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Version 1 (modified by trac, 12 years ago) ( diff )
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Trac Ticket Queries

In addition to reports, Trac provides support for custom ticket queries, used to display lists of tickets meeting a specified set of 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 and no name/email 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 of 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.

Once you've edited your filters click the Update button to refresh your results.

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:

Active tickets against 1.0

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:

Assigned tickets by owner

Using the `[[TicketQuery]]` Macro

The TicketQuery macro lets you display lists of tickets matching certain criteria anywhere you can use WikiFormatting.

Example:

[[TicketQuery(version=0.6|0.7&resolution=duplicate)]]

This is displayed as:

#1317
ChimeraX bug report submission
#1558
Apparent infinite recursion of find_close_points_boxes
#1586
Seq Viewer: unproved enter() call on region browser

Just like the query: wiki links, the parameter of this macro expects a query string formatted according to the rules of the simple ticket query language. This also allows displaying the link and description of a single ticket:

[[TicketQuery(id=123)]]

This is displayed as:

#123
Crash in num_chains for 4v6w.cif

A more compact representation without the ticket summaries is also available:

[[TicketQuery(version=0.6|0.7&resolution=duplicate, compact)]]

This is displayed as:

#1317, #1558, #1586

Finally, if you wish to receive only the number of defects that match the query, use the count parameter.

[[TicketQuery(version=0.6|0.7&resolution=duplicate, count)]]

This is displayed as:

3

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 by placing pipes (|) between the columns like below:

[[TicketQuery(max=3,status=closed,order=id,desc=1,format=table,col=resolution|summary|owner|reporter)]]

This is displayed as:

Results (1 - 3 of 13388)

1 2 3 4 5 6 7 8 9 10 11 →


Ticket	Resolution	Summary	Owner	Reporter
#19761	duplicate	Color Actions: can only concatenate str (not "NoneType") to str	Eric Pettersen	asadi1@…
#19760	fixed	Mutations scores adjust colors: ValueError: '#faffff' is not a built-in color name	Tom Goddard	willow.coyote-maestas@…
#19757	duplicate	Crash in swap_buffers exposing status line during Mac wakeup, macOS 26.2	Tom Goddard	chimerax-bug-report@…

1 2 3 4 5 6 7 8 9 10 11 →

Full rows

In table format you can also have full rows by using rows=<field> like below:

[[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 13388)

