![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
| Version 2 (modified by , 10 years ago) ( diff ) |
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Trac Ticket Queries
Table of Contents
In addition to reports, Trac provides support for custom ticket queries, which can be used to display tickets that meet specified criteria.
To configure and execute a custom query, switch to the View Tickets module from the navigation bar, and select the Custom Query link.
Filters
When you first go to the query page, the default filter will display tickets relevant to you:
- If logged in then all open tickets, it will display open tickets assigned to you.
- If not logged in but you have specified a name or email address in the preferences, then it will display all open tickets where your email (or name if email not defined) is in the CC list.
- If not logged in and no name/email is defined in the preferences, then all open issues are displayed.
Current filters can be removed by clicking the button to the left with the minus sign on the label. New filters are added from the pulldown lists at the bottom corners of the filters box; 'And' conditions on the left, 'Or' conditions on the right. Filters with either a text box or a pulldown menu of options can be added multiple times to perform an Or on the criteria.
You can use the fields just below the filters box to group the results based on a field, or display the full description for each ticket.
After you have edited your filters, click the Update button to refresh your results.
Some shortcuts can be used to manipulate checkbox filters.
- Clicking on a filter row label toggles all checkboxes.
- Pressing the modifier key while clicking on a filter row label inverts the state of all checkboxes.
- Pressing the modifier key while clicking on a checkbox selects the checkbox and deselects all other checkboxes in the filter.
The modifier key is platform and browser dependent. On Mac the modified key is Option/Alt or Command. On Linux the modifier key is Ctrl + Alt. Opera on Windows seems to use Ctrl + Alt, while Alt is effective for other Windows browsers.
Navigating Tickets
Clicking on one of the query results will take you to that ticket. You can navigate through the results by clicking the Next Ticket or Previous Ticket links just below the main menu bar, or click the Back to Query link to return to the query page.
You can safely edit any of the tickets and continue to navigate through the results using the Next/Previous/Back to Query links after saving your results. When you return to the query any tickets which were edited will be displayed with italicized text. If one of the tickets was edited such that it no longer matches the query criteria , the text will also be greyed. Lastly, if a new ticket matching the query criteria has been created, it will be shown in bold.
The query results can be refreshed and cleared of these status indicators by clicking the Update button again.
Saving Queries
Trac allows you to save the query as a named query accessible from the reports module. To save a query ensure that you have Updated the view and then click the Save query button displayed beneath the results. You can also save references to queries in Wiki content, as described below.
Note: one way to easily build queries like the ones below, you can build and test the queries in the Custom report module and when ready - click Save query. This will build the query string for you. All you need to do is remove the extra line breaks.
Note: you must have the REPORT_CREATE permission in order to save queries to the list of default reports. The Save query button will only appear if you are logged in as a user that has been granted this permission. If your account does not have permission to create reports, you can still use the methods below to save a query.
Using TracLinks
You may want to save some queries so that you can come back to them later. You can do this by making a link to the query from any Wiki page.
[query:status=new|assigned|reopened&version=1.0 Active tickets against 1.0]
Which is displayed as:
This uses a very simple query language to specify the criteria, see Query Language.
Alternatively, you can copy the query string of a query and paste that into the Wiki link, including the leading ? character:
[query:?status=new&status=assigned&status=reopened&group=owner Assigned tickets by owner]
Which is displayed as:
Customizing the table format
You can also customize the columns displayed in the table format (format=table) by using col=<field>. You can specify multiple fields and what order they are displayed in by placing pipes (|) between the columns:
[[TicketQuery(max=3,status=closed,order=id,desc=1,format=table,col=resolution|summary|owner|reporter)]]
This is displayed as:
Results (1 - 3 of 14195)
| Ticket | Resolution | Summary | Owner | Reporter |
|---|---|---|---|---|
| #20869 | limitation | Toolshed searching broken | ||
| #20868 | limitation | Crash in NSAccessibility routines in Qt 6.10.2 | ||
| #20865 | limitation | glGetError: invalid operation |
Full rows
In table format you can also have full rows by using rows=<field>:
[[TicketQuery(max=3,status=closed,order=id,desc=1,format=table,col=resolution|summary|owner|reporter,rows=description)]]
This is displayed as:
Results (1 - 3 of 14195)
| Ticket | Resolution | Summary | Owner | Reporter |
|---|---|---|---|---|
| #20869 | limitation | Toolshed searching broken | ||
| Description |
Toolshed searching is not working right now. Searching for "FastHydroMap" or "PhenixUI" produces no result rather than those bundles. Searching for "phenix" produces PhenixUI as a result, along with LigandRecognizer and TugLigands. LigandRecognizer makes sense since it makes reference to Phenix in its description, but I can find no reason that TugLigands would be included in the results. |
