tomwer 1.3.26__py3-none-any.whl → 1.4.0__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.
- orangecontrib/tomwer/orange/managedprocess.py +1 -29
- orangecontrib/tomwer/orange/settings.py +2 -28
- orangecontrib/tomwer/tests/TestAcquisition.py +220 -0
- orangecontrib/tomwer/tutorials/append_raw_darks_and_flats_frames_to_NXtomos.ows +2 -2
- orangecontrib/tomwer/tutorials/copy_reduced_darks_and_flats_meth1.ows +1 -1
- orangecontrib/tomwer/tutorials/{icat_publication.ows → drac_publication.ows} +7 -21
- orangecontrib/tomwer/tutorials/id16b/ID16b_full_volume.ows +22 -0
- orangecontrib/tomwer/tutorials/id16b/ID16b_insitu.ows +302 -0
- orangecontrib/tomwer/tutorials/id16b/ID16b_normalization.ows +218 -0
- orangecontrib/tomwer/tutorials/simple_volume_to_slurm_reconstruction.ows +29 -24
- orangecontrib/tomwer/tutorials/test_cor.ows +19 -0
- orangecontrib/tomwer/tutorials/volume_casting_on_slurm.ows +54 -0
- orangecontrib/tomwer/widgets/__init__.py +3 -5
- orangecontrib/tomwer/widgets/cluster/FutureSupervisorOW.py +35 -54
- orangecontrib/tomwer/widgets/cluster/SlurmClusterOW.py +1 -31
- orangecontrib/tomwer/widgets/control/AdvancementOW.py +1 -29
- orangecontrib/tomwer/widgets/control/DataDiscoveryOW.py +5 -4
- orangecontrib/tomwer/widgets/control/DataListenerOW.py +1 -29
- orangecontrib/tomwer/widgets/control/DataSelectorOW.py +11 -30
- orangecontrib/tomwer/widgets/control/DataTransfertOW.py +2 -28
- orangecontrib/tomwer/widgets/control/DataValidatorOW.py +1 -28
- orangecontrib/tomwer/widgets/control/DataWatcherOW.py +1 -28
- orangecontrib/tomwer/widgets/control/EDF2NXTomomillOW.py +48 -51
- orangecontrib/tomwer/widgets/control/EmailOW.py +12 -2
- orangecontrib/tomwer/widgets/control/FilterOW.py +1 -28
- orangecontrib/tomwer/widgets/control/NXTomomillOW.py +37 -53
- orangecontrib/tomwer/widgets/control/NXtomoConcatenate.py +21 -20
- orangecontrib/tomwer/widgets/control/NotifierOW.py +9 -28
- orangecontrib/tomwer/widgets/control/ReduceDarkFlatSelectorOW.py +3 -2
- orangecontrib/tomwer/widgets/control/SingleTomoObjOW.py +1 -27
- orangecontrib/tomwer/widgets/control/TimerOW.py +9 -28
- orangecontrib/tomwer/widgets/control/TomoObjSeriesOW.py +58 -0
- orangecontrib/tomwer/widgets/control/VolumeSelector.py +8 -30
- orangecontrib/tomwer/widgets/control/icons/nxtomomill.svg +173 -119
- orangecontrib/tomwer/widgets/control/icons/reduced_darkflat_selector.png +0 -0
- orangecontrib/tomwer/widgets/control/icons/reduced_darkflat_selector.svg +55 -195
- orangecontrib/tomwer/widgets/control/icons/{tomoobjserie.svg → tomoobjseries.svg} +2 -2
- orangecontrib/tomwer/widgets/dataportal/PublishProcessedDataOW.py +172 -0
- orangecontrib/tomwer/widgets/{icat → dataportal}/__init__.py +2 -2
- orangecontrib/tomwer/widgets/debugtools/DatasetGeneratorOW.py +2 -29
- orangecontrib/tomwer/widgets/debugtools/ObjectInspectorOW.py +1 -29
- orangecontrib/tomwer/widgets/edit/DarkFlatPatchOW.py +48 -73
- orangecontrib/tomwer/widgets/edit/ImageKeyEditorOW.py +48 -75
- orangecontrib/tomwer/widgets/edit/ImageKeyUpgraderOW.py +5 -30
- orangecontrib/tomwer/widgets/edit/NXtomoEditorOW.py +51 -52
- orangecontrib/tomwer/widgets/other/PythonScriptOW.py +22 -10
- orangecontrib/tomwer/widgets/reconstruction/AxisOW.py +51 -60
- orangecontrib/tomwer/widgets/reconstruction/CastNabuVolumeOW.py +22 -68
- orangecontrib/tomwer/widgets/reconstruction/DarkRefAndCopyOW.py +3 -30
- orangecontrib/tomwer/widgets/reconstruction/NabuHelicalPrepareWeightsDoubleOW.py +21 -19
- orangecontrib/tomwer/widgets/reconstruction/NabuOW.py +7 -70
- orangecontrib/tomwer/widgets/reconstruction/NabuVolumeOW.py +41 -84
- orangecontrib/tomwer/widgets/reconstruction/SAAxisOW.py +15 -40
- orangecontrib/tomwer/widgets/reconstruction/SADeltaBetaOW.py +13 -35
- orangecontrib/tomwer/widgets/reconstruction/SinoNormOW.py +2 -30
- orangecontrib/tomwer/widgets/stitching/ZStitchingConfigOW.py +11 -11
- orangecontrib/tomwer/widgets/utils.py +2 -29
- orangecontrib/tomwer/widgets/visualization/DataViewerOW.py +1 -27
- orangecontrib/tomwer/widgets/visualization/DiffViewerOW.py +1 -27
- orangecontrib/tomwer/widgets/visualization/NXtomoMetadataViewerOW.py +1 -1
- orangecontrib/tomwer/widgets/visualization/RadioStackOW.py +2 -28
- orangecontrib/tomwer/widgets/visualization/SampleMovedOW.py +1 -27
- orangecontrib/tomwer/widgets/visualization/SinogramViewerOW.py +1 -27
- orangecontrib/tomwer/widgets/visualization/SliceStackOW.py +2 -28
- tomwer/__init__.py +3 -28
- tomwer/__main__.py +8 -4
- tomwer/app/__init__.py +2 -0
- tomwer/app/axis.py +8 -10
- tomwer/app/canvas.py +23 -29
- tomwer/app/canvas_launcher/config.py +14 -102
- tomwer/app/canvas_launcher/environ.py +5 -8
- tomwer/app/canvas_launcher/mainwindow.py +175 -69
- tomwer/app/canvas_launcher/splash.py +1 -3
- tomwer/app/canvas_launcher/utils.py +47 -0
- tomwer/app/canvas_launcher/widgetsscheme.py +3 -10
- tomwer/app/diffframe.py +2 -0
- tomwer/app/imagekeyeditor.py +2 -1
- tomwer/app/imagekeyupgrader.py +2 -0
- tomwer/app/multicor.py +5 -2
- tomwer/app/multipag.py +16 -5
- tomwer/app/nabuapp.py +2 -1
- tomwer/app/nxtomoeditor.py +17 -12
- tomwer/app/patchrawdarkflat.py +2 -0
- tomwer/app/radiostack.py +3 -2
- tomwer/app/reducedarkflat.py +3 -0
- tomwer/app/samplemoved.py +2 -0
- tomwer/app/scanviewer.py +2 -0
- tomwer/app/sinogramviewer.py +2 -0
- tomwer/app/slicestack.py +11 -13
- tomwer/app/stitching/common.py +431 -0
- tomwer/app/stopdatalistener.py +3 -0
- tomwer/app/ystitching.py +26 -0
- tomwer/app/zstitching.py +8 -363
- tomwer/core/__init__.py +2 -28
- tomwer/core/cluster/__init__.py +3 -0
- tomwer/core/cluster/cluster.py +10 -26
- tomwer/core/futureobject.py +17 -43
- tomwer/core/log/__init__.py +2 -0
- tomwer/core/log/processlog.py +0 -28
- tomwer/core/process/cluster/supervisor.py +52 -34
- tomwer/core/process/conditions/filters.py +3 -28
- tomwer/core/process/control/datalistener/datalistener.py +7 -75
- tomwer/core/process/control/datalistener/rpcserver.py +8 -38
- tomwer/core/process/control/datawatcher/datawatcher.py +11 -40
- tomwer/core/process/control/datawatcher/datawatcherobserver.py +30 -64
- tomwer/core/process/control/datawatcher/datawatcherprocess.py +11 -32
- tomwer/core/process/control/datawatcher/edfdwprocess.py +2 -27