1 2 3 4 5 6 7 8 9 10 11 →


Ticket	Resolution	Summary	Owner	Reporter
#19761	duplicate	Color Actions: can only concatenate str (not "NoneType") to str	Eric Pettersen	asadi1@…
Description	The following bug report has been submitted: Platform: macOS-26.2-arm64-arm-64bit ChimeraX Version: 1.9.dev202405090425 (2024-05-09 04:25:54 UTC) Description (Describe the actions that caused this problem to occur here) Log: UCSF ChimeraX version: 1.9.dev202405090425 (2024-05-09) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/mojganasadi/Downloads/4GA8.pdb 4GA8.pdb title: Human AKR1B10 mutant V301L complexed with nadp+ and sorbinil [more info...] Chain information for 4GA8.pdb #1 --- Chain \| Description \| UniProt A \| ALDO-keto reductase family 1 member B10 \| AK1BA_HUMAN 1-316 Non-standard residues in 4GA8.pdb #1 --- NAP — nadp nicotinamide-adenine-dinucleotide phosphate (2'-monophosphoadenosine 5'-diphosphoribose) SBI — sorbinil 170 atoms have alternate locations. Control/examine alternate locations with Altloc Explorer [start tool...] or the altlocs command. > select ::name="SBI" 17 atoms, 19 bonds, 1 residue, 1 model selected > ui tool show "Model Loops" Populating font family aliases took 53 ms. Replace uses of missing font family "Times" with one that exists to avoid this cost. > ui tool show "Show Sequence Viewer" > sequence chain /A Alignment identifier is 1/A > select /A:220 14 atoms, 15 bonds, 1 residue, 1 model selected > select /A:220 14 atoms, 15 bonds, 1 residue, 1 model selected > select add /A:21 28 atoms, 30 bonds, 2 residues, 1 model selected > hide #* target a > show sel target ab > select clear > select ::name="ARG" 110 atoms, 100 bonds, 10 residues, 1 model selected > select /A:218 11 atoms, 10 bonds, 1 residue, 1 model selected > show sel target ab > select ::name="ARG" 110 atoms, 100 bonds, 10 residues, 1 model selected > select clear > select add /A:297 11 atoms, 10 bonds, 1 residue, 1 model selected > show sel target ab > hide sel target a > select clear > select /A:21@CH2 1 atom, 1 residue, 1 model selected > select add /A:220@CH2 2 atoms, 2 residues, 1 model selected > ui tool show Distances > distance /A:21@CH2 /A:220@CH2 Distance between /A TRP 21 CH2 and TRP 220 CH2: 3.601Å > select /A:220@CZ3 1 atom, 1 residue, 1 model selected > ui tool show "Build Structure" > build modify /A:220@CZ3 C 3 geometry tetrahedral resName UNK > select clear > select /A:220@HZ3 1 atom, 1 residue, 1 model selected > delete atoms sel > delete bonds sel > select /A:220@CZ3 1 atom, 1 residue, 1 model selected > select /A:220@NE1 1 atom, 1 residue, 1 model selected > select add /A:218@NE 2 atoms, 2 residues, 1 model selected > distance /A:220@NE1 /A:218@NE Distance between /A UNK 220 NE1 and ARG 218 NE: 3.818Å > select clear > select ::name="CYS" 24 atoms, 20 bonds, 4 residues, 1 model selected > hide #* target a > show sel target ab > hide sel target a > select clear > select add /A:210 12 atoms, 12 bonds, 1 residue, 1 model selected > select /A:211 6 atoms, 5 bonds, 1 residue, 1 model selected > select add /A:212 13 atoms, 12 bonds, 2 residues, 1 model selected > select add /A:213 21 atoms, 19 bonds, 3 residues, 1 model selected > select add /A:214 25 atoms, 22 bonds, 4 residues, 1 model selected > select add /A:215 31 atoms, 27 bonds, 5 residues, 1 model selected > select add /A:216 38 atoms, 34 bonds, 6 residues, 1 model selected > select add /A:217 46 atoms, 41 bonds, 7 residues, 1 model selected > select add /A:219 53 atoms, 48 bonds, 8 residues, 1 model selected > select add /A:218 64 atoms, 58 bonds, 9 residues, 1 model selected > select add /A:220 78 atoms, 73 bonds, 10 residues, 1 model selected > select add /A:221 83 atoms, 77 bonds, 11 residues, 1 model selected > select add /A:222 92 atoms, 85 bonds, 12 residues, 1 model selected > select add /A:223 99 atoms, 92 bonds, 13 residues, 1 model selected > select add /A:224 108 atoms, 100 bonds, 14 residues, 1 model selected > select add /A:225 116 atoms, 107 bonds, 15 residues, 1 model selected > select add /A:226 123 atoms, 114 bonds, 16 residues, 1 model selected > color sel magenta > select clear > color byhetero > ui tool show "Color Actions" Traceback (most recent call last): File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/color_actions/tool.py", line 64, in <lambda> button.released.connect(lambda , clr=spaced_name: self._color(clr)) ^^^^^^^^^^^^^^^^ File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/color_actions/tool.py", line 226, in _color commands.append("color " ^^^^^^^^ TypeError: can only concatenate str (not "NoneType") to str TypeError: can only concatenate str (not "NoneType") to str File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/color_actions/tool.py", line 226, in _color commands.append("color " ^^^^^^^^ See log for complete Python traceback. > set bgColor white > select ::name="TYR" 133 atoms, 133 bonds, 11 residues, 1 model selected > select /A:49 12 atoms, 12 bonds, 1 residue, 1 model selected > show sel target ab > select ::name="HIS" 90 atoms, 90 bonds, 9 residues, 1 model selected > select /A:111 10 atoms, 10 bonds, 1 residue, 1 model selected > show sel target ab > select ::name="CYS" 24 atoms, 20 bonds, 4 residues, 1 model selected > select /A:299 6 atoms, 5 bonds, 1 residue, 1 model selected > show sel target ab > select clear > select /A:160 6 atoms, 5 bonds, 1 residue, 1 model selected > select /A:111 10 atoms, 10 bonds, 1 residue, 1 model selected > style sel sphere Changed 10 atom styles > style sel ball Changed 10 atom styles > select clear [Repeated 2 time(s)] > select /A:49 12 atoms, 12 bonds, 1 residue, 1 model selected > style sel ball Changed 12 atom styles > select clear > select /A:299 6 atoms, 5 bonds, 1 residue, 1 model selected > style sel ball Changed 6 atom styles > select clear > color blue > show cartoons > color purple > ui tool show "Color Actions" Traceback (most recent call last): File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/color_actions/tool.py", line 188, in <lambda> button.released.connect(lambda , clr=spaced_name: self._color(clr)) ^^^^^^^^^^^^^^^^ File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/color_actions/tool.py", line 226, in _color commands.append("color " ^^^^^^^^ TypeError: can only concatenate str (not "NoneType") to str TypeError: can only concatenate str (not "NoneType") to str File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/color_actions/tool.py", line 226, in _color commands.append("color " ^^^^^^^^ See log for complete Python traceback. > ui tool show "Color Actions" Traceback (most recent call last): File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/color_actions/tool.py", line 188, in <lambda> button.released.connect(lambda , clr=spaced_name: self._color(clr)) ^^^^^^^^^^^^^^^^ File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/color_actions/tool.py", line 226, in _color commands.append("color " ^^^^^^^^ TypeError: can only concatenate str (not "NoneType") to str TypeError: can only concatenate str (not "NoneType") to str File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/color_actions/tool.py", line 226, in _color commands.append("color " ^^^^^^^^ See log for complete Python traceback. > ui tool show "Color Actions" Traceback (most recent call last): File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/color_actions/tool.py", line 188, in <lambda> button.released.connect(lambda , clr=spaced_name: self._color(clr)) ^^^^^^^^^^^^^^^^ File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/color_actions/tool.py", line 226, in _color commands.append("color " ^^^^^^^^ TypeError: can only concatenate str (not "NoneType") to str TypeError: can only concatenate str (not "NoneType") to str File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/color_actions/tool.py", line 226, in _color commands.append("color " ^^^^^^^^ See log for complete Python traceback. OpenGL version: 4.1 Metal - 90.5 OpenGL renderer: Apple M2 OpenGL vendor: Apple Python: 3.11.4 Locale: en_US.UTF-8 Qt version: PyQt6 6.6.1, Qt 6.6.1 Qt runtime version: 6.6.3 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Air Model Identifier: Mac14,2 Model Number: Z15Z0005ELL/A Chip: Apple M2 Total Number of Cores: 8 (4 performance and 4 efficiency) Memory: 16 GB System Firmware Version: 13822.61.10 OS Loader Version: 13822.61.10 Software: System Software Overview: System Version: macOS 26.2 (25C56) Kernel Version: Darwin 25.2.0 Time since boot: 7 days, 11 hours, 21 minutes Graphics/Displays: Apple M2: Chipset Model: Apple M2 Type: GPU Bus: Built-In Total Number of Cores: 10 Vendor: Apple (0x106b) Metal Support: Metal 4 Displays: Color LCD: Display Type: Built-in Liquid Retina Display Resolution: 2560 x 1664 Retina Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal Installed Packages: alabaster: 0.7.16 appdirs: 1.4.4 appnope: 0.1.4 asttokens: 2.4.1 Babel: 2.15.0 beautifulsoup4: 4.12.3 blockdiag: 3.0.0 blosc2: 2.0.0 build: 1.2.1 certifi: 2023.11.17 cftime: 1.6.3 charset-normalizer: 3.3.2 ChimeraX-AddCharge: 1.5.17 ChimeraX-AddH: 2.2.6 ChimeraX-AlignmentAlgorithms: 2.0.2 ChimeraX-AlignmentHdrs: 3.5 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.12.6 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.1.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.57 ChimeraX-AtomicLibrary: 14.0.3 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.4 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.4.6 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.12.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2.3 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.4 ChimeraX-ChangeChains: 1.1 ChimeraX-CheckWaters: 1.4 ChimeraX-ChemGroup: 2.0.1 ChimeraX-Clashes: 2.2.4 ChimeraX-ColorActions: 1.0.4 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.6 ChimeraX-CommandLine: 1.2.5 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.9.dev202405090425 ChimeraX-CoreFormats: 1.2 ChimeraX-coulombic: 1.4.3 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.3 ChimeraX-Dicom: 1.2 ChimeraX-DiffPlot: 1.0 ChimeraX-DistMonitor: 1.4.2 ChimeraX-DockPrep: 1.1.3 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: 1.1.1 ChimeraX-Hbonds: 2.4 ChimeraX-Help: 1.2.2 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-IUPAC: 1.0 ChimeraX-Label: 1.1.9 ChimeraX-ListInfo: 1.2.2 ChimeraX-Log: 1.1.6 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.9.1 ChimeraX-Map: 1.2 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-MatchMaker: 2.1.3 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.7 ChimeraX-MedicalToolbar: 1.0.2 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.14.1 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.15 ChimeraX-ModelPanel: 1.5 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 ChimeraX-Neuron: 1.0 ChimeraX-Nifti: 1.1 ChimeraX-NMRSTAR: 1.0.2 ChimeraX-NRRD: 1.1 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.13.4 ChimeraX-PDB: 2.7.5 ChimeraX-PDBBio: 1.0.1 ChimeraX-PDBLibrary: 1.0.4 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0.1 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1.1 ChimeraX-PubChem: 2.2 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.4.1 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.2 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 4.0 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5.1 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0.2 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0.1 ChimeraX-Segmentations: 1.3.0 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.11.2 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.3 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1.2 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.16.4 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 ChimeraX-TapeMeasure: 1.0 ChimeraX-TaskManager: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.2 ChimeraX-ToolshedUtils: 1.2.4 ChimeraX-Topography: 1.0 ChimeraX-ToQuest: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.39 ChimeraX-uniprot: 2.3 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.4.1 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: 1.1.4 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.2.2 contourpy: 