id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 6892 Tape measure: shapes not aligned chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: Linux-5.13.0-40-generic-x86_64-with-glibc2.34 ChimeraX Version: 1.3 (2021-12-08 23:08:33 UTC) Description (Describe the actions that caused this problem to occur here) Log: UCSF ChimeraX version: 1.3 (2021-12-08) © 2016-2021 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open 6sct Summary of feedback from opening 6sct fetched from pdb --- note | Fetching compressed mmCIF 6sct from http://files.rcsb.org/download/6sct.cif 6sct title: Cryo-EM structure of the consensus triskelion hub of the clathrin coat complex [more info...] Chain information for 6sct #1 --- Chain | Description | UniProt A B C F G H K L M | Clathrin heavy chain | C0MHR2_PIG D E I J N O | Clathrin light chain | F1S398_PIG > ui mousemode right zoom > open 3iyv Summary of feedback from opening 3iyv fetched from pdb --- note | Fetching compressed mmCIF 3iyv from http://files.rcsb.org/download/3iyv.cif 3iyv title: Clathrin D6 coat as full-length Triskelions [more info...] Chain information for 3iyv #2 --- Chain | Description | UniProt A B C D E F G H I | Clathrin heavy chain | CLH1_BOVIN J K L M N O P Q R | Clathrin light chain A | CLCA_BOVIN 3iyv mmCIF Assemblies --- 1| complete point assembly 2| point asymmetric unit 3| point asymmetric unit, std point frame > show cartoons > hide atoms > open em-0116 'em-0116' has no suffix > close session > open /home/zistpooya_co/Downloads/emd_5119.map format ccp4 Opened emd_5119.map as #1, grid size 312,312,312, pixel 2.8, shown at level 0.343, step 2, values float32 > volume #1 level 0.06682 > ui mousemode right clip > ui mousemode right zoom > ui mousemode right ""link markers"" > ui mousemode right ""tape measure"" > marker segment #2 position -232.3,93.73,-33.52 toPosition 229,79.67,95.25 > color yellow radius 0.7 label 479.2 labelHeight 47.92 labelColor yellow Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 637, in gw.mousePressEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_down"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 33, in mouse_down p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. Traceback (most recent call last): File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 638, in gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_drag"") File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/mouse_modes/mousemodes.py"", line 537, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 43, in mouse_drag p, v = self._picked_point(event) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 159, in _picked_point pm, vm = method(xyz1, xyz2) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/tape_measure/tape.py"", line 170, in _surface_or_atom_point p = view.picked_object_on_segment(xyz1, xyz2, exclude = self._exclude_markers_from_pick) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/view.py"", line 834, in picked_object_on_segment p = self.drawing.first_intercept(xyz1, xyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1037, in first_intercept p = self.first_intercept_children(self.child_drawings(), mxyz1, mxyz2, exclude=exclude) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in first_intercept_children pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/graphics/drawing.py"", line 1050, in pos = [p.inverse() * (mxyz1, mxyz2) for p in self.positions] File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/place.py"", line 119, in __mul__ return m34.apply_matrix(self._matrix, p) File ""/usr/lib/ucsf-chimerax/lib/python3.9/site- packages/chimerax/geometry/matrix.py"", line 22, in apply_matrix r = matrix_multiply(points, transpose(tf[:, :3])) File ""<__array_function__ internals>"", line 5, in dot ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) ValueError: shapes (2,) and (3,3) not aligned: 2 (dim 0) != 3 (dim 0) File ""<__array_function__ internals>"", line 5, in dot See log for complete Python traceback. > marker delete #2 OpenGL version: 3.3.0 NVIDIA 470.103.01 OpenGL renderer: NVIDIA GeForce GTX 1660/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation Manufacturer: Supermicro Model: X10DAx OS: Ubuntu 21.10 impish Architecture: 64bit ELF Virutal Machine: none CPU: 40 Intel(R) Xeon(R) CPU E5-2650 v3 @ 2.30GHz Cache Size: 25600 KB Memory: total used free shared buff/cache available Mem: 31Gi 14Gi 2.1Gi 316Mi 14Gi 15Gi Swap: 29Gi 3.4Gi 26Gi Graphics: 81:00.0 VGA compatible controller [0300]: NVIDIA Corporation TU116 [GeForce GTX 1660] [10de:2184] (rev a1) Subsystem: Gigabyte Technology Co., Ltd TU116 [GeForce GTX 1660] [1458:3fc7] Kernel driver in use: nvidia Locale: ('en_US', 'UTF-8') PyQt5 5.15.2, Qt 5.15.2 Installed Packages: alabaster: 0.7.12 appdirs: 1.4.4 Babel: 2.9.1 backcall: 0.2.0 blockdiag: 2.0.1 certifi: 2021.10.8 cftime: 1.5.1.1 charset-normalizer: 2.0.9 ChimeraX-AddCharge: 1.2.2 ChimeraX-AddH: 2.1.3 ChimeraX-AlignmentAlgorithms: 2.0 ChimeraX-AlignmentHdrs: 3.2 ChimeraX-AlignmentMatrices: 2.0 ChimeraX-Alignments: 2.2.3 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.0.