- tomwer/core/process/control/datawatcher/hdf5dwprocess.py +1 -26
- tomwer/core/process/control/datawatcher/status.py +1 -26
- tomwer/core/process/control/emailnotifier.py +11 -23
- tomwer/core/process/control/nxtomoconcatenate.py +20 -18
- tomwer/core/process/control/nxtomomill.py +9 -44
- tomwer/core/process/control/scanlist.py +0 -27
- tomwer/core/process/control/scantransfer.py +15 -13
- tomwer/core/process/control/scanvalidator.py +4 -30
- tomwer/core/process/control/{test → tests}/test_concatenate_nxtomos.py +5 -5
- tomwer/core/process/control/timer.py +1 -27
- tomwer/core/process/control/tomoobjseries.py +12 -0
- tomwer/core/process/drac/binning.py +37 -0
- tomwer/core/process/drac/dracbase.py +170 -0
- tomwer/core/process/drac/gallery.py +109 -0
- tomwer/core/process/drac/output.py +12 -0
- tomwer/core/process/drac/processeddataset.py +147 -0
- tomwer/core/process/drac/publish.py +118 -0
- tomwer/core/process/drac/rawdataset.py +142 -0
- tomwer/core/process/drac/tests/test_gallery.py +71 -0
- tomwer/core/process/drac/tests/test_icat_processed_dataset.py +80 -0
- tomwer/core/process/drac/tests/test_icat_raw_dataset.py +90 -0
- tomwer/core/process/edit/darkflatpatch.py +1 -28
- tomwer/core/process/edit/imagekeyeditor.py +4 -32
- tomwer/core/process/edit/nxtomoeditor.py +307 -0
- tomwer/core/process/edit/tests/test_darkflatpatch.py +243 -0
- tomwer/core/process/edit/tests/test_imagekey_editor.py +99 -0
- tomwer/core/process/output.py +9 -2
- tomwer/core/process/reconstruction/__init__.py +0 -26
- tomwer/core/process/reconstruction/axis/anglemode.py +1 -29
- tomwer/core/process/reconstruction/axis/axis.py +47 -804
- tomwer/core/process/reconstruction/axis/mode.py +89 -25
- tomwer/core/process/reconstruction/axis/params.py +131 -283
- tomwer/core/process/reconstruction/axis/projectiontype.py +0 -28
- tomwer/core/process/reconstruction/axis/side.py +8 -0
- tomwer/core/process/reconstruction/darkref/darkrefs.py +14 -39
- tomwer/core/process/reconstruction/darkref/darkrefscopy.py +7 -39
- tomwer/core/process/reconstruction/darkref/params.py +1 -28
- tomwer/core/process/reconstruction/nabu/castvolume.py +19 -34
- tomwer/core/process/reconstruction/nabu/nabucommon.py +18 -43
- tomwer/core/process/reconstruction/nabu/nabuscores.py +64 -68
- tomwer/core/process/reconstruction/nabu/nabuslices.py +63 -105
- tomwer/core/process/reconstruction/nabu/nabuvolume.py +44 -70
- tomwer/core/process/reconstruction/nabu/plane.py +10 -0
- tomwer/core/process/reconstruction/nabu/settings.py +1 -28
- tomwer/core/process/reconstruction/nabu/target.py +0 -28
- tomwer/core/process/reconstruction/nabu/test/test_castvolume.py +116 -0
- tomwer/core/process/reconstruction/nabu/test/test_nabu_utils.py +277 -0
- tomwer/core/process/reconstruction/nabu/test/test_nabunormalization.py +199 -0
- tomwer/core/process/reconstruction/nabu/utils.py +11 -60
- tomwer/core/process/reconstruction/normalization/normalization.py +2 -32
- tomwer/core/process/reconstruction/normalization/params.py +3 -35
- tomwer/core/process/reconstruction/output.py +14 -19
- tomwer/core/process/reconstruction/paramsbase.py +4 -33
- tomwer/core/process/reconstruction/saaxis/params.py +5 -33
- tomwer/core/process/reconstruction/saaxis/saaxis.py +22 -51
- tomwer/core/process/reconstruction/sadeltabeta/params.py +2 -31
- tomwer/core/process/reconstruction/sadeltabeta/sadeltabeta.py +18 -46
- tomwer/core/process/reconstruction/scores/params.py +9 -39
- tomwer/core/process/reconstruction/scores/scores.py +10 -42
- tomwer/core/process/reconstruction/tests/__init__.py +0 -0
- tomwer/core/process/reconstruction/tests/test_axis.py +46 -0
- tomwer/core/process/reconstruction/tests/test_darkref.py +33 -0
- tomwer/core/process/reconstruction/{test → tests}/test_saaxis.py +1 -27
- tomwer/core/process/reconstruction/tests/test_sadeltabeta.py +48 -0
- tomwer/core/process/reconstruction/{test → tests}/test_utils.py +4 -4
- tomwer/core/process/reconstruction/utils/cor.py +8 -4
- tomwer/core/process/script/python.py +1 -27
- tomwer/core/process/script/tests/test_script.py +41 -0
- tomwer/core/process/stitching/metadataholder.py +5 -4
- tomwer/core/process/stitching/nabustitcher.py +35 -5
- tomwer/core/process/stitching/tests/test_metadataholder.py +17 -0
- tomwer/core/process/task.py +20 -63
- tomwer/core/process/tests/__init__.py +0 -0
- tomwer/core/process/{test → tests}/test_conditions.py +1 -28
- tomwer/core/process/{test → tests}/test_dark_and_flat.py +1 -27
- tomwer/core/process/{test → tests}/test_data_listener.py +1 -27
- tomwer/core/process/{test → tests}/test_data_transfer.py +2 -28
- tomwer/core/process/{test → tests}/test_data_watcher.py +1 -27
- tomwer/core/process/{test → tests}/test_nabu.py +2 -33
- tomwer/core/process/{test → tests}/test_normalization.py +1 -26
- tomwer/core/process/{test → tests}/test_timer.py +1 -27
- tomwer/core/process/utils.py +2 -31
- tomwer/core/process/visualization/dataviewer.py +1 -26
- tomwer/core/process/visualization/diffviewer.py +1 -26
- tomwer/core/process/visualization/imagestackviewer.py +0 -26
- tomwer/core/process/visualization/radiostack.py +0 -26
- tomwer/core/process/visualization/samplemoved.py +0 -28
- tomwer/core/process/visualization/sinogramviewer.py +0 -27
- tomwer/core/process/visualization/slicestack.py +0 -28
- tomwer/core/process/visualization/tests/test_data_viewer.py +12 -0
- tomwer/core/process/visualization/tests/test_diff_viewer.py +12 -0
- tomwer/core/process/visualization/tests/test_image_stack_viewer.py +14 -0
- tomwer/core/process/visualization/tests/test_radio_stack.py +12 -0
- tomwer/core/process/visualization/tests/test_sample_moved.py +14 -0
- tomwer/core/process/visualization/tests/test_sinogram_viewer.py +13 -0
- tomwer/core/process/visualization/tests/test_slice_stack.py +13 -0
- tomwer/core/process/visualization/tests/test_volume_viewer.py +12 -0
- tomwer/core/process/visualization/volumeviewer.py +0 -29
- tomwer/core/scan/__init__.py +3 -27
- tomwer/core/scan/blissscan.py +5 -34
- tomwer/core/scan/edfscan.py +19 -53
- tomwer/core/scan/hdf5scan.py +2 -2
- tomwer/core/scan/nxtomoscan.py +48 -54
- tomwer/core/scan/scanbase.py +107 -203
- tomwer/core/scan/scanfactory.py +11 -41
- tomwer/core/scan/tests/__init__.py +0 -0