|||
| #20868 | limitation | Crash in NSAccessibility routines in Qt 6.10.2 | ||
| Description |
The following bug report has been submitted:
Platform: macOS-15.7.9-arm64-arm-64bit-Mach-O
ChimeraX Version: 1.13.dev202608172052 (2026-08-17 20:52:46 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault
Current thread 0x00000001f2df22c0 [CrBrowserMain] (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.14/lib/python3.14/site-packages/chimerax/ui/gui.py", line 434 in event_loop
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.14/lib/python3.14/site-packages/chimerax/core/__main__.py", line 1075 in init
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.14/lib/python3.14/site-packages/chimerax/core/__main__.py", line 1240 in
File "", line 88 in _run_code
File "", line 203 in _run_module_as_main
Current thread's C stack trace (most recent call first):
Binary file "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.14/lib/libpython3.14.dylib", at _Py_DumpStack+0x44 [0x104620fc4]
Binary file "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.14/lib/libpython3.14.dylib", at faulthandler_dump_c_stack+0x54 [0x104699c68]
Binary file "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.14/lib/libpython3.14.dylib", at faulthandler_fatal_error+0x16c [0x104699b18]
Binary file "/usr/lib/system/libsystem_platform.dylib", at _sigtramp+0x38 [0x184e696a4]
Binary file "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.14/lib/python3.14/site-packages/PyQt6/Qt6/plugins/platforms/libqcocoa.dylib", at qt_plugin_instance+0x7c7e8 [0x11c870008]
Binary file "/System/Library/Frameworks/AppKit.framework/Versions/C/AppKit", at -[NSAccessibilityAttributeAccessorInfo getAttributeValue:forObject:]+0x3c [0x188eb7364]
Binary file "/System/Library/Frameworks/AppKit.framework/Versions/C/AppKit", at ___NSAccessibilityEntryPointValueForAttribute_block_invoke.770+0x5f0 [0x189643af4]
Binary file "/System/Library/Frameworks/AppKit.framework/Versions/C/AppKit", at NSAccessibilityPerformEntryPointObject+0x2c [0x18963f6b4]
Binary file "/System/Library/Frameworks/AppKit.framework/Versions/C/AppKit", at _NSAccessibilityEntryPointValueForAttribute+0xe0 [0x189084914]
Binary file "/System/Library/Frameworks/AppKit.framework/Versions/C/AppKit", at -[NSObject(NSObjectAccessibilityAttributeAccessAdditions) accessibilityArrayAttributeCount:]+0x24 [0x18939ca4c]
Binary file "/System/Library/Frameworks/AppKit.framework/Versions/C/AppKit", at -[NSObject(NSAccessibilityInternal) _accessibilityArrayAttributeCount:clientError:]+0x78 [0x18939d974]
Binary file "/System/Library/Frameworks/AppKit.framework/Versions/C/AppKit", at GetAttributeValueCount+0xb4 [0x1893a129c]
Binary file "/System/Library/Frameworks/ApplicationServices.framework/Versions/A/Frameworks/HIServices.framework/Versions/A/HIServices", at __AXCopyAttributeValueForHierarchy+0x98 [0x18bca46a0]
Binary file "/System/Library/Frameworks/ApplicationServices.framework/Versions/A/Frameworks/HIServices.framework/Versions/A/HIServices", at _AXXMIGCopyHierarchy+0x638 [0x18bca2b30]
Binary file "/System/Library/Frameworks/ApplicationServices.framework/Versions/A/Frameworks/HIServices.framework/Versions/A/HIServices", at _XCopyHierarchy+0x24c [0x18bcc1eb0]
Binary file "/System/Library/Frameworks/ApplicationServices.framework/Versions/A/Frameworks/HIServices.framework/Versions/A/HIServices", at mshMIGPerform+0xd0 [0x18bc7fff8]
Binary file "/System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation", at __CFRUNLOOP_IS_CALLING_OUT_TO_A_SOURCE1_PERFORM_FUNCTION__+0x3c [0x184f1ae50]
Binary file "/System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation", at __CFRunLoopDoSource1+0x1fc [0x184f1ad78]
Binary file "/System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation", at __CFRunLoopRun+0x898 [0x184f19778]
Binary file "/System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation", at CFRunLoopRunSpecific+0x23c [0x184f18858]
Binary file "/System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/HIToolbox.framework/Versions/A/HIToolbox", at RunCurrentEventLoopInMode+0x144 [0x1909c027c]
Binary file "/System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/HIToolbox.framework/Versions/A/HIToolbox", at ReceiveNextEventCommon+0x2a4 [0x1909c34e8]
Binary file "/System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/HIToolbox.framework/Versions/A/HIToolbox", at _BlockUntilNextEventMatchingListInModeWithFilter+0x4c [0x190b4e484]
Binary file "/System/Library/Frameworks/AppKit.framework/Versions/C/AppKit", at _DPSNextEvent+0x2ac [0x188e3aa34]
Binary file "/System/Library/Frameworks/AppKit.framework/Versions/C/AppKit", at -[NSApplication(NSEventRouting) _nextEventMatchingEventMask:untilDate:inMode:dequeue:]+0x2b0 [0x1897d95cc]
Binary file "/System/Library/Frameworks/AppKit.framework/Versions/C/AppKit", at -[NSApplication run]+0x1e0 [0x188e2dbe4]
Binary file "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.14/lib/python3.14/site-packages/PyQt6/Qt6/plugins/platforms/libqcocoa.dylib", at qt_plugin_instance+0xdde8 [0x11c801608]
Binary file "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.14/lib/python3.14/site-packages/PyQt6/Qt6/lib/QtCore.framework/Versions/A/QtCore", at _ZN10QEventLoop4execE6QFlagsINS_17ProcessEventsFlagEE+0x24c [0x10686df9c]
Binary file "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.14/lib/python3.14/site-packages/PyQt6/Qt6/lib/QtCore.framework/Versions/A/QtCore", at _ZN16QCoreApplication4execEv+0xe4 [0x106864704]
Binary file "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.14/lib/python3.14/site-packages/PyQt6/QtWidgets.abi3.so", at _ZL22meth_QApplication_execP7_objectS0_+0x60 [0x107a67c1c]