1.2.1 cxservices: 1.2.2 cycler: 0.12.1 Cython: 3.0.10 debugpy: 1.8.1 decorator: 5.1.1 docutils: 0.20.1 executing: 2.0.1 filelock: 3.13.4 fonttools: 4.51.0 funcparserlib: 2.0.0a0 glfw: 2.7.0 grako: 3.16.5 h5py: 3.11.0 html2text: 2024.2.26 idna: 3.7 ihm: 1.0 imagecodecs: 2024.1.1 imagesize: 1.4.1 ipykernel: 6.29.2 ipython: 8.21.0 ipywidgets: 8.1.2 jedi: 0.19.1 jinja2: 3.1.4 jupyter-client: 8.6.0 jupyter-core: 5.7.2 jupyterlab-widgets: 3.0.10 kiwisolver: 1.4.5 line-profiler: 4.1.2 lxml: 5.2.1 lz4: 4.3.3 MarkupSafe: 2.1.5 matplotlib: 3.8.4 matplotlib-inline: 0.1.7 msgpack: 1.0.8 nest-asyncio: 1.6.0 netCDF4: 1.6.5 networkx: 3.3 nibabel: 5.2.0 nptyping: 2.5.0 numexpr: 2.10.0 numpy: 1.26.4 openvr: 1.26.701 packaging: 23.2 ParmEd: 4.2.2 parso: 0.8.4 pep517: 0.13.1 pexpect: 4.9.0 pillow: 10.3.0 pip: 24.0 pkginfo: 1.10.0 platformdirs: 4.2.1 prompt-toolkit: 3.0.43 psutil: 5.9.8 ptyprocess: 0.7.0 pure-eval: 0.2.2 py-cpuinfo: 9.0.0 pycollada: 0.8 pydicom: 2.4.4 pygments: 2.17.2 pynmrstar: 3.3.4 pynrrd: 1.0.0 PyOpenGL: 3.1.7 PyOpenGL-accelerate: 3.1.7 pyopenxr: 1.0.3401 pyparsing: 3.1.2 pyproject-hooks: 1.1.0 PyQt6-commercial: 6.6.1 PyQt6-Qt6: 6.6.3 PyQt6-sip: 13.6.0 PyQt6-WebEngine-commercial: 6.6.0 PyQt6-WebEngine-Qt6: 6.6.3 python-dateutil: 2.9.0.post0 pytz: 2024.1 pyzmq: 26.0.3 qtconsole: 5.5.1 QtPy: 2.4.1 RandomWords: 0.4.0 requests: 2.31.0 scipy: 1.13.0 setuptools: 69.5.1 setuptools-scm: 8.0.4 sfftk-rw: 0.8.1 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 soupsieve: 2.5 sphinx: 7.2.6 sphinx-autodoc-typehints: 2.0.1 sphinxcontrib-applehelp: 1.0.8 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.6 sphinxcontrib-htmlhelp: 2.0.5 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.7 sphinxcontrib-serializinghtml: 1.1.10 stack-data: 0.6.3 superqt: 0.6.3 tables: 3.8.0 tcia-utils: 1.5.1 tifffile: 2024.1.30 tinyarray: 1.2.4 tornado: 6.4 traitlets: 5.14.2 typing-extensions: 4.11.0 tzdata: 2024.1 urllib3: 2.2.1 wcwidth: 0.2.13 webcolors: 1.13 wheel: 0.43.0 wheel-filename: 1.4.1 widgetsnbextension: 4.0.10
#19760	fixed	Mutations scores adjust colors: ValueError: '#faffff' is not a built-in color name	Tom Goddard	willow.coyote-maestas@…
Description	The following bug report has been submitted: Platform: macOS-15.7.3-arm64-arm-64bit ChimeraX Version: 1.11rc202511270036 (2025-11-27 00:36:15 UTC) Description When clicking on 'Adjust Colors' in mutation coloring history panel somtimes it ends up not opening up the coloring panel. Log: You can double click a model's Name or ID in the model panel to edit those fields UCSF ChimeraX version: 1.11rc202511270036 (2025-11-27) © 2016-2025 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/willowcoyote-maestas/Downloads/8efq.cif format mmcif 8efq.cif title: DAMGO-bound mu-opioid receptor-Gi complex [more info...] Chain information for 8efq.cif #1 --- Chain \| Description \| UniProt A \| Guanine nucleotide-binding protein G(i) subunit alpha-1 \| GNAI1_HUMAN 1-354 B \| Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 \| GBB1_RAT 2-340 G \| Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 \| GBG2_BOVIN 1-68 P \| DAMGO \| R \| Mu-type opioid receptor \| OPRM_HUMAN 2-368 Non-standard residues in 8efq.cif #1 --- ETA — ethanolamine > open "/Users/willowcoyote-maestas/Library/CloudStorage/Box-Box/WCM > Lab/Willow/MOR_analysis/012026/composite_dms_scores_chimera_fits.csv" Duplicated mutation "p.(N9K)" at line 143 > open "/Users/willowcoyote-maestas/Library/CloudStorage/Box-Box/WCM > Lab/Willow/MOR_analysis/012026/composite_dms_scores_chimera_fits.csv" Summary of feedback from opening /Users/willowcoyote- maestas/Library/CloudStorage/Box-Box/WCM Lab/Willow/MOR_analysis/012026/composite_dms_scores_chimera_fits.csv --- note \| Plotted 7560 mutations with Boltz2_Buprenorphine_affinity on x-axis and Boltz2_Butorphanol_affinity on y-axis Opened deep mutational scan data for 7832 mutations of 399 residues with score names Boltz2_Buprenorphine_affinity, Boltz2_Butorphanol_affinity, Boltz2_C6guano_affinity, Boltz2_DAMGO_affinity, Boltz2_FSK_affinity, Boltz2_Fentanyl_affinity, Boltz2_MCAM_affinity, Boltz2_MP_affinity, Boltz2_Methadone_affinity, Boltz2_Morphine_affinity, Boltz2_Nalbuphine_affinity, Boltz2_Naloxone_affinity, Boltz2_Naltrexone_affinity, Boltz2_PZM21_affinity, Boltz2_SR17018_affinity, Boltz2_TRV130_affinity, Boltz2_carfentanil_affinity, Buprenorphine_effect, Butorphanol_effect, C6guano_effect, DAMGO_ec50, DAMGO_effect, DAMGO_emax, DAMGO_emin, DAMGO_range, FSK_effect, Fentanyl_ec50, Fentanyl_effect, Fentanyl_emax, Fentanyl_emin, Fentanyl_range, Fentanyl_slope, MCAM_effect, MP_effect, Methadone_effect, Morphine_ec50, Morphine_effect, Morphine_emax, Morphine_emin, Morphine_range, Morphine_slope, Nalbuphine_effect, Naloxone_effect, Naltrexone_effect, PZM21_effect, SR17018_effect, Surface_effect, TRV130_effect, carfentanil_effect, position. Mutation set composite_dms_scores_chimera_fits has 1 associated chains #1/R. Drag select of 3410 atoms, 2 pseudobonds > hide sel atoms Drag select of 298 atoms > hide sel atoms Drag select of 160 atoms > hide sel atoms Drag select of 3178 atoms, 38 bonds > show sel cartoons > hide sel atoms Drag select of 432 residues > hide sel cartoons > show sel cartoons Drag select of 396 residues Drag select of 469 residues, 2 pseudobonds Drag select of 311 residues > select clear Drag select of 419 residues > hide sel cartoons > select > /R:83,149-150,153-154,179,235,238-239,242,246,257,294-295,297-299,302,308,323-324,327-328 190 atoms, 184 bonds, 23 residues, 1 model selected > show sel atoms > select > /R:76-77,107,122-123,125-126,129,135,142,145-146,149-150,153-154,156,186,194,217,219,234,242-243,246,252,298-299,308,320-321,324-325,327-329,334 315 atoms, 306 bonds, 37 residues, 1 model selected > show sel atoms Drag select of 262 atoms, 300 residues > hide sel atoms > select > /R:69,76-77,79-80,93,96,107,111,113,115-116,118-120,122-123,125-126,129-132,135-137,142,145-146,149-150,152-154,156,158,169,186,194,198,201-202,204,206,208,210,212-213,215,217-219,223-224,234-235,237,239-240,242-243,246-247,252,257-258,260,263,267,291,295-300,308,312,315-316,320-321,324-329,332,334-335,339,341,347 