- tomwer/core/scan/tests/test_edf.py +25 -0
- tomwer/core/scan/tests/test_future_scan.py +35 -0
- tomwer/core/scan/tests/test_nxtomoscan.py +143 -0
- tomwer/core/scan/tests/test_process_registration.py +64 -0
- tomwer/core/settings.py +18 -40
- tomwer/core/tests/__init__.py +0 -0
- tomwer/core/tests/test_scanutils.py +26 -0
- tomwer/core/{test → tests}/test_utils.py +1 -28
- tomwer/core/tomwer_object.py +4 -0
- tomwer/core/utils/__init__.py +2 -0
- tomwer/core/utils/char.py +0 -28
- tomwer/core/utils/deprecation.py +12 -38
- tomwer/core/utils/dictutils.py +1 -3
- tomwer/core/utils/ftseriesutils.py +1 -27
- tomwer/core/utils/gpu.py +0 -28
- tomwer/core/utils/image.py +8 -39
- tomwer/core/utils/locker.py +1 -28
- tomwer/core/utils/logconfig.py +0 -27
- tomwer/core/utils/normalization.py +4 -31
- tomwer/core/utils/nxtomoutils.py +8 -38
- tomwer/core/utils/resource.py +0 -26
- tomwer/core/utils/scanutils.py +23 -52
- tomwer/core/utils/slurm.py +7 -30
- tomwer/core/utils/spec.py +6 -6
- tomwer/core/utils/tests/__init__.py +0 -0
- tomwer/core/utils/tests/test_image.py +30 -0
- tomwer/core/utils/tests/test_nxtomo.py +38 -0
- tomwer/core/utils/tests/test_scan_utils.py +46 -0
- tomwer/core/utils/tests/test_time.py +6 -0
- tomwer/core/utils/threads.py +0 -26
- tomwer/core/utils/time.py +0 -27
- tomwer/core/volume/__init__.py +4 -0
- tomwer/core/volume/edfvolume.py +1 -28
- tomwer/core/volume/hdf5volume.py +1 -28
- tomwer/core/volume/jp2kvolume.py +1 -27
- tomwer/core/volume/rawvolume.py +1 -28
- tomwer/core/volume/tests/test_volumes.py +21 -0
- tomwer/core/volume/tiffvolume.py +1 -28
- tomwer/core/volume/volumebase.py +5 -0
- tomwer/core/volume/volumefactory.py +7 -33
- tomwer/gui/__init__.py +0 -28
- tomwer/gui/cluster/__init__.py +2 -0
- tomwer/gui/cluster/slurm.py +297 -95
- tomwer/gui/cluster/supervisor.py +1 -27
- tomwer/gui/cluster/tests/__init__.py +0 -0
- tomwer/gui/cluster/{test → tests}/test_cluster.py +21 -26
- tomwer/gui/cluster/{test → tests}/test_supervisor.py +1 -27
- tomwer/gui/conditions/__init__.py +2 -0
- tomwer/gui/conditions/filter.py +1 -26
- tomwer/gui/configuration/__init__.py +2 -0
- tomwer/gui/control/__init__.py +2 -0
- tomwer/gui/control/actions.py +2 -28
- tomwer/gui/control/datadiscovery.py +4 -3
- tomwer/gui/control/datalist.py +64 -69
- tomwer/gui/control/datalistener.py +1 -39
- tomwer/gui/control/datareacheractions.py +1 -28
- tomwer/gui/control/datatransfert.py +2 -29
- tomwer/gui/control/datavalidator.py +3 -37
- tomwer/gui/control/datawatcher/__init__.py +0 -28
- tomwer/gui/control/datawatcher/configuration.py +1 -28
- tomwer/gui/control/datawatcher/datawatcher.py +3 -32
- tomwer/gui/control/datawatcher/datawatcherobserver.py +2 -28
- tomwer/gui/control/history.py +5 -35
- tomwer/gui/control/nxtomomill.py +3 -30
- tomwer/gui/control/observations.py +61 -55
- tomwer/gui/control/reducedarkflatselector.py +24 -20
- tomwer/gui/control/scanselectorwidget.py +2 -28
- tomwer/gui/control/selectorwidgetbase.py +17 -17
- tomwer/gui/control/series/__init__.py +0 -0
- tomwer/gui/control/{serie/seriecreator.py → series/seriescreator.py} +214 -235
- tomwer/gui/control/series/serieswaiter.py +0 -0
- tomwer/gui/control/series/test/test_creator.py +424 -0
- tomwer/gui/control/series/test/test_nxtomo_concatenate.py +21 -0
- tomwer/gui/control/singletomoobj.py +1 -1
- tomwer/gui/control/tests/__init__.py +0 -0
- tomwer/gui/control/tests/test_datalist.py +47 -0
- tomwer/gui/control/{test → tests}/test_datalistener.py +1 -28
- tomwer/gui/control/tests/test_datavalidator.py +27 -0
- tomwer/gui/control/{test → tests}/test_inputwidget.py +1 -27
- tomwer/gui/control/tests/test_process_manager.py +38 -0
- tomwer/gui/control/tests/test_scan_observations.py +23 -0
- tomwer/gui/control/tests/test_scanselector.py +42 -0
- tomwer/gui/control/{test → tests}/test_scanvalidator.py +1 -27
- tomwer/gui/control/{test → tests}/test_volume_dialog.py +2 -30
- tomwer/gui/control/{test → tests}/test_volumeselector.py +1 -27
- tomwer/gui/control/volumeselectorwidget.py +2 -30
- tomwer/gui/dataportal/__init__.py +2 -0
- tomwer/gui/{icat → dataportal}/createscreenshots.py +3 -2
- tomwer/gui/dataportal/gallery.py +133 -0
- tomwer/gui/dataportal/outputformat.py +0 -0
- tomwer/gui/dataportal/publish.py +96 -0
- tomwer/gui/dataportal/tests/test_create_screenshots_gui.py +23 -0
- tomwer/gui/dataportal/tests/test_gallery_gui.py +21 -0
- tomwer/gui/debugtools/__init__.py +2 -0
- tomwer/gui/debugtools/datasetgenerator.py +1 -30
- tomwer/gui/debugtools/objectinspector.py +1 -29
- tomwer/gui/dialog/QDataDialog.py +89 -0
- tomwer/gui/{qfolderdialog.py → dialog/QVolumeDialog.py} +8 -107
- tomwer/gui/dialog/__init__.py +1 -0
- tomwer/gui/edit/__init__.py +2 -0
- tomwer/gui/edit/dkrfpatch.py +52 -87
- tomwer/gui/edit/imagekeyeditor.py +18 -54
- tomwer/gui/edit/nxtomoeditor.py +113 -300
- tomwer/gui/edit/nxtomowarmer.py +3 -2
- tomwer/gui/edit/tests/__init__.py +0 -0
- tomwer/gui/edit/{test → tests}/test_dkrf_patch.py +3 -29
- tomwer/gui/edit/{test → tests}/test_image_key_editor.py +1 -27
- tomwer/gui/edit/{test → tests}/test_nx_editor.py +45 -23
- tomwer/gui/fonts.py +5 -0
- tomwer/gui/icons.py +28 -66
- tomwer/gui/illustrations.py +4 -34
- tomwer/gui/imagefromfile.py +5 -30
- tomwer/gui/metadataloader.py +36 -0
- tomwer/gui/qconfigfile.py +3 -0
- tomwer/gui/qlefilesystem.py +3 -0
- tomwer/gui/reconstruction/__init__.py +2 -0
- tomwer/gui/reconstruction/axis/AxisMainWindow.py +275 -0
- tomwer/gui/reconstruction/axis/AxisOptionsWidget.py +313 -0
- tomwer/gui/reconstruction/axis/AxisSettingsWidget.py +797 -0
- tomwer/gui/reconstruction/axis/AxisWidget.py +534 -0
- tomwer/gui/reconstruction/axis/CalculationWidget.py +218 -0
- tomwer/gui/reconstruction/axis/CompareImages.py +11 -44
- tomwer/gui/reconstruction/axis/ControlWidget.py +285 -0
- tomwer/gui/reconstruction/axis/EstimatedCORWidget.py +394 -0
- tomwer/gui/reconstruction/axis/EstimatedCorComboBox.py +118 -0
- tomwer/gui/reconstruction/axis/InputWidget.py +347 -0
- tomwer/gui/reconstruction/axis/ManualFramesSelection.py +168 -0
- tomwer/gui/reconstruction/axis/__init__.py +2 -2
- tomwer/gui/reconstruction/darkref/__init__.py +0 -27
- tomwer/gui/reconstruction/darkref/darkrefcopywidget.py +5 -34