Binary file "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.14/lib/libpython3.14.dylib", at cfunction_call+0x6c [0x103f9fab8]
Binary file "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.14/lib/libpython3.14.dylib", at _TAIL_CALL_CALL.llvm.12785051352303791014+0x66c [0x103d64ae8]
Extension modules: chimerax.arrays._arrays, numpy._core._multiarray_umath, numpy.linalg._umath_linalg, chimerax.geometry._geometry, PyQt6.QtCore, PyQt6.QtGui, PyQt6.QtWidgets, PyQt6.QtNetwork, PyQt6.QtPrintSupport, PyQt6.QtWebChannel, PyQt6.QtWebEngineCore, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.map._map, psutil._psutil_osx, lxml._elementpath, lxml.etree, chimerax.surface._surface, chimerax.pdb_lib._load_libs, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, PIL._imaging, PIL._imagingmath, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler (total: 33)
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"codeSigningMonitor" : 1,
"incident" : "8CB7A139-4F92-413E-A2C1-9C1930374B6F",
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"procExitAbsTime" : 122583582051,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX_Daily.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.13.0","CFBundleVersion":"1.13.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
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"appleIntelligenceStatus" : {"reasons":["assetIsNotReady"],"state":"restricted"},
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"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
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"codeSigningTrustLevel" : 4294967295,
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"bootSessionUUID" : "661031A0-C4D1-4ED4-8AE1-C7DADD92DF5D",
"sip" : "enabled",
"vmRegionInfo" : "0x5e9cb2de3f10 is not in any region. Bytes after previous region: 103546072481553 Bytes before following region: 1526007447792
REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL
commpage (reserved) 1000000000-7000000000 [384.0G] ---\/--- SM=NUL reserved VM address space (unallocated)
---> GAP OF 0x5f9000000000 BYTES
MALLOC_NANO 600000000000-600020000000 [512.0M] rw-\/rwx SM=PRV ",
"exception" : {"codes":"0x0000000000000001, 0x0000de9cb2de3f10","rawCodes":[1,244764597174032],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x0000de9cb2de3f10 -> 0x00005e9cb2de3f10 (possible pointer authentication failure)"},
"termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":36796},
"vmregioninfo" : "0x5e9cb2de3f10 is not in any region. Bytes after previous region: 103546072481553 Bytes before following region: 1526007447792
REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL
commpage (reserved) 1000000000-7000000000 [384.0G] ---\/--- SM=NUL reserved VM address space (unallocated)
---> GAP OF 0x5f9000000000 BYTES
MALLOC_NANO 600000000000-600020000000 [512.0M] rw-\/rwx SM=PRV ",
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"faultingThread" : 0,
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===== Log before crash start =====
UCSF ChimeraX version: 1.13.dev202608172052 (2026-08-17)
© 2016-2026 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /Users/yang/Desktop/DUF3800/Flowchart/TbCar6dL/cryosparc_P53_J16_class_01_00142_volume.mrc
Opened cryosparc_P53_J16_class_01_00142_volume.mrc as #1, grid size
128,128,128, pixel 1.94, shown at level 0.262, step 1, values float32
> open
> /Users/yang/Desktop/DUF3800/Flowchart/TbCar6dL/cryosparc_P53_J16_class_02_00142_volume.mrc
Opened cryosparc_P53_J16_class_02_00142_volume.mrc as #2, grid size
128,128,128, pixel 1.94, shown at level 0.262, step 1, values float32
> hide #!1 models
> set bgColor white
> volume #2 level 0.4084
> open
> /Users/yang/Desktop/DUF3800/Flowchart/TbCar6dL/cryosparc_P53_J16_class_00_00142_volume.mrc
Opened cryosparc_P53_J16_class_00_00142_volume.mrc as #3, grid size
128,128,128, pixel 1.94, shown at level 0.427, step 1, values float32
> hide #!2 models
> volume #3 level 0.6193
> open
> /Users/yang/Desktop/DUF3800/Flowchart/TbCar6dL/cryosparc_P53_J25_005_volume_map.mrc
Opened cryosparc_P53_J25_005_volume_map.mrc as #4, grid size 340,340,340,
pixel 0.732, shown at level 0.079, step 2, values float32
> hide #!3 models
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.13.dev202608172052 (2026-08-17)
© 2016-2026 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /Users/yang/Desktop/DUF3800/Flowchart/TbCar6dL/cryosparc_P53_J16_class_00_00142_volume.mrc
Opened cryosparc_P53_J16_class_00_00142_volume.mrc as #1, grid size
128,128,128, pixel 1.94, shown at level 0.427, step 1, values float32
> open
> /Users/yang/Desktop/DUF3800/Flowchart/TbCar6dL/cryosparc_P53_J16_class_01_00142_volume.mrc
Opened cryosparc_P53_J16_class_01_00142_volume.mrc as #2, grid size
128,128,128, pixel 1.94, shown at level 0.262, step 1, values float32
> open
> /Users/yang/Desktop/DUF3800/Flowchart/TbCar6dL/cryosparc_P53_J16_class_02_00142_volume.mrc
Opened cryosparc_P53_J16_class_02_00142_volume.mrc as #3, grid size
128,128,128, pixel 1.94, shown at level 0.262, step 1, values float32
> open
> /Users/yang/Desktop/DUF3800/Flowchart/TbCar6dL/cryosparc_P53_J25_005_volume_map.mrc
Opened cryosparc_P53_J25_005_volume_map.mrc as #4, grid size 340,340,340,
pixel 0.732, shown at level 0.079, step 2, values float32
OpenGL version: 4.1 Metal - 89.4
OpenGL renderer: Apple M3 Max
OpenGL vendor: Apple
Python: 3.14.6
Locale: C.UTF-8
Qt version: PyQt6 6.10.2, Qt 6.10.0
Qt runtime version: 6.10.2
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: Mac15,10
Model Number: MRX53LL/A
Chip: Apple M3 Max
Total Number of Cores: 14 (10 performance and 4 efficiency)
