:30:44.214041Z" } }, "outputs": [ @@ -624,10 +624,10 @@ "id": "a7006222", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:53.930846Z", - "iopub.status.busy": "2024-01-18T18:52:53.930661Z", - "iopub.status.idle": "2024-01-18T18:52:54.118401Z", - "shell.execute_reply": "2024-01-18T18:52:54.117863Z" + "iopub.execute_input": "2024-01-22T15:30:44.216895Z", + "iopub.status.busy": "2024-01-22T15:30:44.216714Z", + "iopub.status.idle": "2024-01-22T15:30:44.372123Z", + "shell.execute_reply": "2024-01-22T15:30:44.371497Z" } }, "outputs": [ @@ -663,10 +663,10 @@ "id": "62a33f4b", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:54.121103Z", - "iopub.status.busy": "2024-01-18T18:52:54.120729Z", - "iopub.status.idle": "2024-01-18T18:52:54.282212Z", - "shell.execute_reply": "2024-01-18T18:52:54.281637Z" + "iopub.execute_input": "2024-01-22T15:30:44.374382Z", + "iopub.status.busy": "2024-01-22T15:30:44.374203Z", + "iopub.status.idle": "2024-01-22T15:30:44.508042Z", + "shell.execute_reply": "2024-01-22T15:30:44.507445Z" } }, "outputs": [ @@ -698,10 +698,10 @@ "id": "e116767b", "metadata": { "execution": { - "iopub.execute_input": "2024-01-18T18:52:54.284731Z", - "iopub.status.busy": "2024-01-18T18:52:54.284353Z", - "iopub.status.idle": "2024-01-18T18:52:54.470747Z", - "shell.execute_reply": "2024-01-18T18:52:54.470228Z" + "iopub.execute_input": "2024-01-22T15:30:44.510493Z", + "iopub.status.busy": "2024-01-22T15:30:44.510160Z", + "iopub.status.idle": "2024-01-22T15:30:44.694909Z", + "shell.execute_reply": "2024-01-22T15:30:44.694301Z" } }, "outputs": [ diff --git a/master/objects.inv b/master/objects.inv index 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"sdcflows.config.restore_env"]], "run_uuid (sdcflows.config.execution attribute)": [[5, "sdcflows.config.execution.run_uuid"]], "sdcflows.config": [[5, "module-sdcflows.config"]], "session_label (sdcflows.config.execution attribute)": [[5, "sdcflows.config.execution.session_label"]], "sloppy (sdcflows.config.execution attribute)": [[5, "sdcflows.config.execution.sloppy"]], "species (sdcflows.config.workflow attribute)": [[5, "sdcflows.config.workflow.species"]], "stop_on_first_crash (sdcflows.config.nipype attribute)": [[5, "sdcflows.config.nipype.stop_on_first_crash"]], "template_id (sdcflows.config.workflow attribute)": [[5, "sdcflows.config.workflow.template_id"]], "templateflow_home (sdcflows.config.execution attribute)": [[5, "sdcflows.config.execution.templateflow_home"]], "templateflow_version (sdcflows.config.environment attribute)": [[5, "sdcflows.config.environment.templateflow_version"]], "to_filename() (in module sdcflows.config)": [[5, "sdcflows.config.to_filename"]], "total_memory (sdcflows.config.environment attribute)": [[5, "sdcflows.config.environment.total_memory"]], "utils (sdcflows.config.loggers attribute)": [[5, "sdcflows.config.loggers.utils"]], "version (sdcflows.config.environment attribute)": [[5, "sdcflows.config.environment.version"]], "work_dir (sdcflows.config.execution attribute)": [[5, "sdcflows.config.execution.work_dir"]], "workflow (class in sdcflows.config)": [[5, "sdcflows.config.workflow"]], "workflow (sdcflows.config.loggers attribute)": [[5, "sdcflows.config.loggers.workflow"]], "write_graph (sdcflows.config.execution attribute)": [[5, "sdcflows.config.execution.write_graph"]], "loader (class in sdcflows.data)": [[6, "sdcflows.data.Loader"]], "as_path() (sdcflows.data.loader method)": [[6, "sdcflows.data.Loader.as_path"]], "as_path() (sdcflows.data.load method)": [[6, "sdcflows.data.load.as_path"]], "cached() (sdcflows.data.loader method)": [[6, "sdcflows.data.Loader.cached"]], "cached() (sdcflows.data.load method)": [[6, "sdcflows.data.load.cached"]], "load() (in module sdcflows.data)": [[6, "sdcflows.data.load"]], "readable() (sdcflows.data.loader method)": [[6, "sdcflows.data.Loader.readable"]], "readable() (sdcflows.data.load method)": [[6, "sdcflows.data.load.readable"]], "sdcflows.data": [[6, "module-sdcflows.data"]], "estimatortype (class in sdcflows.fieldmaps)": [[7, "sdcflows.fieldmaps.EstimatorType"]], "fieldmapestimation (class in sdcflows.fieldmaps)": [[7, "sdcflows.fieldmaps.FieldmapEstimation"]], "fieldmapfile (class in sdcflows.fieldmaps)": [[7, "sdcflows.fieldmaps.FieldmapFile"]], "metadataerror": [[7, "sdcflows.fieldmaps.MetadataError"]], "bids_id (sdcflows.fieldmaps.fieldmapestimation attribute)": [[7, "sdcflows.fieldmaps.FieldmapEstimation.bids_id"]], "bids_root (sdcflows.fieldmaps.fieldmapfile attribute)": [[7, "sdcflows.fieldmaps.FieldmapFile.bids_root"]], "check_path() (sdcflows.fieldmaps.fieldmapfile method)": [[7, "sdcflows.fieldmaps.FieldmapFile.check_path"]], "clear_registry() (in module sdcflows.fieldmaps)": [[7, "sdcflows.fieldmaps.clear_registry"]], "entities (sdcflows.fieldmaps.fieldmapfile attribute)": [[7, "sdcflows.fieldmaps.FieldmapFile.entities"]], "find_meta (sdcflows.fieldmaps.fieldmapfile attribute)": [[7, "sdcflows.fieldmaps.FieldmapFile.find_meta"]], "get_identifier() (in module sdcflows.fieldmaps)": [[7, "sdcflows.fieldmaps.get_identifier"]], "get_workflow() (sdcflows.fieldmaps.fieldmapestimation method)": [[7, "sdcflows.fieldmaps.FieldmapEstimation.get_workflow"]], "metadata (sdcflows.fieldmaps.fieldmapfile attribute)": [[7, "sdcflows.fieldmaps.FieldmapFile.metadata"]], "method (sdcflows.fieldmaps.fieldmapestimation attribute)": [[7, "sdcflows.fieldmaps.FieldmapEstimation.method"]], "path (sdcflows.fieldmaps.fieldmapfile attribute)": [[7, "sdcflows.fieldmaps.FieldmapFile.path"]], "paths() (sdcflows.fieldmaps.fieldmapestimation method)": [[7, "sdcflows.fieldmaps.FieldmapEstimation.paths"]], "sdcflows.fieldmaps": [[7, "module-sdcflows.fieldmaps"]], "sources (sdcflows.fieldmaps.fieldmapestimation attribute)": [[7, "sdcflows.fieldmaps.FieldmapEstimation.sources"]], "suffix (sdcflows.fieldmaps.fieldmapfile attribute)": [[7, "sdcflows.fieldmaps.FieldmapFile.suffix"]], "sdcflows.interfaces": [[8, "module-sdcflows.interfaces"]], "binarydilation (class in sdcflows.interfaces.brainmask)": [[9, "sdcflows.interfaces.brainmask.BinaryDilation"]], "brainextraction (class in sdcflows.interfaces.brainmask)": [[9, "sdcflows.interfaces.brainmask.BrainExtraction"]], "union (class in sdcflows.interfaces.brainmask)": [[9, "sdcflows.interfaces.brainmask.Union"]], "sdcflows.interfaces.brainmask": [[9, "module-sdcflows.interfaces.brainmask"]], "applycoeffsfield (class in sdcflows.interfaces.bspline)": [[10, "sdcflows.interfaces.bspline.ApplyCoeffsField"]], "bsplineapprox (class in sdcflows.interfaces.bspline)": [[10, "sdcflows.interfaces.bspline.BSplineApprox"]], "topupcoeffreorient (class in