- tomwer/gui/reconstruction/darkref/darkrefwidget.py +1 -27
- tomwer/gui/reconstruction/nabu/castvolume.py +40 -59
- tomwer/gui/reconstruction/nabu/check.py +7 -33
- tomwer/gui/reconstruction/nabu/nabuconfig/base.py +7 -34
- tomwer/gui/reconstruction/nabu/nabuconfig/ctf.py +6 -5
- tomwer/gui/reconstruction/nabu/nabuconfig/nabuconfig.py +10 -69
- tomwer/gui/reconstruction/nabu/nabuconfig/output.py +3 -47
- tomwer/gui/reconstruction/nabu/nabuconfig/phase.py +54 -36
- tomwer/gui/reconstruction/nabu/nabuconfig/preprocessing.py +103 -54
- tomwer/gui/reconstruction/nabu/nabuconfig/reconstruction.py +116 -65
- tomwer/gui/reconstruction/nabu/nabuflow.py +31 -61
- tomwer/gui/reconstruction/nabu/platform.py +94 -0
- tomwer/gui/reconstruction/nabu/slices.py +81 -45
- tomwer/gui/reconstruction/nabu/slurm.py +1 -27
- tomwer/gui/reconstruction/nabu/test/test_cast_volume.py +82 -0
- tomwer/gui/reconstruction/nabu/test/test_check.py +66 -0
- tomwer/gui/reconstruction/nabu/test/test_ctf.py +46 -0
- tomwer/gui/reconstruction/nabu/test/test_helical.py +21 -0
- tomwer/gui/reconstruction/nabu/test/test_nabu_preprocessing.py +81 -0
- tomwer/gui/reconstruction/nabu/volume.py +62 -90
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- tomwer/gui/reconstruction/{test → tests}/test_saaxis.py +10 -37
- tomwer/gui/reconstruction/{test → tests}/test_sadeltabeta.py +1 -26
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- tomwer/gui/tests/__init__.py +0 -0
- tomwer/gui/tests/test_axis_gui.py +43 -0
- tomwer/gui/{test → tests}/test_qfolder_dialog.py +1 -1
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- tomwer/gui/visualization/test/test_stacks.py +184 -115
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- tomwer/gui/visualization/volumeviewer.py +47 -43
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- tomwer/io/utils/test/test_utils.py +67 -0
- tomwer/io/utils/utils.py +2 -31
- tomwer/resources/__init__.py +13 -33
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- tomwer/resources/gui/icons/icat_gallery_opts.png +0 -0
- tomwer/resources/gui/icons/icat_gallery_opts.svg +80 -0
- tomwer/resources/gui/icons/search.png +0 -0
- tomwer/resources/gui/icons/search.svg +23 -0
- tomwer/resources/gui/icons/warning.png +0 -0
- tomwer/synctools/__init__.py +2 -0
- tomwer/synctools/axis.py +1 -27
- tomwer/synctools/darkref.py +1 -26
- tomwer/synctools/datalistener.py +1 -27
- tomwer/synctools/datatransfert.py +2 -27
- tomwer/synctools/imageloaderthread.py +1 -28
- tomwer/synctools/rsyncmanager.py +1 -25
- tomwer/synctools/saaxis.py +1 -26
- tomwer/synctools/sadeltabeta.py +1 -26
- tomwer/synctools/stacks/control/datalistener.py +1 -26
- tomwer/synctools/stacks/processingstack.py +4 -33
- tomwer/synctools/stacks/reconstruction/axis.py +6 -53
- tomwer/synctools/stacks/reconstruction/castvolume.py +12 -43
- tomwer/synctools/stacks/reconstruction/dkrefcopy.py +4 -27
- tomwer/synctools/stacks/reconstruction/nabu.py +3 -28
- tomwer/synctools/stacks/reconstruction/normalization.py +2 -27
- tomwer/synctools/stacks/reconstruction/saaxis.py +2 -27
- tomwer/synctools/stacks/reconstruction/sadeltabeta.py +2 -27
- tomwer/synctools/tests/__init__.py +0 -0
- tomwer/synctools/{test → tests}/test_darkRefs.py +16 -40
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- tomwer/synctools/utils/scanstages.py +2 -31
- tomwer/tests/__init__.py +1 -0
- tomwer/tests/app/test_stitching.py +95 -0
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- tomwer/tests/orangecontrib/tomwer/widgets/control/tests/test_emailow.py +29 -0
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- tomwer/tests/orangecontrib/tomwer/widgets/control/tests/test_reduce_dark_flat_selector.py +40 -0
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- tomwer/tests/orangecontrib/tomwer/widgets/control/tests/test_volume_selector.py +69 -0
- orangecontrib/tomwer/widgets/edit/test/test_image_key_editor.py → tomwer/tests/orangecontrib/tomwer/widgets/debugtools/tests/test_dataset_generator.py +17 -16
- tomwer/tests/orangecontrib/tomwer/widgets/debugtools/tests/test_object_inspector.py +36 -0
- {orangecontrib/tomwer/widgets/edit/test → tomwer/tests/orangecontrib/tomwer/widgets/edit/tests}/test_dark_flat_patch.py +1 -27
- tomwer/tests/orangecontrib/tomwer/widgets/edit/tests/test_image_key_editor.py +30 -0
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- tomwer/tests/orangecontrib/tomwer/widgets/other/tests/test_pythonscript.py +31 -0
- tomwer/tests/orangecontrib/tomwer/widgets/reconstruction/tests/test_axis.py +199 -0
- tomwer/tests/orangecontrib/tomwer/widgets/reconstruction/tests/test_cast_volumeow.py +58 -0
- tomwer/tests/orangecontrib/tomwer/widgets/reconstruction/tests/test_dark_refs_widget.py +136 -0
- tomwer/tests/orangecontrib/tomwer/widgets/reconstruction/tests/test_delta_beta_selector.py +15 -0
- tomwer/tests/orangecontrib/tomwer/widgets/reconstruction/tests/test_i_norm.py +200 -0
- tomwer/tests/orangecontrib/tomwer/widgets/reconstruction/tests/test_nabu_helical_prepare_weights_double.py +20 -0
- tomwer/tests/orangecontrib/tomwer/widgets/reconstruction/tests/test_nabu_volume.py +74 -0
- tomwer/tests/orangecontrib/tomwer/widgets/reconstruction/tests/test_nabu_widget.py +107 -0
- tomwer/tests/orangecontrib/tomwer/widgets/reconstruction/tests/test_sa_delta_beta.py +194 -0
- tomwer/tests/orangecontrib/tomwer/widgets/reconstruction/tests/test_saaxis.py +194 -0
- tomwer/tests/orangecontrib/tomwer/widgets/stitching/tests/test_zstitching.py +313 -0
- tomwer/tests/orangecontrib/tomwer/widgets/tests/test_conditions.py +85 -0
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- tomwer/tests/orangecontrib/tomwer/widgets/tests/test_foldertransfert.py +105 -0
- tomwer/tests/orangecontrib/tomwer/widgets/visualization/tests/test_dataviewerow.py +57 -0
- tomwer/tests/orangecontrib/tomwer/widgets/visualization/tests/test_diffviewerow.py +39 -0
- tomwer/tests/orangecontrib/tomwer/widgets/visualization/tests/test_nxtomo_metadata_viewer.py +29 -0
- tomwer/tests/orangecontrib/tomwer/widgets/visualization/tests/test_radio_stackow.py +31 -0
- tomwer/tests/orangecontrib/tomwer/widgets/visualization/tests/test_sample_movedow.py +46 -0