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.0 ChimeraX-Atomic: 1.31 ChimeraX-AtomicLibrary: 4.2 ChimeraX-AtomSearch: 2.0 ChimeraX-AtomSearchLibrary: 1.0 ChimeraX-AxesPlanes: 2.0 ChimeraX-BasicActions: 1.1 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.0 ChimeraX-BondRot: 2.0 ChimeraX-BugReporter: 1.0 ChimeraX-BuildStructure: 2.6.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.1 ChimeraX-ButtonPanel: 1.0 ChimeraX-CageBuilder: 1.0 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.2 ChimeraX-ChemGroup: 2.0 ChimeraX-Clashes: 2.2.2 ChimeraX-ColorActions: 1.0 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5 ChimeraX-CommandLine: 1.1.5 ChimeraX-ConnectStructure: 2.0 ChimeraX-Contacts: 1.0 ChimeraX-Core: 1.3 ChimeraX-CoreFormats: 1.1 ChimeraX-coulombic: 1.3.2 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0 ChimeraX-DataFormats: 1.2.2 ChimeraX-Dicom: 1.0 ChimeraX-DistMonitor: 1.1.5 ChimeraX-DistUI: 1.0 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ExperimentalCommands: 1.0 ChimeraX-FileHistory: 1.0 ChimeraX-FunctionKey: 1.0 ChimeraX-Geometry: 1.1 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.1 ChimeraX-Hbonds: 2.1.2 ChimeraX-Help: 1.2 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-ItemsInspection: 1.0 ChimeraX-Label: 1.1 ChimeraX-LinuxSupport: 1.0 ChimeraX-ListInfo: 1.1.1 ChimeraX-Log: 1.1.4 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.8.1 ChimeraX-Map: 1.1 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0 ChimeraX-MapFilter: 2.0 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.1 ChimeraX-Markers: 1.0 ChimeraX-Mask: 1.0 ChimeraX-MatchMaker: 2.0.4 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.1 ChimeraX-Meeting: 1.0 ChimeraX-MLP: 1.1 ChimeraX-mmCIF: 2.4 ChimeraX-MMTF: 2.1 ChimeraX-Modeller: 1.2.6 ChimeraX-ModelPanel: 1.2.1 ChimeraX-ModelSeries: 1.0 ChimeraX-Mol2: 2.0 ChimeraX-Morph: 1.0 ChimeraX-MouseModes: 1.1 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nucleotides: 2.0.2 ChimeraX-OpenCommand: 1.7 ChimeraX-PDB: 2.6.5 ChimeraX-PDBBio: 1.0 ChimeraX-PDBImages: 1.1 ChimeraX-PDBLibrary: 1.0.2 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.0.1 ChimeraX-PubChem: 2.1 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-ResidueFit: 1.0 ChimeraX-RestServer: 1.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 2.0.1 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.4.6 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0 ChimeraX-Shortcuts: 1.1 ChimeraX-ShowAttr: 1.0 ChimeraX-ShowSequences: 1.0 ChimeraX-SideView: 1.0 ChimeraX-Smiles: 2.1 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.6.1 ChimeraX-STL: 1.0 ChimeraX-Storm: 1.0 ChimeraX-Struts: 1.0 ChimeraX-Surface: 1.0 ChimeraX-SwapAA: 2.0 ChimeraX-SwapRes: 2.1 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1 ChimeraX-ToolshedUtils: 1.2 ChimeraX-Tug: 1.0 ChimeraX-UI: 1.2.1 ChimeraX-uniprot: 2.2 ChimeraX-UnitCell: 1.0 ChimeraX-ViewDockX: 1.0.1 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0 ChimeraX-WebServices: 1.0 ChimeraX-Zone: 1.0 colorama: 0.4.4 cxservices: 1.1 cycler: 0.11.0 Cython: 0.29.24 decorator: 5.1.0 distro: 1.6.0 docutils: 0.17.1 filelock: 3.0.12 funcparserlib: 0.3.6 grako: 3.16.5 h5py: 3.6.0 html2text: 2020.1.16 idna: 3.3 ihm: 0.21 imagecodecs: 2021.4.28 imagesize: 1.3.0 ipykernel: 5.5.5 ipython: 7.23.1 ipython-genutils: 0.2.0 jedi: 0.18.0 Jinja2: 3.0.1 jupyter-client: 6.1.12 jupyter-core: 4.9.1 kiwisolver: 1.3.2 line-profiler: 3.3.0 lxml: 4.6.3 lz4: 3.1.3 MarkupSafe: 2.0.1 matplotlib: 3.4.3 matplotlib-inline: 0.1.3 msgpack: 1.0.2 netCDF4: 1.5.7 networkx: 2.6.3 numexpr: 2.8.0 numpy: 1.21.2 openvr: 1.16.801 packaging: 21.3 ParmEd: 3.2.0 parso: 0.8.3 pexpect: 4.8.0 pickleshare: 0.7.5 Pillow: 8.3.2 pip: 21.2.4 pkginfo: 1.7.1 prompt-toolkit: 3.0.23 psutil: 5.8.0 ptyprocess: 0.7.0 pycollada: 0.7.1 pydicom: 2.1.2 Pygments: 2.10.0 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 3.0.6 PyQt5-commercial: 5.15.2 PyQt5-sip: 12.8.1 PyQtWebEngine-commercial: 5.15.2 python-dateutil: 2.8.2 pytz: 2021.3 pyzmq: 22.3.0 qtconsole: 5.1.1 QtPy: 1.11.3 RandomWords: 0.3.0 requests: 2.26.0 scipy: 1.7.1 Send2Trash: 1.8.0 SEQCROW: 1.3.2 setuptools: 57.5.0 sfftk-rw: 0.7.1 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 Sphinx: 4.2.0 sphinx-autodoc-typehints: 1.12.0 sphinxcontrib-applehelp: 1.0.2 sphinxcontrib-blockdiag: 2.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 2.0.0 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.5 suds-jurko: 0.6 tables: 3.6.1 tifffile: 2021.4.8 tinyarray: 1.2.3 tornado: 6.1 traitlets: 5.1.1 urllib3: 1.26.7 wcwidth: 0.2.5 webcolors: 1.11.1 wheel: 0.37.0 wheel-filename: 1.3.0 }}} " defect closed normal Structure Analysis fixed all ChimeraX