sdcflows.interfaces.bspline)": [[10, "sdcflows.interfaces.bspline.TOPUPCoeffReorient"]], "transformcoefficients (class in sdcflows.interfaces.bspline)": [[10, "sdcflows.interfaces.bspline.TransformCoefficients"]], "bspline_grid() (in module sdcflows.interfaces.bspline)": [[10, "sdcflows.interfaces.bspline.bspline_grid"]], "sdcflows.interfaces.bspline": [[10, "module-sdcflows.interfaces.bspline"]], "getreadouttime (class in sdcflows.interfaces.epi)": [[11, "sdcflows.interfaces.epi.GetReadoutTime"]], "sortpeblips (class in sdcflows.interfaces.epi)": [[11, "sdcflows.interfaces.epi.SortPEBlips"]], "sdcflows.interfaces.epi": [[11, "module-sdcflows.interfaces.epi"]], "checkb0units (class in sdcflows.interfaces.fmap)": [[12, "sdcflows.interfaces.fmap.CheckB0Units"]], "checkregister (class in sdcflows.interfaces.fmap)": [[12, "sdcflows.interfaces.fmap.CheckRegister"]], "displacementsfield2fieldmap (class in sdcflows.interfaces.fmap)": [[12, "sdcflows.interfaces.fmap.DisplacementsField2Fieldmap"]], "phasemap2rads (class in sdcflows.interfaces.fmap)": [[12, "sdcflows.interfaces.fmap.PhaseMap2rads"]], "phasediff2fieldmap (class in sdcflows.interfaces.fmap)": [[12, "sdcflows.interfaces.fmap.Phasediff2Fieldmap"]], "subtractphases (class in sdcflows.interfaces.fmap)": [[12, "sdcflows.interfaces.fmap.SubtractPhases"]], "sdcflows.interfaces.fmap": [[12, "module-sdcflows.interfaces.fmap"]], "fieldmapreportlet (class in sdcflows.interfaces.reportlets)": [[13, "sdcflows.interfaces.reportlets.FieldmapReportlet"]], "sdcflows.interfaces.reportlets": [[13, "module-sdcflows.interfaces.reportlets"]], "convertwarp (class in sdcflows.interfaces.utils)": [[14, "sdcflows.interfaces.utils.ConvertWarp"]], "denoiseimage (class in sdcflows.interfaces.utils)": [[14, "sdcflows.interfaces.utils.DenoiseImage"]], "deoblique (class in sdcflows.interfaces.utils)": [[14, "sdcflows.interfaces.utils.Deoblique"]], "flatten (class in sdcflows.interfaces.utils)": [[14, "sdcflows.interfaces.utils.Flatten"]], "padslices (class in sdcflows.interfaces.utils)": [[14, "sdcflows.interfaces.utils.PadSlices"]], "positivedirectioncosines (class in sdcflows.interfaces.utils)": [[14, "sdcflows.interfaces.utils.PositiveDirectionCosines"]], "reoblique (class in sdcflows.interfaces.utils)": [[14, "sdcflows.interfaces.utils.Reoblique"]], "reorientimageandmetadata (class in sdcflows.interfaces.utils)": [[14, "sdcflows.interfaces.utils.ReorientImageAndMetadata"]], "uniformgrid (class in sdcflows.interfaces.utils)": [[14, "sdcflows.interfaces.utils.UniformGrid"]], "sdcflows.interfaces.utils": [[14, "module-sdcflows.interfaces.utils"]], "b0fieldtransform (class in sdcflows.transform)": [[15, "sdcflows.transform.B0FieldTransform"]], "apply() (sdcflows.transform.b0fieldtransform method)": [[15, "sdcflows.transform.B0FieldTransform.apply"]], "coeffs (sdcflows.transform.b0fieldtransform attribute)": [[15, "sdcflows.transform.B0FieldTransform.coeffs"]], "disp_to_fmap() (in module sdcflows.transform)": [[15, "sdcflows.transform.disp_to_fmap"]], "fit() (sdcflows.transform.b0fieldtransform method)": [[15, "sdcflows.transform.B0FieldTransform.fit"]], "fmap_to_disp() (in module sdcflows.transform)": [[15, "sdcflows.transform.fmap_to_disp"]], "grid_bspline_weights() (in module sdcflows.transform)": [[15, "sdcflows.transform.grid_bspline_weights"]], "mapped (sdcflows.transform.b0fieldtransform attribute)": [[15, "sdcflows.transform.B0FieldTransform.mapped"]], "sdcflows.transform": [[15, "module-sdcflows.transform"]], "to_displacements() (sdcflows.transform.b0fieldtransform method)": [[15, "sdcflows.transform.B0FieldTransform.to_displacements"]], "unwarp_parallel() (in module sdcflows.transform)": [[15, "sdcflows.transform.unwarp_parallel"]], "worker() (in module sdcflows.transform)": [[15, "sdcflows.transform.worker"]], "sdcflows.utils": [[16, "module-sdcflows.utils"]], "estimatorregistry (class in sdcflows.utils.bimap)": [[17, "sdcflows.utils.bimap.EstimatorRegistry"]], "add() (sdcflows.utils.bimap.bidict method)": [[17, "sdcflows.utils.bimap.bidict.add"]], "bidict (class in sdcflows.utils.bimap)": [[17, "sdcflows.utils.bimap.bidict"]], "clear() (sdcflows.utils.bimap.bidict method)": [[17, "sdcflows.utils.bimap.bidict.clear"]], "get_key() (sdcflows.utils.bimap.estimatorregistry method)": [[17, "sdcflows.utils.bimap.EstimatorRegistry.get_key"]], "sdcflows.utils.bimap": [[17, "module-sdcflows.utils.bimap"]], "sources (sdcflows.utils.bimap.estimatorregistry property)": [[17, "sdcflows.utils.bimap.EstimatorRegistry.sources"]], "epi_mask() (in module sdcflows.utils.epimanip)": [[18, "sdcflows.utils.epimanip.epi_mask"]], "get_trt() (in module sdcflows.utils.epimanip)": [[18, "sdcflows.utils.epimanip.get_trt"]], "sdcflows.utils.epimanip": [[18, "module-sdcflows.utils.epimanip"]], "front() (in module sdcflows.utils.misc)": [[19, "sdcflows.utils.misc.front"]], "get_free_mem() (in module sdcflows.utils.misc)": [[19, "sdcflows.utils.misc.get_free_mem"]], "last() (in module sdcflows.utils.misc)": [[19, "sdcflows.utils.misc.last"]], "sdcflows.utils.misc": [[19, "module-sdcflows.utils.misc"]], "au2rads() (in module sdcflows.utils.phasemanip)": [[20, "sdcflows.utils.phasemanip.au2rads"]], "delta_te() (in module sdcflows.utils.phasemanip)": [[20, "sdcflows.utils.phasemanip.delta_te"]], "phdiff2fmap() (in module sdcflows.utils.phasemanip)": [[20, "sdcflows.utils.phasemanip.phdiff2fmap"]], "sdcflows.utils.phasemanip": [[20, "module-sdcflows.utils.phasemanip"]], "subtract_phases() (in module sdcflows.utils.phasemanip)": [[20, "sdcflows.utils.phasemanip.subtract_phases"]], "sdcflows.utils.telemetry": [[21, "module-sdcflows.utils.telemetry"]], "send_crumb() (in module sdcflows.utils.telemetry)": [[21, "sdcflows.utils.telemetry.send_crumb"]], "setup_migas() (in module sdcflows.utils.telemetry)": [[21, "sdcflows.utils.telemetry.setup_migas"]], "brain_masker() (in module sdcflows.utils.tools)": [[22, "sdcflows.utils.tools.brain_masker"]], "deoblique_and_zooms() (in module sdcflows.utils.tools)": [[22, "sdcflows.utils.tools.deoblique_and_zooms"]], "ensure_positive_cosines() (in module sdcflows.utils.tools)": [[22, "sdcflows.utils.tools.ensure_positive_cosines"]], "reorient_pedir() (in module sdcflows.utils.tools)": [[22, "sdcflows.utils.tools.reorient_pedir"]], "resample_to_zooms() (in module sdcflows.utils.tools)": [[22, "sdcflows.utils.tools.resample_to_zooms"]], "sdcflows.utils.tools": [[22, "module-sdcflows.utils.tools"]], "find_anatomical_estimators() (in module sdcflows.utils.wrangler)": [[23, "sdcflows.utils.wrangler.find_anatomical_estimators"]], "find_estimators() (in module