An error occurred while adding nii format data

ThreeStones1029 · August 10, 2023, 8:42am

Problem report for Slicer 5.2.2 linux-amd64: [please describe expected and actual behavior]
Hello:

I met a problem, the thing is like this, I did not close the software after adding two nii.gz data, and later I wanted to add another nii.gz file, but when I clicked add data in File, the pop-up window was black (the pop-up window is as follows), so I immediately checked the log file. The uploaded attachment is the bug log. I checked the log and guessed it was a QT problem, but I didn’t know how to fix it.

I’ve tried turning it back on, but it only seems to last a while, and the problem keeps recurring.
If anyone has encountered the same problem, can you tell me how to solve it? Thank you very much.

bug log:

[DEBUG][Qt] 10.08.2023 08:47:18 [] (unknown:0) - Session start time .......: 2023-08-10 08:47:18
[DEBUG][Qt] 10.08.2023 08:47:18 [] (unknown:0) - Slicer version ...........: 5.2.2 (revision 31382 / fb46bd1) linux-amd64 - installed release
[DEBUG][Qt] 10.08.2023 08:47:18 [] (unknown:0) - Operating system .........: Linux / 5.15.0-78-generic / #85~20.04.1-Ubuntu SMP Mon Jul 17 09:42:39 UTC 2023 / UTF-8 - 64-bit
[DEBUG][Qt] 10.08.2023 08:47:18 [] (unknown:0) - Memory ...................: 32011 MB physical, 31249 MB virtual
[DEBUG][Qt] 10.08.2023 08:47:18 [] (unknown:0) - CPU ......................: GenuineIntel Intel(R) Xeon(R) CPU E5-2640 v4 @ 2.40GHz, 10 cores, 20 logical processors
[DEBUG][Qt] 10.08.2023 08:47:18 [] (unknown:0) - VTK configuration ........: OpenGL2 rendering, Sequential threading
[DEBUG][Qt] 10.08.2023 08:47:18 [] (unknown:0) - Qt configuration .........: version 5.15.2, with SSL, requested OpenGL 3.2 (core profile)
[DEBUG][Qt] 10.08.2023 08:47:18 [] (unknown:0) - Internationalization .....: disabled, language=
[DEBUG][Qt] 10.08.2023 08:47:18 [] (unknown:0) - Developer mode ...........: disabled
[DEBUG][Qt] 10.08.2023 08:47:18 [] (unknown:0) - Application path .........: /home/***/Slicer-5.2.2-linux-amd64/bin
[DEBUG][Qt] 10.08.2023 08:47:18 [] (unknown:0) - Additional module paths ..: (none)
[DEBUG][Python] 10.08.2023 08:47:24 [Python] (/home/***/Slicer-5.2.2-linux-amd64/lib/Slicer-5.2/qt-scripted-modules/SubjectHierarchyPlugins/AbstractScriptedSubjectHierarchyPlugin.py:38) - Scripted subject hierarchy plugin registered: Annotations
[DEBUG][Python] 10.08.2023 08:47:25 [Python] (/home/***/Slicer-5.2.2-linux-amd64/lib/Slicer-5.2/qt-scripted-modules/SubjectHierarchyPlugins/AbstractScriptedSubjectHierarchyPlugin.py:38) - Scripted subject hierarchy plugin registered: SegmentEditor
[DEBUG][Python] 10.08.2023 08:47:25 [Python] (/home/***/Slicer-5.2.2-linux-amd64/lib/Slicer-5.2/qt-scripted-modules/SubjectHierarchyPlugins/AbstractScriptedSubjectHierarchyPlugin.py:38) - Scripted subject hierarchy plugin registered: SegmentStatistics
[DEBUG][Qt] 10.08.2023 08:47:25 [] (unknown:0) - Switch to module:  "Welcome"
[INFO][VTK] 10.08.2023 08:47:49 [vtkMRMLVolumeArchetypeStorageNode (0x8045660)] (/work/Stable/Slicer-0/Libs/MRML/Core/vtkMRMLVolumeArchetypeStorageNode.cxx:513) - Loaded volume from file: /home/***/Desktop/ITK_3D/data/***.nii.gz. Dimensions: 512x512x464. Number of components: 1. Pixel type: int.
[DEBUG][Qt] 10.08.2023 08:47:49 [] (unknown:0) - "Volume" Reader has successfully read the file "/home/jjf/Desktop/ITK_3D/data/***.nii.gz" "[3.52s]"
[INFO][VTK] 10.08.2023 08:51:33 [vtkMRMLVolumeArchetypeStorageNode (0xc44c980)] (/work/Stable/Slicer-0/Libs/MRML/Core/vtkMRMLVolumeArchetypeStorageNode.cxx:513) - Loaded volume from file: /home/***/Desktop/ITK_3D/data/***.nii.gz. Dimensions: 512x512x420. Number of components: 1. Pixel type: int.
[DEBUG][Qt] 10.08.2023 08:51:33 [] (unknown:0) - "Volume" Reader has successfully read the file "/home/jjf/Desktop/ITK_3D/data/***.nii.gz" "[3.13s]"
[WARNING][Qt] 10.08.2023 09:02:03 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 9348, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:03 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 9351, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:03 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 9367, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:03 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 9368, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:03 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 9380, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:03 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 9384, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:03 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 9385, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:03 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 9389, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:04 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 9392, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:04 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 9396, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:04 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 9400, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[DEBUG][Qt] 10.08.2023 09:02:14 [] (unknown:0) - Switch to module:  "DICOM"
[CRITICAL][Stream] 10.08.2023 09:02:14 [] (unknown:0) - Database folder does not contain ctkDICOM.sql file: /home/***/Documents/SlicerDICOMDatabase
[WARNING][Qt] 10.08.2023 09:02:18 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10053, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:18 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10056, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:18 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10060, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:18 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10061, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:22 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10094, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:22 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10095, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:24 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10106, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:24 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10107, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:25 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10125, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:25 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10136, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:25 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10137, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:25 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10148, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:30 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10296, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:30 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10299, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:30 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10303, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:30 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10304, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[DEBUG][Qt] 10.08.2023 09:02:36 [] (unknown:0) - Switch to module:  "Data"
[WARNING][Qt] 10.08.2023 09:02:39 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10689, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:39 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10692, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:39 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10708, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:39 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10709, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:41 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10724, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:41 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10725, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:41 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10726, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:41 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10727, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:41 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10728, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:02:43 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10737, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:38 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10757, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:40 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10774, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:40 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10778, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:40 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10782, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:40 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10786, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:43 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10978, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:43 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10981, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:43 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10997, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:43 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 10998, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:44 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 11011, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:44 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 11015, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:44 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 11019, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:44 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 11020, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:44 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 11021, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:44 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 11022, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:44 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 11023, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:49 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 11045, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:06:49 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 11049, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[DEBUG][Qt] 10.08.2023 09:07:31 [] (unknown:0) - Switch to module:  "Welcome"
[WARNING][Qt] 10.08.2023 09:07:40 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 11988, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:07:40 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 11991, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:07:40 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 12007, resource id: 121634877, major code: 130 (Unknown), minor code: 3
[WARNING][Qt] 10.08.2023 09:07:40 [] (unknown:0) - QXcbConnection: XCB error: 8 (BadMatch), sequence: 12008, resource id: 121634877, major code: 130 (Unknown), minor code: 3

