Slicer4

ENH: refactor vtkNRRDWriter w/ MakeNRRD helper function

ENH: add 'AllowInMemoryTransfer' CLI setting This allows a CLI to control whether in-memory (MRMLID) transfer is attempted. Implemented as a parameter for simplicity. Could be implemented in SEM, but not sure it's worth the churn that would cause.

STYLE: Added note on markups node max number of points Related to bug report: https://issues.slicer.org/view.php?id=4306

BUG: Fixed scene save with images loaded from command-line fixes #3630 (https://issues.slicer.org/view.php?id=3630) The problem was that file names passed to Slicer through command-line arguments are interpreted as relative to the current working ... [More] directory, which is different from how relative paths are interpreted in a scene (relative to .mrb scene file location). Fixed it by converting relative path to absolute path when interpreting command-line arguments. [Less]

ENH: Made auto-rotate slice to camera normal more robust Auto-rotate slice to camera normal only works if the reformat widget is displayed. In Reformat module, auto-rotate is shown as a checkbox on "Normal to camera" button - very far from show/hide ... [More] reformat widget, so when the user just clicks that checkbox it's not obvious why the feature does not work. Solution: turn on slice reformat widget when user clicks on the checkbox on "Normal to camera" button in Reformat module. Another small bug was that when the user clicks the "Normal to camera" button and checkbox is checked then the button becomes unpushed, but the checkbox is still checked, so it is not clear if auto-rotate is still active or not. Solution: changed behavior so that when the user clicks the "Normal to camera button" and the checkbox was checked, then the button becomes unpushed and the checkbox becomes unchecked, too. [Less]

ENH: SampleData module loads all data sets from Midas Also added showing of loading status on the status bar, as the log window is not always visible in lower resolution screens.

BUG: Changed sample data URLs URL for sample data hosted on Slicer wiki is changed - update SampleData module accordingly.

BUG: Prevent FreeSurfer overlay load from custom extensions Revert change of allowing loading of FreeSurfer scalar overlays from custom extensions. It interfered with the logic that determined what reader to use for loading model nodes. Users may ... [More] use composite file extensions that end with a standard extension. For example, instead of lh.meanthickness_contrl these would all work: lh.contrl.mean.thickness, lh.mean_contrl.thickness, lh_mean_contrl.thickness. [Less]

ENH: BuildSystem: Update DCMTK repo to support source download behind proxy See https://discourse.slicer.org/t/slicer-compile-behind-proxy-clone-into-dcmtk-through-http/423

ENH: Fixed loading of FreeSurfer overlays with custom extensions Loading of FreeSurfer scalar overlays from files were offered on the GUI for any file extensions, but an internal check prevented loading from files with non-standard file extension ... [More] (for example, loading from lh.thickness worked but loading from lh.meanthickness_contrl did not). Solved by assuming that overlays with custom file extensions can be read by vtkFSSurfaceScalarReader. [Less]