id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 3130 Session saving: surface color is None mfschmid@… Goddard "{{{ The following bug report has been submitted: Platform: Windows-10-10.0.17763 ChimeraX Version: 0.92 (2020-01-31) Description (Describe the actions that caused this problem to occur here) Save session Log: UCSF ChimeraX version: 0.92 (2020-01-31) © 2016-2020 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open X:/COVID-coronavirus-VR/nl63_grid3_04182020_pos24__bin4-rau.hdf Opened nl63_grid3_04182020_pos24__bin4-rau.hdf, grid size 1024,1024,256, pixel 8.78, shown at step 1, values uint16 > volume #1 region 0,0,0,1023,1023,255 step 4 > volume #1 region 0,0,0,1023,1023,255 step 4 > volume #1 step 1 > vr true started SteamVR rendering > vr false > close session > open X:/COVID-coronavirus-VR/nl63_grid3_04182020_pos247__bin4-ragp128u16.hdf Opened nl63_grid3_04182020_pos247__bin4-ragp128u16.hdf, grid size 1024,1024,256, pixel 8.78, shown at step 1, values uint16 > volume #1 region 0,0,0,1023,1023,255 step 4 > volume #1 region 0,0,0,1023,1023,255 step 4 > volume #1 step 1 > volume #1 level 1.04e+04 > volume #1 change image level 8961,0 level 1.054e+04,0.8 level 2.001e+04,1 > volume #1 level 1.03e+04 > surface dust #1 size 30 > surface dust #1 size 50 > volume #1 level 1.02e+04 > color height #1 center 0,0,0 axis z palette rainbow > open X:/COVID-coronavirus-VR/nl63_grid3_04182020_pos247__bin4-ragp128u16.hdf Opened nl63_grid3_04182020_pos247__bin4-ragp128u16.hdf, grid size 1024,1024,256, pixel 8.78, shown at step 1, values uint16 > volume #1 region 0,0,0,1023,1023,255 step 4 > volume #1 region 0,0,0,1023,1023,255 step 4 > volume #1 step 1 > color height #1 center 0,0,0 axis z palette rainbow > volume #1 level 1.02e+04 > volume #1 change image level 8961,0 level 1.054e+04,0.8 level 2.001e+04,1 > surface dust #1 size 50 > save session X:/COVID-coronavirus-VR/pos247.cxs Traceback (most recent call last): File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\session.py"", line 276, in process data = sm.take_snapshot(obj, session, self.state_flags) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\map\volume.py"", line 2190, in take_snapshot 'rgba': self.rgba, File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\map\volume.py"", line 1898, in _get_rgba return tuple(c/255 for c in self.color) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\map\volume.py"", line 1926, in get_color return Surface.get_color(self) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\graphics\drawing.py"", line 530, in get_color return self._colors[0] TypeError: 'NoneType' object is not subscriptable The above exception was the direct cause of the following exception: Traceback (most recent call last): File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\session.py"", line 796, in save session.save(output, version=version, include_maps=include_maps) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\session.py"", line 556, in save mgr.discovery(self._state_containers) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\session.py"", line 255, in discovery self.processed[key] = self.process(obj, parents) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\session.py"", line 279, in process raise RuntimeError(msg) from e RuntimeError: Error while saving session data for '_surface_updaters' -> -> -> 'surface' RuntimeError: Error while saving session data for '_surface_updaters' -> -> -> 'surface' File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\session.py"", line 279, in process raise RuntimeError(msg) from e See log for complete Python traceback. Traceback (most recent call last): File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\session.py"", line 276, in process data = sm.take_snapshot(obj, session, self.state_flags) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\map\volume.py"", line 2190, in take_snapshot 'rgba': self.rgba, File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\map\volume.py"", line 1898, in _get_rgba return tuple(c/255 for c in self.color) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\map\volume.py"", line 1926, in get_color return Surface.get_color(self) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\graphics\drawing.py"", line 530, in get_color return self._colors[0] TypeError: 'NoneType' object is not subscriptable The above exception was the direct cause of the following exception: Traceback (most recent call last): File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\ui\gui.py"", line 925, in save_action.triggered.connect(lambda arg, s=self, sess=session: s.file_save_cb(sess)) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\ui\gui.py"", line 643, in file_save_cb self.save_dialog.display(self, session) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\ui\save_dialog.py"", line 139, in display fmt.save(session, filename) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\session.py"", line 1100, in save run(session, cmd) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\commands\run.py"", line 31, in run results = command.run(text, log=log) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2837, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\session.py"", line 992, in save_session save(session, filename, **kw) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\commands\save.py"", line 61, in save fmt.export(session, filename, fmt.nicknames[0], **kw) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\io.py"", line 229, in export result = self.export_func(session, path, **kw) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\session.py"", line 796, in save session.save(output, version=version, include_maps=include_maps) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\session.py"", line 556, in save mgr.discovery(self._state_containers) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\session.py"", line 255, in discovery self.processed[key] = self.process(obj, parents) File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\session.py"", line 279, in process raise RuntimeError(msg) from e RuntimeError: Error while saving session data for '_surface_updaters' -> -> -> 'surface' RuntimeError: Error while saving session data for '_surface_updaters' -> -> -> 'surface' File ""C:\Program Files\ChimeraX-daily-01-31-2020\bin\lib\site- packages\chimerax\core\session.py"", line 279, in process raise RuntimeError(msg) from e See log for complete Python traceback. OpenGL version: 3.3.0 NVIDIA 432.00 OpenGL renderer: GeForce GTX 1080/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation }}} " defect closed normal Volume Data fixed all ChimeraX