Memory: 36 GB
System Firmware Version: mBoot-18000.161.10
OS Loader Version: 11881.140.96.701.1
Software:
System Software Overview:
System Version: macOS 15.7.9 (24G830)
Kernel Version: Darwin 24.6.0
Time since boot: 1 hour, 25 minutes
Graphics/Displays:
Apple M3 Max:
Chipset Model: Apple M3 Max
Type: GPU
Bus: Built-In
Total Number of Cores: 30
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
DELL U4323QE:
Resolution: 7616 x 4284
UI Looks like: 3808 x 2142 @ 60.00Hz
Main Display: Yes
Mirror: Off
Online: Yes
Rotation: Supported
Television: Yes
LG ULTRAGEAR:
Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition)
UI Looks like: 1280 x 720 @ 60.00Hz
Mirror: Off
Online: Yes
Rotation: Supported
LG HDR 4K:
Resolution: 3888 x 6912
UI Looks like: 1944 x 3456 @ 60.00Hz
Mirror: Off
Online: Yes
Rotation: 90
Installed Packages:
accessible-pygments: 0.0.5
aiohappyeyeballs: 2.7.1
aiohttp: 3.14.3
aiosignal: 1.4.0
alabaster: 1.0.0
annotated-types: 0.8.0
anyio: 4.14.2
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 3.0.2
attrs: 26.1.0
babel: 2.18.0
beautifulsoup4: 4.15.0
blockdiag: 3.0.0
blosc2: 4.11.0
build: 1.5.0
certifi: 2026.7.22
cffi: 2.1.1
cftime: 1.6.5
charset-normalizer: 3.5.1
ChimeraX-AddCharge: 1.5.20
ChimeraX-AddH: 2.3.1
ChimeraX-AlignmentAlgorithms: 2.0.3
ChimeraX-AlignmentHdrs: 3.6.2
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 3.2.2
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Animations: 1.0
ChimeraX-Aniso: 1.3.2
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.71.1
ChimeraX-AtomicLibrary: 14.4.3
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.3
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-Boltz: 1.1
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.2
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.6.0
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4.1
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.5.1
ChimeraX-ChemGroup: 2.0.2
ChimeraX-Clashes: 2.4
ChimeraX-Cluster: 1.0.1
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.8
ChimeraX-CommandLine: 1.3.1
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.13.dev202608172052
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.6
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.3
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.2.2
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-FileHistory: 1.0.1
ChimeraX-FunctionKey: 1.0.1
ChimeraX-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.4.1
ChimeraX-Hbonds: 2.5.4
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.4
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.8.5
ChimeraX-Label: 1.5
ChimeraX-LightingGUI: 1.0
ChimeraX-ListInfo: 1.3.1
ChimeraX-Log: 1.2.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.3
ChimeraX-Map: 1.3
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0.1
ChimeraX-MapFilter: 2.0.1
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1.1
ChimeraX-Markers: 1.0.1
ChimeraX-Mask: 1.0.2
ChimeraX-MatchAlign: 1.2.1
ChimeraX-MatchMaker: 2.4.1
ChimeraX-MCopy: 1.0
ChimeraX-MCPServer: 0.2.0
ChimeraX-MDcrds: 2.20
ChimeraX-Meeting: 1.0.1
ChimeraX-Minimize: 1.4.4
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.17
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.24
ChimeraX-ModelPanel: 1.6.1
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0.4
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0.1
ChimeraX-MutationScores: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.16.2
ChimeraX-OpenFold: 1.0
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.13
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.5
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.4
ChimeraX-ProfileGrids: 1.12
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.8.3
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.3
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.3
ChimeraX-Scenes: 0.3.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.3
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.12
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.20
ChimeraX-Shape: 1.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.1
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-SimilarStructures: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SNFG: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.20
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.2.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.5.3
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.2.4
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.56
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.2
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDock: 1.6.5
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-vrml: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.5
ChimeraX-Zone: 1.0.1
click: 8.4.2
colorama: 0.4.6
comm: 0.2.3
contourpy: 1.3.3
coverage: 7.15.4
cryptography: 50.0.0
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.2.9
debugpy: 1.8.21
decorator: 5.3.1
docutils: 0.22
executing: 2.2.1
filelock: 3.32.0
fonttools: 4.63.0
frozenlist: 1.8.0
funcparserlib: 2.0.0a0
glfw: 2.10.2
grako: 3.16.5
h11: 0.16.0
h2: 4.4.1
h5py: 3.16.0
hpack: 4.2.0
html2text: 2025.4.15
httpcore: 1.0.9
httpx: 0.28.1
httpx-sse: 0.4.3
hyperframe: 6.1.0
idna: 3.18
ihm: 2.2
imagecodecs: 2026.6.26
imagesize: 2.0.0
iniconfig: 2.3.0
ipykernel: 7.3.0
ipython: 9.14.1
ipython_pygments_lexers: 1.1.1
jedi: 0.20.0
Jinja2: 3.1.6
jsonschema: 4.26.0
jsonschema-specifications: 2025.9.1
jupyter_client: 8.9.1
jupyter_core: 5.9.1
kiwisolver: 1.5.0
line_profiler: 5.0.2
lxml: 6.1.1
lz4: 4.4.5
Markdown: 3.10.2
markdown-it-py: 4.2.0
MarkupSafe: 3.0.3
matplotlib: 3.10.7
matplotlib-inline: 0.2.2
mcp: 1.28.1
mdurl: 0.1.2
msgpack: 1.2.1