- tomwer/tests/orangecontrib/tomwer/widgets/visualization/tests/test_sinogram_viewerow.py +31 -0
- tomwer/tests/orangecontrib/tomwer/widgets/visualization/tests/test_slice_stackow.py +31 -0
- tomwer/tests/orangecontrib/tomwer/widgets/visualization/tests/test_volume_viewerow.py +32 -0
- tomwer/tests/test_ewoks/test_conversion.py +104 -0
- tomwer/tests/test_ewoks/test_single_node_execution.py +87 -0
- tomwer/tests/test_ewoks/test_workflows.py +138 -0
- tomwer/utils.py +11 -39
- tomwer/version.py +2 -2
- {tomwer-1.3.26.dist-info → tomwer-1.4.0.dist-info}/LICENSE +3 -3
- tomwer-1.4.0.dist-info/METADATA +337 -0
- tomwer-1.4.0.dist-info/RECORD +912 -0
- {tomwer-1.3.26.dist-info → tomwer-1.4.0.dist-info}/WHEEL +1 -1
- {tomwer-1.3.26.dist-info → tomwer-1.4.0.dist-info}/entry_points.txt +1 -0
- orangecontrib/tomwer/widgets/control/DataListOW.py +0 -129
- orangecontrib/tomwer/widgets/control/TomoObjSerieOW.py +0 -86
- orangecontrib/tomwer/widgets/control/VolumeSymLinkOW.py +0 -182
- orangecontrib/tomwer/widgets/edit/test/test_nxtomo_editor.py +0 -141
- orangecontrib/tomwer/widgets/icat/PublishProcessedDataOW.py +0 -115
- orangecontrib/tomwer/widgets/icat/RawDataScreenshotCreatorOW.py +0 -98
- orangecontrib/tomwer/widgets/icat/SaveToGalleryAndPublishOW.py +0 -129
- orangecontrib/tomwer/widgets/icat/icons/add_gallery.png +0 -0
- orangecontrib/tomwer/widgets/icat/icons/add_gallery.svg +0 -82
- orangecontrib/tomwer/widgets/icat/icons/raw_screenshots.png +0 -0
- orangecontrib/tomwer/widgets/icat/icons/raw_screenshots.svg +0 -143
- orangecontrib/tomwer/widgets/visualization/LivesliceOW.py +0 -87
- orangecontrib/tomwer/widgets/visualization/icons/liveslice.png +0 -0
- orangecontrib/tomwer/widgets/visualization/icons/liveslice.svg +0 -110
- tomwer/core/log/logger.py +0 -130
- tomwer/core/process/control/test/test_volume_link.py +0 -74
- tomwer/core/process/control/tomoobjserie.py +0 -12
- tomwer/core/process/control/volumesymlink.py +0 -200
- tomwer/core/process/icat/createscreenshots.py +0 -100
- tomwer/core/process/icat/gallery.py +0 -377
- tomwer/core/process/icat/icatbase.py +0 -36
- tomwer/core/process/icat/publish.py +0 -228
- tomwer/core/process/icat/screenshots.py +0 -27
- tomwer/core/process/reconstruction/test/test_darkref.py +0 -60
- tomwer/core/process/reconstruction/test/test_sadeltabeta.py +0 -74
- tomwer/core/process/test/test_axis.py +0 -309
- tomwer/core/process/visualization/liveslice.py +0 -6
- tomwer/core/progress.py +0 -100
- tomwer/core/scan/test/test_edf.py +0 -53
- tomwer/core/scan/test/test_future_scan.py +0 -61
- tomwer/core/scan/test/test_h5.py +0 -96
- tomwer/core/scan/test/test_process_registration.py +0 -109
- tomwer/core/test/test_scanutils.py +0 -53
- tomwer/gui/control/emailnotifier.py +0 -174
- tomwer/gui/control/serie/seriewaiter.py +0 -28
- tomwer/gui/control/test/__init__.py +0 -28
- tomwer/gui/control/test/test_datalist.py +0 -96
- tomwer/gui/control/test/test_datavalidator.py +0 -54
- tomwer/gui/control/test/test_email.py +0 -35
- tomwer/gui/control/test/test_process_manager.py +0 -65
- tomwer/gui/control/test/test_scanselector.py +0 -67
- tomwer/gui/edit/test/__init__.py +0 -28
- tomwer/gui/icat/gallery.py +0 -214
- tomwer/gui/icat/publish.py +0 -187
- tomwer/gui/reconstruction/axis/axis.py +0 -733
- tomwer/gui/reconstruction/axis/radioaxis.py +0 -2467
- tomwer/gui/stitching/stitching.py +0 -1392
- tomwer/gui/test/__init__.py +0 -28
- tomwer/gui/test/test_axis_gui.py +0 -34
- tomwer/synctools/stacks/edit/darkflatpatch.py +0 -169
- tomwer/synctools/stacks/edit/imagekeyeditor.py +0 -135
- tomwer/third_part/WaitingOverlay.py +0 -110
- tomwer-1.3.26-py3.11-nspkg.pth +0 -1
- tomwer-1.3.26.dist-info/METADATA +0 -292
- tomwer-1.3.26.dist-info/RECORD +0 -785
- tomwer-1.3.26.dist-info/namespace_packages.txt +0 -1
- /orangecontrib/tomwer/{widgets/edit/test → tests}/__init__.py +0 -0
- {tomwer/core/process/control/test → orangecontrib/tomwer/tutorials/id16b}/__init__.py +0 -0
- {tomwer/core/process/icat → orangecontrib/tomwer/widgets/cluster/tests}/__init__.py +0 -0
- /orangecontrib/tomwer/widgets/control/icons/{tomoobjserie.png → tomoobjseries.png} +0 -0
- {tomwer/core/process/reconstruction/test → orangecontrib/tomwer/widgets/control/tests}/__init__.py +0 -0
- /orangecontrib/tomwer/widgets/{icat → dataportal}/icons/publish_processed_data.png +0 -0
- /orangecontrib/tomwer/widgets/{icat → dataportal}/icons/publish_processed_data.svg +0 -0
- {tomwer/core/process/test → orangecontrib/tomwer/widgets/debugtools/tests}/__init__.py +0 -0
- {tomwer/core/scan/test → orangecontrib/tomwer/widgets/edit/tests}/__init__.py +0 -0
- {tomwer/core/test → orangecontrib/tomwer/widgets/other/tests}/__init__.py +0 -0
- {tomwer/gui/cluster/test → orangecontrib/tomwer/widgets/reconstruction/tests}/__init__.py +0 -0
- {tomwer/gui/control/serie → orangecontrib/tomwer/widgets/stitching/tests}/__init__.py +0 -0
- {tomwer/gui/icat → orangecontrib/tomwer/widgets/tests}/__init__.py +0 -0
- {tomwer/gui/reconstruction/test → orangecontrib/tomwer/widgets/visualization/tests}/__init__.py +0 -0
- /tomwer/{synctools/stacks/edit → app/stitching}/__init__.py +0 -0
- /tomwer/{synctools/test → core/process/control/tests}/__init__.py +0 -0
- /tomwer/core/process/control/{test → tests}/test_email.py +0 -0
- /tomwer/core/process/control/{test → tests}/test_h52nx_process.py +0 -0
- /tomwer/{third_part → core/process/drac}/__init__.py +0 -0
- /tomwer/core/process/reconstruction/{test → tests}/test_axis_params.py +0 -0
- /tomwer/core/process/reconstruction/{test → tests}/test_darkref_copy.py +0 -0
- /tomwer/core/process/reconstruction/{test → tests}/test_paramsbase.py +0 -0
- /tomwer/core/scan/{test → tests}/test_scan.py +0 -0
- /tomwer/gui/control/{serie → series}/nxtomoconcatenate.py +0 -0
- /tomwer/gui/control/{test → tests}/test_datadiscovery.py +0 -0
- /tomwer/gui/control/{test → tests}/test_reducedarkflat_selector.py +0 -0
- /tomwer/gui/control/{test → tests}/test_single_tomo_obj.py +0 -0
- {orangecontrib/tomwer/widgets/edit/test → tomwer/tests/orangecontrib/tomwer/widgets/edit/tests}/test_image_key_upgrader.py +0 -0
- {tomwer-1.3.26.dist-info → tomwer-1.4.0.dist-info}/top_level.txt +0 -0
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# THE SOFTWARE.