778 atoms, 754 bonds, 94 residues, 1 model selected > select > /R:69,76-77,80,107,115,118,122-123,125-126,129,131,135-136,142,145-146,149-150,153-154,156,186,194,198,208,217,219,234-235,240,242-243,246,252,291,297-299,308,316,320-321,324-329,332,334 426 atoms, 410 bonds, 52 residues, 1 model selected > show sel atoms > select clear > select > /R:76-77,107,122-123,125-126,129,135,142,145-146,149-150,153-154,156,194,219,234,242-243,246,252,298-299,308,320-321,324,327-329,334 297 atoms, 290 bonds, 34 residues, 1 model selected Drag select of 314 atoms, 241 residues > hide sel atoms > select clear > select > /R:76,107,122-123,125-126,129,135,142,145-146,149-150,153,219,234,242-243,246,252,298-299,321,324,327-329,334 233 atoms, 223 bonds, 28 residues, 1 model selected > show sel atoms > select clear Drag select of 154 atoms, 306 residues > hide sel atoms [Repeated 5 time(s)] > show sel atoms > hide sel atoms Drag select of 149 atoms, 301 residues > hide sel atoms > select clear > select > /R:77,80,84,94,100,108-109,115-116,120,122-123,126,135,144-145,149,151-154,156-157,159,163-164,166-167,170-171,173-175,177-178,180-183,189,193,196,201,207,219-220,233-235,241-243,246-247,249-250,254-257,261-262,277,279-280,284,286-287,289,291,294-296,298-299,301-302,318,321,323-325,327-331,334-335,337-341,346-347 778 atoms, 752 bonds, 96 residues, 1 model selected > mutationscores define > Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean fromScoreName > Fentanyl_emax combine mean ranges "Surface_effect >= -0.241 and > Surface_effect <= 0.315 and Fentanyl_emax >= -0.278 and Fentanyl_emax <= > 0.192" Defined score Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean having range -0.277 to 0.0504 for 97 residues using 276 mutations Set attribute Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean for 96 residues of chain #1/R > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > 0.0504,white:-0.0661,#ff7f7f:-0.182,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > ui tool show "Render/Select by Attribute" > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #!1 target > sabc palette -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red 7046 atoms, 894 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > select > /R:77,80-81,84,90-91,93-94,98,100,104-106,108-109,115-116,119-120,122-123,144,149,151-157,159,163-164,166-167,169-172,174-175,177-178,180-183,187,189-190,192-193,196,201,219,234,237-238,240-243,246-247,249-251,253-258,260-262,273,277-281,284,286-287,289-291,295-296,298-299,301-302,321,323,327-328,330-332,334-339,346-347 868 atoms, 841 bonds, 109 residues, 1 model selected > select > /R:76-77,80-81,84,90-91,93-94,98-100,104-106,108-109,115-116,119-120,122-123,144,149,151-157,159,163-164,166-167,169-172,174-175,177-178,180-184,187,189-190,192-193,196-197,201,219,234,237-238,240-243,246-247,249-251,253-258,260-262,273,277-281,284-287,289-291,295-296,298-302,321,323,327-332,334-340,344,346-348 948 atoms, 925 bonds, 119 residues, 1 model selected > select > /R:76-77,80,84,90-91,93-94,98-100,105-106,108,115-116,119-120,122-123,144,149,151-157,159,163-164,166-167,169-172,174-175,177-178,180-184,187,189-190,192-193,196-197,201,219,234,237-238,240-243,246-247,249-251,253-258,260-262,273,277-278,280-281,284-286,289,291,295-296,298-302,321,323,327-332,334-340,346-347 890 atoms, 866 bonds, 111 residues, 1 model selected > mutationscores define > Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean fromScoreName > Morphine_emax combine mean ranges "Surface_effect >= -0.233 and > Surface_effect <= 0.66 and Morphine_emax >= -0.402 and Morphine_emax <= > 0.0591" Defined score Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean having range -0.402 to -0.0867 for 113 residues using 403 mutations Set attribute Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean for 111 residues of chain #1/R > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.0867,white:-0.176,#ff7f7f:-0.265,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > ui tool show "Render/Select by Attribute" > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #!1 target > sabc palette -0.401859,white:-0.280811,#ff7f7f:-0.169295,red 7046 atoms, 894 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > select clear > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401859,white:-0.280811,#ff7f7f:-0.169295,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401859,white:-0.280811,#ff7f7f:-0.169295,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401859,white:-0.280811,#ff7f7f:-0.169295,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401859,white:-0.280811,#ff7f7f:-0.169295,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > ui tool show "Render/Select by Attribute" > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #!1 target > sabc palette -0.265236,red:-0.175961,#ff7f7f:-0.0866856,white noValueColor > #faffff 7046 atoms, 894 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #!1 target > sabc palette -0.399317,white:-0.289072,#ff7f7f:-0.202974,red noValueColor > #faffff 7046 atoms, 894 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #!1 target > sabc palette -0.399317,white:-0.256664,#ff7f7f:-0.168024,red noValueColor > #faffff 7046 atoms, 894 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > ui tool show "Render/Select by Attribute" > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #!1 target > sabc palette -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor > #faffff 7046 atoms, 894 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #!1 target > sabc palette -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor > #faffff 7046 atoms, 894 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean #1/R palette > -0.275025,white:-0.144407,#ff7f7f:-0.0266222,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.278_0.192_Surface_effect_-0.241_0.315_mean range -0.277 to 0.0504 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff #### Deleted thousands of lines to stay within Trac limit. > color byattribute > r:Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute #1/R > palette 5.90102,white:25.2183,#7f7fff:42.1843,blue noValueColor white 2272 atoms, 283 residues, atom Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute range 5.9 to 81.7 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count range 1 to 15 > color byattribute > r:Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute #1/R > palette 5.90102,white:25.2183,#7f7fff:42.1843,blue noValueColor white 2272 atoms, 283 residues, atom Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute range 5.9 to 81.7 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute #1/R > palette 5.90102,white:25.2183,#7f7fff:42.1843,blue noValueColor white 2272 atoms, 283 residues, atom Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute range 5.9 to 81.7 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute #1/R > palette 5.90102,white:25.2183,#7f7fff:42.1843,blue noValueColor white 2272 atoms, 283 residues, atom Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute range 5.9 to 81.7 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute #1/R > palette 5.90102,white:25.2183,#7f7fff:42.1843,blue noValueColor white 2272 atoms, 283 residues, atom Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute range 5.9 to 81.7 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute #1/R > palette 5.90102,white:25.2183,#7f7fff:42.1843,blue noValueColor white 2272 atoms, 283 residues, atom Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute range 5.9 to 81.7 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute #1/R > palette 5.90102,white:25.2183,#7f7fff:42.1843,blue noValueColor white 2272 atoms, 283 residues, atom Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute range 5.9 to 81.7 > color byattribute > r:DAMGO_emin_-0.352_0.618_Surface_effect_-0.225_0.673_count #1/R palette > 1,#f2f5f2:5,#f58885:10,red noValueColor #faffff 2272 atoms, 283 residues, atom DAMGO_emin_-0.352_0.618_Surface_effect_-0.225_0.673_count range 1 to 17 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:DAMGO_emin_-0.352_0.618_Surface_effect_-0.225_0.673_count #1/R palette > 1,#f2f5f2:5,#f58885:10,red noValueColor #faffff 2272 atoms, 283 residues, atom DAMGO_emin_-0.352_0.618_Surface_effect_-0.225_0.673_count range 1 to 17 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:DAMGO_emin_-0.352_0.618_Surface_effect_-0.225_0.673_count #1/R palette > 1,#f2f5f2:5,#f58885:10,red noValueColor #faffff 2272 atoms, 283 residues, atom DAMGO_emin_-0.352_0.618_Surface_effect_-0.225_0.673_count range 1 to 17 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute r:Fentanyl_ec50_0.941_3.82_Morphine_ec50_5.13_7.69_count > #1/R palette 1,white:1.49,#7f7fff:1.98,blue noValueColor white 2272 atoms, 283 residues, atom Fentanyl_ec50_0.941_3.82_Morphine_ec50_5.13_7.69_count range 1 to 3 > color byattribute > r:Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count range 1 to 15 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count range 1 to 15 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count range 1 to 15 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count range 1 to 15 > color byattribute r:DAMGO_ec50_2.73_5.93_Surface_effect_-0.234_0.592_count > #1/R palette 1,white:6.77,#7f7fff:12.5,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.73_5.93_Surface_effect_-0.234_0.592_count range 1 to 19 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count range 1 to 15 > color byattribute > r:Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute #1/R > palette 5.90102,white:25.2183,#7f7fff:42.1843,blue noValueColor white 2272 atoms, 283 residues, atom Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute range 5.9 to 81.7 > color byattribute > r:Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count range 1 to 15 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count range 1 to 15 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count range 1 to 15 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count range 1 to 15 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count range 1 to 15 > color byattribute > r:Morphine_ec50_5.13_7.41_Surface_effect_-0.237_0.393_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_ec50_5.13_7.41_Surface_effect_-0.237_0.393_count range 1 to 15 > color byattribute r:DAMGO_ec50_2.73_5.93_Surface_effect_-0.234_0.592_count > #1/R palette 1,white:6.77,#7f7fff:12.5,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.73_5.93_Surface_effect_-0.234_0.592_count range 1 to 19 > color byattribute > r:DAMGO_emin_-0.352_0.618_Surface_effect_-0.225_0.673_count #1/R palette > 1,#f2f5f2:5,#f58885:10,red noValueColor #faffff 2272 atoms, 283 residues, atom DAMGO_emin_-0.352_0.618_Surface_effect_-0.225_0.673_count range 1 to 17 > color byattribute > r:Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count #1/R palette > 1,white:3.47,#ff7f7f:5.94,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count range 1 to 9 > lighting shadows false > graphics silhouettes true > set bgColor white > color byattribute > r:Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute #1/R > palette 5.18,white:31.4,#7f7fff:57.5,blue noValueColor white 2272 atoms, 283 residues, atom Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute range 5.18 to 87.2 > color byattribute > r:Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count #1/R palette > 1,white:3.47,#ff7f7f:5.94,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count range 1 to 9 > color byattribute > r:Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute #1/R > palette 5.18,white:31.4,#7f7fff:57.5,blue noValueColor white 2272 atoms, 283 residues, atom Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute range 5.18 to 87.2 > color byattribute > r:Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count #1/R palette > 1,white:3.47,#ff7f7f:5.94,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count range 1 to 9 > color byattribute > r:Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute #1/R > palette 5.18,white:31.4,#7f7fff:57.5,blue noValueColor white 2272 atoms, 283 