multidict: 6.7.1
ndindex: 1.10.1
nest-asyncio2: 1.7.2
netCDF4: 1.7.4
networkx: 3.3
numexpr: 2.14.2
numpy: 2.4.6
OpenMM: 8.4.0
openvr: 1.26.701
packaging: 26.2
ParmEd: 4.2.2
parso: 0.8.7
pep517: 0.13.1
pexpect: 4.9.0
pickleshare: 0.7.5
pillow: 12.3.0
pip: 26.1.2
pkginfo: 1.12.1.2
platformdirs: 4.11.3
pluggy: 1.6.0
prompt_toolkit: 3.0.53
propcache: 0.5.2
psutil: 7.2.2
ptyprocess: 0.7.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pybind11: 3.0.4
pycollada: 0.8
pycparser: 3.0
pydantic: 2.13.4
pydantic-settings: 2.15.0
pydantic_core: 2.46.4
pydata-sphinx-theme: 0.20.0
Pygments: 2.20.0
PyJWT: 2.13.0
pynmrstar: 3.5.1
PyOpenGL: 3.1.10
PyOpenGL-accelerate: 3.1.10
pyopenxr: 1.1.4501
pyparsing: 3.3.2
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.10.2
PyQt6-Qt6: 6.10.2
PyQt6-WebEngine-commercial: 6.10.0
PyQt6-WebEngine-Qt6: 6.10.2
PyQt6_sip: 13.10.3
pytest: 9.1.1
pytest-cov: 7.1.0
python-dateutil: 2.9.0.post0
python-dotenv: 1.2.3
python-multipart: 0.0.32
pyzmq: 27.1.0
qtconsole: 5.7.2
QtPy: 2.4.3
qtshim: 1.2.2
RandomWords: 0.4.0
referencing: 0.37.0
requests: 2.34.2
rich: 15.0.0
roman-numerals: 4.1.0
rpds-py: 2026.6.3
scipy: 1.18.0
setuptools: 83.0.0
sfftk-rw: 0.8.1
six: 1.17.0
snowballstemmer: 3.1.1
sortedcontainers: 2.4.0
soupsieve: 2.9.2
Sphinx: 9.1.0
sphinx-autodoc-typehints: 3.13.0
sphinxcontrib-applehelp: 2.0.0
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 2.0.0
sphinxcontrib-htmlhelp: 2.1.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 2.0.0
sphinxcontrib-serializinghtml: 2.0.0
sse-starlette: 3.4.8
stack-data: 0.6.3
starlette: 1.6.0
superqt: 0.8.1
tables: 3.11.1
threadpoolctl: 3.6.0
tifffile: 2026.7.14
tinyarray: 1.2.5
tornado: 6.5.8
tqdm: 4.70.0
traitlets: 5.15.1
typing-inspection: 0.4.4
typing_extensions: 4.16.0
urllib3: 2.7.0
uvicorn: 0.52.3
wcwidth: 0.8.2
webcolors: 25.10.0
wheel: 0.47.0
wheel-filename: 1.4.2
yarl: 1.24.5
|
|||
| #20865 | limitation | glGetError: invalid operation | ||
| Description |
The following bug report has been submitted:
Platform: Windows-10-10.0.26100
ChimeraX Version: 1.12 (2026-06-12 03:42:34 UTC)
Description
Replace this text with list of actions that caused this problem to occur
Log:
Startup Errors
---
error | ChimeraX requires an OpenGL graphics core profile.
Your computer graphics driver is only offering a non-core profile (version
4.1).
Try updating your graphics driver.
warning | Unknown Vendor ID: 0x1ab8
note | available bundle cache has not been initialized yet
You can double click a model's Name or ID in the model panel to edit those
fields
UCSF ChimeraX version: 1.12 (2026-06-12)
© 2016-2026 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
No statusbar messages will be shown due to inadequate OpenGL
You can double click a model's Name or ID in the model panel to edit those
fields
> open //mac/Home/Downloads/pre2C0K.pdb
Summary of feedback from opening //mac/Home/Downloads/pre2C0K.pdb
---
warnings | Ignored bad PDB record found on line 1
REMARK BIOVIA PDB file
Ignored bad PDB record found on line 2
REMARK Created: 2026-08-23T21:41:37Z
Chain information for pre2C0K.pdb #1
---
Chain | Description
A | No description available
B | No description available
Computing secondary structure
> ui tool show "Dock Prep"
Starting dock prep
[Repeated 1 time(s)]Deleting solvent
[Repeated 1 time(s)]Deleting non-metal-complex ions
[Repeated 1 time(s)]Deleting non-current alt locs
[Repeated 1 time(s)]
/A MET 150 is missing heavy backbone atoms
Filling out missing side chains
[Repeated 1 time(s)]/A LYS 84: phi -60.5, psi -19.3 trans
Retrieving rotamers from Dunbrack library
Rotamers retrieved from Dunbrack library
/A GLU 99: phi -67.0, psi -36.3 trans
Retrieving rotamers from Dunbrack library
Rotamers retrieved from Dunbrack library
/A LYS 123: phi -77.6, psi 107.4 trans
Retrieving rotamers from Dunbrack library
Rotamers retrieved from Dunbrack library
/B PHE 50: phi -58.6, psi -24.5 trans
Retrieving rotamers from Dunbrack library
Rotamers retrieved from Dunbrack library
/B GLU 55: phi -119.3, psi 6.6 trans
Retrieving rotamers from Dunbrack library
Rotamers retrieved from Dunbrack library
/B ARG 65: phi -61.0, psi -42.4 trans
Retrieving rotamers from Dunbrack library
Rotamers retrieved from Dunbrack library
/B LYS 84: phi -71.1, psi -2.5 trans
Retrieving rotamers from Dunbrack library
Rotamers retrieved from Dunbrack library
/B LYS 85: phi -72.0, psi -21.6 trans
Retrieving rotamers from Dunbrack library
Rotamers retrieved from Dunbrack library
/B LYS 100: phi -129.2, psi 120.7 trans
Retrieving rotamers from Dunbrack library
Rotamers retrieved from Dunbrack library
/B LYS 101: phi -69.1, psi 83.4 trans
Retrieving rotamers from Dunbrack library
Rotamers retrieved from Dunbrack library
/B LYS 123: phi -82.8, psi 116.7 trans
Retrieving rotamers from Dunbrack library
Rotamers retrieved from Dunbrack library
/B LYS 149: phi -87.0, psi none trans
Retrieving rotamers from Dunbrack library
Rotamers retrieved from Dunbrack library
Processing H-bonds for /B LYS 149
Applying LYS rotamer (chi angles: 51.3 89.3 70.7 178.4) to /A LYS 84
Applying GLU rotamer (chi angles: -66.4 80.3 9.3) to /A GLU 99
Applying LYS rotamer (chi angles: -62.5 -75.3 99.0 -88.6) to /A LYS 123
Applying PHE rotamer (chi angles: 72.0 88.6) to /B PHE 50
Applying GLU rotamer (chi angles: -177.6 65.5 47.7) to /B GLU 55
Applying ARG rotamer (chi angles: 178.6 66.1 -178.0 85.6) to /B ARG 65
Applying LYS rotamer (chi angles: -62.1 -74.2 86.5 168.9) to /B LYS 84
Applying LYS rotamer (chi angles: -62.5 -75.3 99.0 -88.6) to /B LYS 85
Applying LYS rotamer (chi angles: -177.3 -177.5 -70.5 -175.7) to /B LYS 100
Applying LYS rotamer (chi angles: -62.5 -75.3 99.0 -88.6) to /B LYS 101
Applying LYS rotamer (chi angles: -177.4 77.6 -89.8 -82.1) to /B LYS 123