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#
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# ###########################################################################*/
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__authors__ = ["H. Payno"]
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__license__ = "MIT"
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__date__ = "26/10/2018"
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from __future__ import annotations
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from orangewidget import settings
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@@ -47,6 +20,7 @@ class CallbackSettingsHandler(settings.SettingsHandler):
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self.__callbacks.remove(callback)
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def pack_data(self, widget):
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""""""
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for callback in self.__callbacks:
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callback()
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return super(CallbackSettingsHandler, self).pack_data(widget)
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"""Full tomwer test suite.
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"""
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from __future__ import annotations
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import logging
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import os
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import shutil
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from silx.gui import qt
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from tomwer.core.scan.edfscan import EDFTomoScan
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from tomwer.tests.datasets import TomwerCIDatasets
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logger = logging.getLogger(__name__)
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class Simulation(qt.QThread):
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"""Simulation is a simple class able to simulate an acquisition by copying
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files on a targetted directory.
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:param targetdir: the folder where the acquisition is stored
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:param manipulationId: the id of the simulation we want to simulate
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:param finalState: when launched, the state to reach before stopping
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:warning: the targetted directory won't be removed or cleaned during class
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destruction. This is to be managed by callers.
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"""
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advancement = {
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"not started": -1,
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"starting-s0": 0,
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"starting-s1": 1,
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"acquisitionRunning": 2,
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"acquisitionDone": 3,
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"reconstructionLaunched": 4,
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}
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sigAdvancementChanged = qt.Signal(int)
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__definedDataset = ["test01", "test10"]
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def __init__(self, targetdir, manipulationId, finalState=4):
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assert type(manipulationId) is str
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assert type(targetdir) is str
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assert manipulationId in self.__definedDataset
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super(Simulation, self).__init__()
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self.targetdir = targetdir
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self.outputFolder = os.path.sep.join((targetdir, manipulationId))
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self.finalState = finalState
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self.currentState = "not started"
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self._createFinalXML = False
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(
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self.originalFolder,
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self.nbSlices,
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self.manipulationId,
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) = self.__getOriginalDataSet(manipulationId)
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self.stopFileCreationForRunningState = int(self.nbSlices / 2)
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self.srcPattern = None
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self.destPattern = None
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def __getOriginalDataSet(self, dataSetID):
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"""Return paths to the requested scan"""
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assert dataSetID in self.__definedDataset
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dataDir = TomwerCIDatasets.get_dataset(os.path.join("edf_datasets", dataSetID))
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assert os.path.isdir(dataDir)
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assert os.path.isfile(os.path.join(dataDir, dataSetID + ".info"))
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slices = EDFTomoScan(dataDir).projections
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nbSlices = len(slices)
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manipulationID = dataSetID
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return dataDir, nbSlices, manipulationID
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def advanceTo(self, state):
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"""Reset the new advancement targetted
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:param state: the new state to reach when run will be executed
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"""
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assert state in Simulation.advancement
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assert type(state) is str
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self.finalState = Simulation.advancement[state]
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def setSrcDestPatterns(self, srcPattern, destPattern):
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"""
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If setted, will set the .info and .xml files into a different folder
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"""
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self.srcPattern = srcPattern
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self.destPattern = destPattern
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if srcPattern is not None or destPattern is not None:
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assert os.path.isdir(srcPattern)
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assert os.path.isdir(destPattern)
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targettedFolder = self.outputFolder.replace(
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self.srcPattern, self.destPattern, 1
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)
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if not os.path.isdir(targettedFolder):
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os.makedirs(targettedFolder)
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def __shouldExecStep(self, step):
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"""Return True if the thread should exec this step to advance taking
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into consideration is current state and his final state
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"""
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return self.finalState >= self.advancement[step] and (
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Simulation.advancement[self.currentState] + 1 == self.advancement[step]
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)
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def run(self):
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"""Main function, run the acquisition through all states until
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finalState is reached
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"""
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if self.__shouldExecStep("starting-s0") is True:
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logger.info("starting-s0")
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self._startAcquisition()
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self.currentState = "starting-s0"
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self.signalCurrentState()
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if self.__shouldExecStep("starting-s1") is True:
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self.copyInitialFiles()
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logger.info("starting-s1")
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self.currentState = "starting-s1"
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self.signalCurrentState()
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if self.__shouldExecStep("acquisitionRunning") is True:
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self._copyScans((0, self.stopFileCreationForRunningState))
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logger.info("acquisitionRunning")
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self.currentState = "acquisitionRunning"
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self.signalCurrentState()
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if self.__shouldExecStep("acquisitionDone") is True:
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self._copyScans((self.stopFileCreationForRunningState, self.nbSlices))
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if self._createFinalXML is True:
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inputXMLFile = os.path.join(
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self.originalFolder, self.manipulationId + ".xml"
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)
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assert os.path.isfile(inputXMLFile)
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ouputXMLFile = os.path.join(
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self.outputFolder, self.manipulationId + ".xml"
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)
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shutil.copyfile(inputXMLFile, ouputXMLFile)
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logger.info("acquisitionDone")
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self.currentState = "acquisitionDone"
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self.signalCurrentState()
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def signalCurrentState(self):
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"""Signal the actual state of the simulation"""
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self.sigAdvancementChanged.emit(self.currentState)
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def _startAcquisition(self):
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"""create needed data dir"""
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for newFolder in (self.targetdir, self.outputFolder):
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if not os.path.exists(self.outputFolder):
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os.makedirs(self.outputFolder)
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def _copyScans(self, _slicesRange):
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"""copy the .edf file from the original directory to the outputFolder
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:_slicesRange tuple: the _range of slices data we want to copy
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"""
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logger.info("copying files from %s to %s" % (_slicesRange[0], _slicesRange[1]))
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for iSlice in list(range(_slicesRange[0], _slicesRange[1])):
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filename = "".join((self.manipulationId, format(iSlice, "04d"), ".edf"))
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srcFile = os.path.join(self.originalFolder, filename)
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outputFile = os.path.join(self.outputFolder, filename)
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assert os.path.isfile(srcFile)
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assert os.path.isdir(self.outputFolder)
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shutil.copyfile(srcFile, outputFile)
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def copyInitialFiles(self):
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"""copy the .info file"""
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assert os.path.isdir(self.originalFolder)
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logger.info(
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"copying initial files (.info, .xml...) from %s to %s"
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% (self.originalFolder, self.manipulationId)
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)
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for extension in (".info", ".db", ".cfg"):
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filename = "".join((self.manipulationId, extension))
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srcFile = os.path.join(self.originalFolder, filename)
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targettedFolder = self.outputFolder
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if self.srcPattern is not None or self.destPattern is not None:
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targettedFolder = self.outputFolder.replace(
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self.srcPattern, self.destPattern, 1
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)
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assert os.path.isfile(srcFile)
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assert os.path.isdir(targettedFolder)
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assert os.path.isdir(self.originalFolder)
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shutil.copy2(srcFile, targettedFolder)
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def createFinalXML(self, val):
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"""If activated, once all the file will be copied, this will create
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an .xml file into the output directory
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"""
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self._createFinalXML = val
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def createParFile(self):
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pass
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|
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def createReconstructedFile(self):
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pass
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def createOARJob(self):
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pass
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def createDark(self):
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pass
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def createJPG(self):
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pass
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def createVolfloat(self):
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pass
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def createVolraw(self):
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pass
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def __createFileTo(self, filePath):
|
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assert type(filePath) is str
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open(filePath, "a").close()
|
@@ -1,5 +1,5 @@
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<?xml version='1.0' encoding='utf-8'?>
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<scheme version="2.0" title="Append dark and flat frames to
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<scheme version="2.0" title="Append dark and flat frames to a NXtomo" description="">
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<nodes>
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<node id="0" name="image-key-upgrader" qualified_name="orangecontrib.tomwer.widgets.edit.ImageKeyUpgraderOW.ImageKeyUpgraderOW" project_name="tomwer" version="" title="image-key-upgrader" position="(336.0, 221.0)" />
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<node id="1" name="dark-flat-patch" qualified_name="orangecontrib.tomwer.widgets.edit.DarkFlatPatchOW.DarkFlatPatchOW" project_name="tomwer" version="" title="dark-flat-patch" position="(579.0, 221.0)" />
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@@ -14,7 +14,7 @@
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<link id="3" source_node_id="2" sink_node_id="4" source_channel="data" sink_channel="data" enabled="true" source_channel_id="data" sink_channel_id="data" />
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</links>
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<annotations>
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<text id="0" type="text/plain" rect="(68.0, 8.0, 740.0, 86.0)" font-family="Sans" font-size="16">Context: we want to modify
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<text id="0" type="text/plain" rect="(68.0, 8.0, 740.0, 86.0)" font-family="Sans" font-size="16">Context: we want to modify a NXtomo in order to append some (raw) darks / flats to it.
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Then those raw darks and flats will be used for reduced darks / flats calculation.
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warning: reduced darks and flats are usually mean / median of a serie of darks / flats. when raw darks and flats are raw frame before mean / median 'reduction'</text>
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@@ -29,7 +29,7 @@
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<text id="10" type="text/plain" rect="(-623.0, -603.0, 932.0, 145.0)" font-family="Sans" font-size="16">Context: on this workflow we want to copy reduced flats / darks from a dataset to others.
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This one of the various way to do this.
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</text>
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<text id="11" type="text/plain" rect="(-593.0, 94.0, 919.0, 84.0)" font-family="Sans" font-size="16">Note: You can also replace the two upper widgets (providing reduced darks and flats) by a python script providing a python
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<text id="11" type="text/plain" rect="(-593.0, 94.0, 919.0, 84.0)" font-family="Sans" font-size="16">Note: You can also replace the two upper widgets (providing reduced darks and flats) by a python script providing a python dictionary.
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* Key should be position of the flat / dark in the sequence (so 0 if at the beginning for example)
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* Value is the 2D numpy array with mean / median /xxx of the darks and flats serie</text>
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<arrow id="12" start="(288.0, -105.0)" end="(286.0, -165.0)" fill="#C1272D" />
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@@ -3,15 +3,12 @@
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3
3
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<nodes>
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<node id="0" name="scan selector" qualified_name="orangecontrib.tomwer.widgets.control.DataSelectorOW.DataSelectorOW" project_name="tomwer" version="" title="scan selector" position="(150, 150)" />