sdcflows.utils.wrangler)": [[23, "sdcflows.utils.wrangler.find_estimators"]], "sdcflows.utils.wrangler": [[23, "module-sdcflows.utils.wrangler"]], "sdcflows.viz": [[24, "module-sdcflows.viz"]], "coolwarm_transparent() (in module sdcflows.viz.utils)": [[25, "sdcflows.viz.utils.coolwarm_transparent"]], "plot_registration() (in module sdcflows.viz.utils)": [[25, "sdcflows.viz.utils.plot_registration"]], "sdcflows.viz.utils": [[25, "module-sdcflows.viz.utils"]], "sdcflows.workflows": [[26, "module-sdcflows.workflows"]], "init_brainextraction_wf() (in module sdcflows.workflows.ancillary)": [[27, "sdcflows.workflows.ancillary.init_brainextraction_wf"]], "sdcflows.workflows.ancillary": [[27, "module-sdcflows.workflows.ancillary"]], "sdcflows.workflows.apply": [[28, "module-sdcflows.workflows.apply"]], "init_unwarp_wf() (in module sdcflows.workflows.apply.correction)": [[29, "sdcflows.workflows.apply.correction.init_unwarp_wf"]], "sdcflows.workflows.apply.correction": [[29, "module-sdcflows.workflows.apply.correction"]], "init_coeff2epi_wf() (in module sdcflows.workflows.apply.registration)": [[30, "sdcflows.workflows.apply.registration.init_coeff2epi_wf"]], "sdcflows.workflows.apply.registration": [[30, "module-sdcflows.workflows.apply.registration"]], "init_fmap_preproc_wf() (in module sdcflows.workflows.base)": [[31, "sdcflows.workflows.base.init_fmap_preproc_wf"]], "sdcflows.workflows.base": [[31, "module-sdcflows.workflows.base"]], "sdcflows.workflows.fit": [[32, "module-sdcflows.workflows.fit"]], "init_sdcflows_wf() (in module sdcflows.workflows.fit.base)": [[33, "sdcflows.workflows.fit.base.init_sdcflows_wf"]], "sdcflows.workflows.fit.base": [[33, "module-sdcflows.workflows.fit.base"]], "init_fmap_wf() (in module sdcflows.workflows.fit.fieldmap)": [[34, "sdcflows.workflows.fit.fieldmap.init_fmap_wf"]], "init_magnitude_wf() (in module sdcflows.workflows.fit.fieldmap)": [[34, "sdcflows.workflows.fit.fieldmap.init_magnitude_wf"]], "init_phdiff_wf() (in module sdcflows.workflows.fit.fieldmap)": [[34, "sdcflows.workflows.fit.fieldmap.init_phdiff_wf"]], "sdcflows.workflows.fit.fieldmap": [[34, "module-sdcflows.workflows.fit.fieldmap"]], "init_3dqwarp_wf() (in module sdcflows.workflows.fit.pepolar)": [[35, "sdcflows.workflows.fit.pepolar.init_3dQwarp_wf"]], "init_topup_wf() (in module sdcflows.workflows.fit.pepolar)": [[35, "sdcflows.workflows.fit.pepolar.init_topup_wf"]], "sdcflows.workflows.fit.pepolar": [[35, "module-sdcflows.workflows.fit.pepolar"]], "init_syn_preprocessing_wf() (in module sdcflows.workflows.fit.syn)": [[36, "sdcflows.workflows.fit.syn.init_syn_preprocessing_wf"]], "init_syn_sdc_wf() (in module sdcflows.workflows.fit.syn)": [[36, "sdcflows.workflows.fit.syn.init_syn_sdc_wf"]], "match_histogram() (in module sdcflows.workflows.fit.syn)": [[36, "sdcflows.workflows.fit.syn.match_histogram"]], "sdcflows.workflows.fit.syn": [[36, "module-sdcflows.workflows.fit.syn"]], "derivativesdatasink (class in sdcflows.workflows.outputs)": [[37, "sdcflows.workflows.outputs.DerivativesDataSink"]], "init_fmap_derivatives_wf() (in module sdcflows.workflows.outputs)": [[37, "sdcflows.workflows.outputs.init_fmap_derivatives_wf"]], "init_fmap_reports_wf() (in module sdcflows.workflows.outputs)": [[37, "sdcflows.workflows.outputs.init_fmap_reports_wf"]], "sdcflows.workflows.outputs": [[37, "module-sdcflows.workflows.outputs"]]}}) \ No newline at end of file