Applying LYS rotamer (chi angles: -67.1 -179.4 -179.4 179.5) to /B LYS 149
Summary of feedback from adding hydrogens to pre2C0K.pdb #1
---
warning | Not adding hydrogens to /A MET 150 CA because it is missing heavy-atom bond partners
notes | Adding hydrogens
No usable SEQRES records for pre2C0K.pdb (#1) chain A; guessing termini
instead
No usable SEQRES records for pre2C0K.pdb (#1) chain B; guessing termini
instead
Chain-initial residues that are actual N termini: /A MET 1, /B MET 1
Chain-initial residues that are not actual N termini:
Chain-final residues that are actual C termini: /A MET 150
Chain-final residues that are not actual C termini: /B LYS 149
Categorizing heavy atoms
Adding simple fixed hydrogens
Adding co-planar hydrogens
Finding hydrogen bonds
Finding acceptors in model 'pre2C0K.pdb'
Building search tree of acceptor atoms
Finding donors in model 'pre2C0K.pdb'
Matching donors in model 'pre2C0K.pdb' to acceptors
315 hydrogen bonds
Sorting hydrogen bonds by distance
Organizing h-bond info
Adding hydrogens by h-bond strength (0/67)
Adding hydrogens by h-bond strength (23/67)
Adding hydrogens to primary aromatic amines
Using steric criteria to resolve partial h-bonders
Adding hydrogens to non-h-bonding atoms
Deciding aromatic nitrogen protonation
/B LYS 149 is not terminus, removing H atom from 'C'
Hydrogens added
2479 hydrogens added
Closest equivalent command: addcharge standardizeResidues none
Using Amber 20 recommended default charges and atom types for standard
residues
Dock prep finished
[Repeated 1 time(s)]
> save //mac/Home/Downloads/pro2C0K.pdp.mol2
Writing Mol2 file //mac/Home/Downloads/pro2C0K.pdp.mol2
Finding amides
Putting atoms in input order
writing atoms
writing bonds
writing residues
Wrote Mol2 file //mac/Home/Downloads/pro2C0K.pdp.mol2
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\add_charge\tool.py", line 120, in add_charges
self._finish_add_charge(residues)
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\add_charge\tool.py", line 159, in _finish_add_charge
self.dock_prep_info['callback'](AtomicStructures(self.structures),
tool_settings=params)
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\add_charge\dock_prep.py", line 49, in <lambda>
run_for_dock_prep(*tuple(args1+[used_structures, kw]),
tool_settings=tool_settings)
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\add_charge\dock_prep.py", line 58, in run_for_dock_prep
callback(session, state, structures)
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\dock_prep\cmd.py", line 156, in run_steps
callback()
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\dock_prep\prep.py", line 144, in postscript
show_save_file_dialog(session,
format=session.data_formats.save_format_from_suffix(".mol2").name)
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\save_command\dialog.py", line 144, in show_save_file_dialog
_dlg.display(session, **kw)
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\save_command\dialog.py", line 68, in display
run(session, cmd)
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\core\commands\run.py", line 49, in run
results = command.run(text, log=log, return_json=return_json)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3245, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\save_command\cmd.py", line 86, in cmd_save
Command(session, registry=registry).run(provider_cmd_text, log=log)
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3245, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\save_command\cmd.py", line 114, in provider_save
remember_file(session, path, data_format.nicknames[0],
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\core\filehistory.py", line 241, in remember_file
h.remember_file(filename, format, models, database = database, file_saved =
file_saved,
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\core\filehistory.py", line 79, in remember_file
self.capture_thumbnails_cb()
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\core\filehistory.py", line 96, in capture_thumbnails_cb
fs.capture_image(models, ses)
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\core\filehistory.py", line 190, in capture_image
self.image = models_image(session, models, size)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\core\filehistory.py", line 252, in models_image
image = v.image(width, height, camera = c, drawings = models)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\graphics\view.py", line 452, in image
rgba = self.image_rgba(width=width, height=height, supersample=supersample,
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\graphics\view.py", line 469, in image_rgba
if not self._use_opengl():
^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\graphics\view.py", line 127, in _use_opengl
if not self._render.make_current():
^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\graphics\opengl.py", line 553, in make_current
e = self.check_for_opengl_errors()
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\chimerax\graphics\opengl.py", line 1110, in check_for_opengl_errors
e = GL.glGetError()
^^^^^^^^^^^^^^^
File "C:\Program Files\ChimeraX 1.12\bin\Lib\site-
packages\OpenGL\platform\baseplatform.py", line 487, in __call__
return self(*args, **named)
^^^^^^^^^^^^^^^^^^^^
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
OpenGL.error.GLError: GLError(
err = 1282,
description = b'invalid operation',
baseOperation = glGetError,
cArguments = (),
result = 1282
)
OpenGL.error.GLError: GLError(
err = 1282,
description = b'invalid operation',
baseOperation = glGetError,
cArguments = (),
result = 1282
)
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError
See log for complete Python traceback.