|
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<node id="1" name="reduced darks and flats" qualified_name="orangecontrib.tomwer.widgets.reconstruction.DarkRefAndCopyOW.DarkRefAndCopyOW" project_name="tomwer" version="" title="reduced darks and flats" position="(324.0, 183.0)" />
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-
<node id="2" name="
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<node id="2" name="center of rotation finder" qualified_name="orangecontrib.tomwer.widgets.reconstruction.AxisOW.AxisOW" project_name="tomwer" version="" title="default center of rotation" position="(490.0, 218.0)" />
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<node id="3" name="nabu slice reconstruction" qualified_name="orangecontrib.tomwer.widgets.reconstruction.NabuOW.NabuOW" project_name="tomwer" version="" title="nabu slice reconstruction" position="(649.0, 261.0)" />
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<node id="4" name="data viewer" qualified_name="orangecontrib.tomwer.widgets.visualization.DataViewerOW.DataViewerOW" project_name="tomwer" version="" title="data viewer" position="(818.0, 248.0)" />
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<node id="5" name="nabu volume reconstruction" qualified_name="orangecontrib.tomwer.widgets.reconstruction.NabuVolumeOW.NabuVolumeOW" project_name="tomwer" version="" title="nabu volume reconstruction" position="(812.0, 391.0)" />
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<node id="6" name="volume viewer" qualified_name="orangecontrib.tomwer.widgets.visualization.VolumeViewerOW.VolumeViewerOW" project_name="tomwer" version="" title="volume viewer" position="(986.75, 383.25)" />
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-
<node id="7" name="
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-
<node id="8" name="save to gallery and publish" qualified_name="orangecontrib.tomwer.widgets.icat.SaveToGalleryAndPublishOW.SaveToGalleryAndPublishOW" project_name="tomwer" version="" title="save to gallery and publish" position="(506.0, 510.0)" />
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-
<node id="9" name="save to gallery and publish" qualified_name="orangecontrib.tomwer.widgets.icat.SaveToGalleryAndPublishOW.SaveToGalleryAndPublishOW" project_name="tomwer" version="" title="save to gallery and publish (1)" position="(731.0, 514.0)" />
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14
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-
<node id="10" name="Publish processed data to icat" qualified_name="orangecontrib.tomwer.widgets.icat.PublishProcessedDataOW.PublishProcessedDataOW" project_name="tomwer" version="" title="Publish processed data to icat" position="(990.0, 514.0)" />
|
11
|
+
<node id="7" name="Publish processed data to the data portal" qualified_name="orangecontrib.tomwer.widgets.dataportal.PublishProcessedDataOW.PublishProcessedDataOW" project_name="tomwer" version="" title="Publish processed data to the data portal" position="(990.0, 514.0)" />
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</nodes>
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<links>
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<link id="0" source_node_id="0" sink_node_id="1" source_channel="data" sink_channel="data" enabled="true" source_channel_id="data" sink_channel_id="data" />
|
@@ -20,23 +17,15 @@
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<link id="3" source_node_id="3" sink_node_id="4" source_channel="data" sink_channel="data" enabled="true" source_channel_id="data" sink_channel_id="data" />
|
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<link id="4" source_node_id="3" sink_node_id="5" source_channel="data" sink_channel="data" enabled="true" source_channel_id="data" sink_channel_id="data" />
|
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<link id="5" source_node_id="5" sink_node_id="6" source_channel="data" sink_channel="data" enabled="true" source_channel_id="data" sink_channel_id="data" />
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-
<link id="6" source_node_id="
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-
<link id="7" source_node_id="7" sink_node_id="8" source_channel="screenshots" sink_channel="screenshots" enabled="true" source_channel_id="screenshots" sink_channel_id="screenshots" />
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25
|
-
<link id="8" source_node_id="3" sink_node_id="9" source_channel="screenshots" sink_channel="screenshots" enabled="true" source_channel_id="screenshots" sink_channel_id="screenshots" />
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26
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-
<link id="9" source_node_id="5" sink_node_id="10" source_channel="data" sink_channel="data" enabled="true" source_channel_id="data" sink_channel_id="data" />
|
20
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+
<link id="6" source_node_id="5" sink_node_id="7" source_channel="data_portal_processed_datasets" sink_channel="data_portal_processed_datasets" enabled="true" source_channel_id="data_portal_processed_datasets" sink_channel_id="data_portal_processed_datasets" />
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</links>
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<annotations>
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<arrow id="0" start="(267.0, 56.0)" end="(194.0, 105.0)" fill="#C1272D" />
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<text id="1" type="text/plain" rect="(276.25, 17.75, 150.0, 31.0)" font-family="Ubuntu" font-size="16">provide dataset</text>
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-
<
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<text id="3" type="text/plain" rect="(
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<arrow id="4" start="(
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<
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|
-
<arrow id="6" start="(607.0, 387.0)" end="(671.0, 395.0)" fill="#C1272D" />
|
36
|
-
<text id="7" type="text/plain" rect="(449.0, 350.0, 150.0, 51.0)" font-family="Cantarell" font-size="16">screenshot of the reconstructed slice</text>
|
37
|
-
<arrow id="8" start="(235.0, 592.0)" end="(281.0, 521.0)" fill="#C1272D" />
|
38
|
-
<text id="9" type="text/plain" rect="(901.0, 618.0, 179.0, 70.0)" font-family="Cantarell" font-size="16">publish reconstructed volume to icat</text>
|
39
|
-
<arrow id="10" start="(980.0, 621.0)" end="(981.0, 579.0)" fill="#C1272D" />
|
25
|
+
<arrow id="2" start="(690.0, 486.42857142857133)" end="(762.5714285714286, 424.4285714285714)" fill="#C1272D" />
|
26
|
+
<text id="3" type="text/plain" rect="(901.0, 618.0, 179.0, 70.0)" font-family="Cantarell" font-size="16">publish reconstructed volume to icat</text>
|
27
|
+
<arrow id="4" start="(980.0, 621.0)" end="(981.0, 579.0)" fill="#C1272D" />
|
28
|
+
<text id="5" type="text/plain" rect="(601.4285714285714, 502.7142857142858, 150.0, 27.0)" font-family="Cantarell" font-size="16">reconstruct the volume</text>
|
40
29
|
</annotations>
|
41
30
|
<thumbnail />
|
42
31
|
<node_properties>
|
@@ -48,9 +37,6 @@
|
|
48
37
|
<properties node_id="5" format="literal">{'_ewoks_default_inputs': {'data': None, 'nabu_volume_params': None, 'nabu_params': None}, 'controlAreaVisible': True, 'savedWidgetGeometry': None, '__version__': 1}</properties>
|
49
38
|
<properties node_id="6" format="literal">{'controlAreaVisible': True, 'savedWidgetGeometry': None, '__version__': 1}</properties>
|
50
39
|
<properties node_id="7" format="literal">{'_ewoks_default_inputs': {}, '_ewoks_execinfo': {}, '_ewoks_varinfo': {}, 'controlAreaVisible': True, 'default_inputs': {}, 'savedWidgetGeometry': None, '__version__': 1}</properties>
|
51
|
-
<properties node_id="8" format="literal">{'_ewoks_default_inputs': {}, '_ewoks_execinfo': {}, '_ewoks_varinfo': {}, 'controlAreaVisible': True, 'default_inputs': {}, 'savedWidgetGeometry': None, '__version__': 1}</properties>
|
52
|
-
<properties node_id="9" format="literal">{'_ewoks_default_inputs': {}, '_ewoks_execinfo': {}, '_ewoks_varinfo': {}, 'controlAreaVisible': True, 'default_inputs': {}, 'savedWidgetGeometry': None, '__version__': 1}</properties>
|
53
|
-
<properties node_id="10" format="literal">{'_ewoks_default_inputs': {}, '_ewoks_execinfo': {}, '_ewoks_varinfo': {}, 'controlAreaVisible': True, 'default_inputs': {}, 'savedWidgetGeometry': None, '__version__': 1}</properties>
|
54
40
|
</node_properties>
|
55
41
|
<session_state>
|
56
42
|
<window_groups />
|
@@ -0,0 +1,22 @@
|
|
1
|
+
<?xml version='1.0' encoding='utf-8'?>
|
2
|
+
<scheme version="2.0" title="full volume" description="">
|
3
|
+
<nodes>
|
4
|
+
<node id="0" name="scan selector" qualified_name="orangecontrib.tomwer.widgets.control.DataSelectorOW.DataSelectorOW" project_name="tomwer" version="" title="scan selector" position="(150, 150)" />
|
5
|
+
<node id="1" name="nabu slice reconstruction" qualified_name="orangecontrib.tomwer.widgets.reconstruction.NabuOW.NabuOW" project_name="tomwer" version="" title="nabu slice reconstruction" position="(361.0, 209.0)" />
|
6
|
+
<node id="2" name="nabu volume reconstruction" qualified_name="orangecontrib.tomwer.widgets.reconstruction.NabuVolumeOW.NabuVolumeOW" project_name="tomwer" version="" title="nabu volume reconstruction" position="(494.0, 239.0)" />
|
7
|
+
</nodes>
|
8
|
+
<links>
|
9
|
+
<link id="0" source_node_id="0" sink_node_id="1" source_channel="data" sink_channel="data" enabled="true" />
|
10
|
+
<link id="1" source_node_id="1" sink_node_id="2" source_channel="data" sink_channel="data" enabled="true" />
|
11
|
+
</links>
|
12
|
+
<annotations />
|
13
|
+
<thumbnail />
|
14
|
+
<node_properties>
|
15
|
+
<properties node_id="0" format="literal">{'_scanIDs': [], 'controlAreaVisible': True, 'savedWidgetGeometry': None, '__version__': 1}</properties>
|
16
|
+
<properties node_id="1" format="literal">{'_rpSetting': {}, 'controlAreaVisible': True, 'savedWidgetGeometry': None, 'static_input': {'data': None, 'nabu_params': None}, '__version__': 1}</properties>
|
17
|
+
<properties node_id="2" format="literal">{'_rpSetting': {}, 'controlAreaVisible': True, 'savedWidgetGeometry': None, 'static_input': {'data': None, 'nabu_volume_params': None, 'nabu_params': None}, '__version__': 1}</properties>
|
18
|
+
</node_properties>
|
19
|
+
<session_state>
|
20
|
+
<window_groups />
|
21
|
+
</session_state>
|
22
|
+
</scheme>
|