lassoan · August 10, 2023, 8:59am

Thanks for reporting, it seems like the same or very similar issue as this one:

github.com/Slicer/Slicer

Switching workspaces in Ubuntu causes multiple UI failures

opened 09:09PM - 04 Aug 23 UTC

tao558

type:bug

## Summary Switching workspaces in Ubuntu can be done with the `ctrl` + `alt` +… `down` / `up` arrow keys. If a user opens slicer, loads two volumes into the foreground / background, switches workspaces, then returns to the workspace with slicer open, two UI failures happen: 1. Clicking the "add data" button opens a completely black menu box 2. The foreground / background volumes can no longer be changed (the dropdown menu doesn't appear) See the attached video for an example of both of these errors. ## Steps to reproduce 1. Load a volume into the background and foreground for a given slice view 2. Change to a different workspace (`ctrl` + `alt` + `down` / `up`) 3. Change back to the original workspace with slicer open 4. Try clicking the "add data" button and observe that the menu is completely black 5. Try changing the foreground / background volumes and observe that the drop down menu doesn't appear ## Environment - Slicer version: Slicer-5.3.0-2023-08-03 - Operating system: Ubuntu 20.04 The following debug output from the error log might be helpful: ``` QXcbConnection: XC https://github.com/Slicer/Slicer/assets/26352734/7fc4027d-c515-4c30-aa5a-14adc4571b63 B error: 8 (BadMatch), sequence: 3577, resource id: 41943173, major code: 130 (Unknown), minor code: 3 QXcbConnection: XCB error: 8 (BadMatch), sequence: 3580, resource id: 41943173, major code: 130 (Unknown), minor code: 3 QXcbConnection: XCB error: 8 (BadMatch), sequence: 3593, resource id: 41943173, major code: 130 (Unknown), minor code: 3 QXcbConnection: XCB error: 8 (BadMatch), sequence: 3594, resource id: 41943173, major code: 130 (Unknown), minor code: 3 ``` https://github.com/Slicer/Slicer/assets/26352734/c8829dd9-b543-4697-bb2e-4f8e1d63e02f

Topic		Replies	Views
Add Data dialog box appears black the second time it's opened Support	7	258	March 13, 2023
SlicerDcm2nii error Support	17	452	August 13, 2020
SlicerRT ERROR No image data in input volume #0 Support bug , slicerrt	8	1114	November 15, 2020
Add Data menu turns black Support	0	91	June 20, 2023
Problem with saving Support	11	2015	April 18, 2018

An error occurred while adding nii format data

Related Topics