Wrote Mol2 file //mac/Home/Downloads/pro2C0K.pdp.mol2
OpenGL version: unknown
Could not make opengl context current
Python: 3.11.9
Locale: en_US.cp1252
Qt version: PyQt6 6.10.2, Qt 6.10.0
Qt runtime version: 6.10.2
Qt platform: windows
Manufacturer: Parallels International GmbH.
Model: Parallels Virtual Platform
OS: Microsoft Windows 11 Home (Build 26100.4349)
Memory: 4,275,355,648
MaxProcessMemory: 137,438,953,344
CPU: 2 Intel(R) Core(TM) i5-5250U CPU @ 1.60GHz
OSLanguage: en-US
Installed Packages:
accessible-pygments: 0.0.5
aiohappyeyeballs: 2.6.2
aiohttp: 3.13.4
aiosignal: 1.4.0
alabaster: 1.0.0
annotated-types: 0.7.0
anyio: 4.13.0
appdirs: 1.4.4
asttokens: 3.0.1
attrs: 26.1.0
babel: 2.18.0
beautifulsoup4: 4.13.5
blockdiag: 3.0.0
blosc2: 4.4.3
bs4: 0.0.2
build: 1.3.0
certifi: 2026.5.20
cftime: 1.6.5
charset-normalizer: 3.4.7
ChimeraX-AddCharge: 1.5.20
ChimeraX-AddH: 2.2.8
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.6.2
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 3.2
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Animations: 1.0
ChimeraX-Aniso: 1.3.2
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.67.1
ChimeraX-AtomicLibrary: 14.4
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.3
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-Boltz: 1.1
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.2
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.6.0
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4.1
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.5
ChimeraX-ChemGroup: 2.0.2
ChimeraX-Clashes: 2.4
ChimeraX-Cluster: 1.0
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.8
ChimeraX-CommandLine: 1.3.1
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.12
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.5
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.4
ChimeraX-Dicom: 1.2.7
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.2.2
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-FileHistory: 1.0.1
ChimeraX-FunctionKey: 1.0.1
ChimeraX-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.4.1
ChimeraX-Hbonds: 2.5.3
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.4
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.8.2
ChimeraX-Label: 1.5
ChimeraX-LightingGUI: 1.0
ChimeraX-ListInfo: 1.3.1
ChimeraX-Log: 1.2.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.3
ChimeraX-Map: 1.3
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0.1
ChimeraX-MapFilter: 2.0.1
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1.1
ChimeraX-Markers: 1.0.1
ChimeraX-Mask: 1.0.2
ChimeraX-MatchAlign: 1.2
ChimeraX-MatchMaker: 2.4.1
ChimeraX-MCopy: 1.0
ChimeraX-MCPServer: 0.2.0
ChimeraX-MDcrds: 2.19
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-Minimize: 1.3.9
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.16
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.23
ChimeraX-ModelPanel: 1.6.1
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0.3
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0.1
ChimeraX-MutationScores: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.15.4
ChimeraX-OpenFold: 1.0
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.13
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.5
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.4
ChimeraX-ProfileGrids: 1.6
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.8.2
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.3
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.2
ChimeraX-Scenes: 0.3.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.3
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.12
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.18
ChimeraX-Shape: 1.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.1
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-SimilarStructures: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SNFG: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.19.3
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.2.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.5.3
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.2.4
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.50.8
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.2
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDock: 1.6.2
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-vrml: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.5
ChimeraX-Zone: 1.0.1
click: 8.4.1
colorama: 0.4.6
comm: 0.2.3
comtypes: 1.4.11
contourpy: 1.3.3
coverage: 7.14.1
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.2.4
debugpy: 1.8.21
decorator: 5.3.1
docutils: 0.21.2
executing: 2.2.1
filelock: 3.19.1
fonttools: 4.63.0
frozenlist: 1.8.0
funcparserlib: 2.0.0a0
glfw: 2.10.0
grako: 3.16.5
h11: 0.16.0
h5py: 3.16.0
html2text: 2025.4.15
httpcore: 1.0.9
httpx: 0.28.1
httpx-sse: 0.4.3
idna: 3.18
ihm: 2.2
imagecodecs: 2024.6.1
imagesize: 2.0.0
iniconfig: 2.3.0
ipykernel: 7.1.0
ipython: 9.9.0
ipython_pygments_lexers: 1.1.1
jedi: 0.19.2
Jinja2: 3.1.6
jsonschema: 4.26.0
jsonschema-specifications: 2025.9.1
jupyter_client: 8.8.0
jupyter_core: 5.9.1
kiwisolver: 1.5.0
line_profiler: 5.0.0
lxml: 6.0.2
lz4: 4.3.2
Markdown: 3.8.2
MarkupSafe: 3.0.3
matplotlib: 3.10.7
matplotlib-inline: 0.2.2
mcp: 1.18.0
msgpack: 1.1.1
multidict: 6.7.1
narwhals: 2.22.1
ndindex: 1.10.1
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.14.1
numpy: 1.26.4
nvidia-nvjitlink-cu12: 12.9.86
OpenMM: 8.4.0
OpenMM-CUDA-12: 8.4.0
openvr: 1.26.701
packaging: 25.0
ParmEd: 4.2.2
parso: 0.8.7
pep517: 0.13.1
pickleshare: 0.7.5
pillow: 11.3.0
pip: 25.2
pkginfo: 1.12.1.2
platformdirs: 4.10.0
plotly: 6.8.0
pluggy: 1.6.0
prompt_toolkit: 3.0.52
propcache: 0.5.2
psutil: 7.0.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pybind11: 3.0.1
pycollada: 0.8
pydantic: 2.13.4
pydantic-settings: 2.14.1
pydantic_core: 2.46.4
pydata-sphinx-theme: 0.18.0
pydicom: 2.4.4
Pygments: 2.18.0
pynmrstar: 3.5.1
pynrrd: 1.0.0
PyOpenGL: 3.1.10
PyOpenGL-accelerate: 3.1.10
pyopenxr: 1.1.4501
pyparsing: 3.3.2
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.10.2
PyQt6-Qt6: 6.10.2
PyQt6-WebEngine-commercial: 6.10.0
PyQt6-WebEngine-Qt6: 6.10.2
PyQt6_sip: 13.10.3
pytest: 9.0.3
pytest-cov: 7.1.0
python-dateutil: 2.9.0.post0
python-dotenv: 1.2.2
python-multipart: 0.0.32
pywin32: 311
pyzmq: 27.1.0
qtconsole: 5.7.0
QtPy: 2.4.3
qtshim: 1.2.2
RandomWords: 0.4.0
referencing: 0.37.0
requests: 2.32.5
roman-numerals: 4.1.0
rpds-py: 2026.5.1
scipy: 1.14.0
setuptools: 80.9.0
sfftk-rw: 0.8.1
six: 1.17.0
snowballstemmer: 3.1.1
sortedcontainers: 2.4.0
soupsieve: 2.8.4
Sphinx: 9.0.4
sphinx-autodoc-typehints: 3.6.1
sphinxcontrib-applehelp: 2.0.0
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 2.0.0
sphinxcontrib-htmlhelp: 2.1.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 2.0.0
sphinxcontrib-serializinghtml: 2.0.0
sse-starlette: 3.4.4
stack-data: 0.6.3
starlette: 1.3.0
superqt: 0.7.6
tables: 3.10.2
tcia_utils: 3.2.1
threadpoolctl: 3.6.0
tifffile: 2025.3.13
tinyarray: 1.2.5
tornado: 6.5.7
tqdm: 4.68.2
traitlets: 5.14.3
typing-inspection: 0.4.2
typing_extensions: 4.15.0
tzdata: 2026.2
Unidecode: 1.4.0
urllib3: 2.7.0
uvicorn: 0.49.0
wcwidth: 0.8.1
webcolors: 24.11.1
wheel: 0.45.1
wheel-filename: 1.4.2
WMI: 1.5.1
yarl: 1.24.2
|
|||
Query Language
query: TracLinks and the [[TicketQuery]] macro both use a mini “query language” for specifying query filters. Filters are separated by ampersands (&). Each filter consists of the ticket field name, an operator and one or more values. More than one value are separated by a pipe (|), meaning that the filter matches any of the values. To include a literal & or | in a value, escape the character with a backslash (\).
The available operators are:
= | the field content exactly matches one of the values |
~= | the field content contains one or more of the values |
^= | the field content starts with one of the values |
$= | the field content ends with one of the values |
All of these operators can also be negated:
!= | the field content matches none of the values |
!~= | the field content does not contain any of the values |
!^= | the field content does not start with any of the values |
!$= | the field content does not end with any of the values |
The date fields created and modified can be constrained by using the = operator and specifying a value containing two dates separated by two dots (..). Either end of the date range can be left empty, meaning that the corresponding end of the range is open. The date parser understands a few natural date specifications like "3 weeks ago", "last month" and "now", as well as Bugzilla-style date specifications like "1d", "2w", "3m" or "4y" for 1 day, 2 weeks, 3 months and 4 years, respectively. Spaces in date specifications can be omitted to avoid having to quote the query string.
created=2007-01-01..2008-01-01 | query tickets created in 2007 |
created=lastmonth..thismonth | query tickets created during the previous month |
modified=1weekago.. | query tickets that have been modified in the last week |
modified=..30daysago | query tickets that have been inactive for the last 30 days |
See also: TracTickets, TracReports, TracGuide, TicketQuery
Note:
See TracWiki
for help on using the wiki.