residues, atom Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute range 5.18 to 87.2 > color byattribute > r:Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count #1/R palette > 1,white:3.47,#ff7f7f:5.94,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count range 1 to 9 > color byattribute > r:Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute #1/R > palette 5.18,white:31.4,#7f7fff:57.5,blue noValueColor white 2272 atoms, 283 residues, atom Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute range 5.18 to 87.2 > color byattribute > r:Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count #1/R palette > 1,white:3.47,#ff7f7f:5.94,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count range 1 to 9 > color byattribute > r:Fentanyl_emax_-0.35_0.283_Surface_effect_-0.233_0.644_count #1/R palette > 1,white:5,#ff7f7f:10,red noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_emax_-0.35_0.283_Surface_effect_-0.233_0.644_count range 1 to 17 > color byattribute > r:Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count #1/R palette > 1,white:3.47,#ff7f7f:5.94,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count range 1 to 9 > color byattribute > r:Fentanyl_emax_-0.35_0.283_Surface_effect_-0.233_0.644_count #1/R palette > 1,white:5,#ff7f7f:10,red noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_emax_-0.35_0.283_Surface_effect_-0.233_0.644_count range 1 to 17 > color byattribute > r:DAMGO_emin_-0.352_0.618_Surface_effect_-0.225_0.673_count #1/R palette > 1,#f2f5f2:5,#f58885:10,red noValueColor #faffff 2272 atoms, 283 residues, atom DAMGO_emin_-0.352_0.618_Surface_effect_-0.225_0.673_count range 1 to 17 > color byattribute > r:Fentanyl_emax_-0.35_0.283_Surface_effect_-0.233_0.644_count #1/R palette > 1,white:5,#ff7f7f:10,red noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_emax_-0.35_0.283_Surface_effect_-0.233_0.644_count range 1 to 17 > color byattribute > r:Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count #1/R palette > 1,#f5f3f3:6,#ffa4a3:12,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count range 1 to 16 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count #1/R palette > 1,#f5f3f3:6,#ffa4a3:12,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count range 1 to 16 > color byattribute > r:Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean #1/R palette > -0.401873,white:-0.249038,#ff7f7f:-0.17565,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.402_0.0591_Surface_effect_-0.233_0.66_mean range -0.402 to -0.0867 > color byattribute > r:Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count #1/R palette > 1,#f5f3f3:6,#ffa4a3:12,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count range 1 to 16 > color byattribute > r:Fentanyl_emax_-0.35_0.283_Surface_effect_-0.233_0.644_count #1/R palette > 1,white:5,#ff7f7f:10,red noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_emax_-0.35_0.283_Surface_effect_-0.233_0.644_count range 1 to 17 > color byattribute > r:Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count #1/R palette > 1,#f5f3f3:6,#ffa4a3:12,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count range 1 to 16 > color byattribute > r:Fentanyl_emax_-0.35_0.283_Surface_effect_-0.233_0.644_count #1/R palette > 1,white:5,#ff7f7f:10,red noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_emax_-0.35_0.283_Surface_effect_-0.233_0.644_count range 1 to 17 > color byattribute > r:DAMGO_emin_-0.352_0.618_Surface_effect_-0.225_0.673_count #1/R palette > 1,#f2f5f2:5,#f58885:10,red noValueColor #faffff 2272 atoms, 283 residues, atom DAMGO_emin_-0.352_0.618_Surface_effect_-0.225_0.673_count range 1 to 17 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute r:DAMGO_ec50_2.73_5.93_Surface_effect_-0.234_0.592_count > #1/R palette 1,white:6.77,#7f7fff:12.5,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.73_5.93_Surface_effect_-0.234_0.592_count range 1 to 19 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count range 1 to 15 > color byattribute > r:Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_ec50_5.73_7.77_Surface_effect_-0.234_0.429_count range 1 to 15 > color byattribute > r:Morphine_ec50_5.13_7.41_Surface_effect_-0.237_0.393_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_ec50_5.13_7.41_Surface_effect_-0.237_0.393_count range 1 to 15 > color byattribute > r:Morphine_ec50_5.13_7.41_Surface_effect_-0.237_0.393_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_ec50_5.13_7.41_Surface_effect_-0.237_0.393_count range 1 to 15 > color byattribute > r:DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute #1/R palette > 2.68,white:26,#7f7fff:49.4,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.67_6.26_Surface_effect_-0.233_0.74_sum_absolute range 2.68 to 74.9 > color byattribute > r:Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute #1/R > palette 5.18,white:31.4,#7f7fff:57.5,blue noValueColor white 2272 atoms, 283 residues, atom Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute range 5.18 to 87.2 > color byattribute > r:Morphine_ec50_5.13_7.41_Surface_effect_-0.237_0.393_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_ec50_5.13_7.41_Surface_effect_-0.237_0.393_count range 1 to 15 > color byattribute > r:Morphine_ec50_5.13_7.41_Surface_effect_-0.237_0.393_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_ec50_5.13_7.41_Surface_effect_-0.237_0.393_count range 1 to 15 > color byattribute > r:Fentanyl_emax_-0.351_0.0992_Morphine_emax_-0.71_-0.403_count #1/R palette > 1,white:4.79,#ff7f7f:8.58,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.351_0.0992_Morphine_emax_-0.71_-0.403_count range 1 to 13 > color byattribute > r:Morphine_ec50_5.13_7.41_Surface_effect_-0.237_0.393_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_ec50_5.13_7.41_Surface_effect_-0.237_0.393_count range 1 to 15 > color byattribute > r:Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute #1/R > palette 5.18,white:31.4,#7f7fff:57.5,blue noValueColor white 2272 atoms, 283 residues, atom Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute range 5.18 to 87.2 > color byattribute > r:Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count #1/R palette > 1,white:3.47,#ff7f7f:5.94,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count range 1 to 9 > color byattribute > r:Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute #1/R > palette 5.18,white:31.4,#7f7fff:57.5,blue noValueColor white 2272 atoms, 283 residues, atom Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute range 5.18 to 87.2 > color byattribute > r:Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count #1/R palette > 1,white:3.47,#ff7f7f:5.94,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count range 1 to 9 > color byattribute > r:Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute #1/R > palette 5.18,white:31.4,#7f7fff:57.5,blue noValueColor white 2272 atoms, 283 residues, atom Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute range 5.18 to 87.2 > color byattribute > r:Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count #1/R palette > 1,white:3.47,#ff7f7f:5.94,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count range 1 to 9 > color byattribute > r:Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute #1/R > palette 5.18,white:31.4,#7f7fff:57.5,blue noValueColor white 2272 atoms, 283 residues, atom Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute range 5.18 to 87.2 > color byattribute > r:Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count #1/R palette > 1,white:3.47,#ff7f7f:5.94,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count range 1 to 9 > color byattribute > r:Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute #1/R > palette 5.18,white:31.4,#7f7fff:57.5,blue noValueColor white 2272 atoms, 283 residues, atom Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute range 5.18 to 87.2 > color byattribute > r:Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count #1/R palette > 1,white:3.47,#ff7f7f:5.94,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count range 1 to 9 > color byattribute > r:Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute #1/R > palette 5.18,white:31.4,#7f7fff:57.5,blue noValueColor white 2272 atoms, 283 residues, atom Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute range 5.18 to 87.2 > color byattribute > r:Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count #1/R palette > 1,white:3.47,#ff7f7f:5.94,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count range 1 to 9 > color byattribute > r:Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute #1/R > palette 5.18,white:31.4,#7f7fff:57.5,blue noValueColor white 2272 atoms, 283 residues, atom Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute range 5.18 to 87.2 > color byattribute > r:Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count #1/R palette > 1,#f5f3f3:6,#ffa4a3:12,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count range 1 to 16 > color byattribute > r:Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute #1/R > palette 5.18,white:31.4,#7f7fff:57.5,blue noValueColor white 2272 atoms, 283 residues, atom Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute range 5.18 to 87.2 > color byattribute > r:Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count #1/R palette > 1,#f5f3f3:6,#ffa4a3:12,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count range 1 to 16 > color byattribute > r:Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute #1/R > palette 5.18,white:31.4,#7f7fff:57.5,blue noValueColor white 2272 atoms, 283 residues, atom Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute range 5.18 to 87.2 > color byattribute > r:Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count #1/R palette > 1,#f5f3f3:6,#ffa4a3:12,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count range 1 to 16 > color byattribute > r:Morphine_ec50_5.13_7.41_Surface_effect_-0.237_0.393_count #1/R palette > 1,white:5.45,#7f7fff:9.9,blue noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_ec50_5.13_7.41_Surface_effect_-0.237_0.393_count range 1 to 15 > color byattribute > r:Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count #1/R palette > 1,#f5f3f3:6,#ffa4a3:12,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count range 1 to 16 > color byattribute > r:Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute #1/R > palette 5.90102,white:25.2183,#7f7fff:42.1843,blue noValueColor white 2272 atoms, 283 residues, atom Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute range 5.9 to 81.7 > color byattribute > r:Fentanyl_emax_-0.35_0.283_Surface_effect_-0.233_0.644_count #1/R palette > 1,white:5,#ff7f7f:10,red noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_emax_-0.35_0.283_Surface_effect_-0.233_0.644_count range 1 to 17 > color byattribute > r:Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute #1/R > palette 5.90102,white:25.2183,#7f7fff:42.1843,blue noValueColor white 2272 atoms, 283 residues, atom Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute range 5.9 to 81.7 > color byattribute > r:Fentanyl_emax_-0.35_0.283_Surface_effect_-0.233_0.644_count #1/R palette > 1,white:5,#ff7f7f:10,red noValueColor #faffff 2272 atoms, 283 residues, atom Fentanyl_emax_-0.35_0.283_Surface_effect_-0.233_0.644_count range 1 to 17 > select clear [Repeated 3 time(s)] > select > /R:89,107,112,126,135,149,155,159,166,173,182,186,203,207,220,250,262,289,293,295,298-299,301-303,321,324-325,327-328,336-337,345 277 atoms, 262 bonds, 33 residues, 1 model selected > color byattribute > r:Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count #1/R palette > 1,white:3.47,#ff7f7f:5.94,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count range 1 to 9 > color byattribute > r:Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute #1/R > palette 5.18,white:31.4,#7f7fff:57.5,blue noValueColor white 2272 atoms, 283 residues, atom Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute range 5.18 to 87.2 > color byattribute > r:Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count #1/R palette > 1,white:3.47,#ff7f7f:5.94,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count range 1 to 9 > select clear > color byattribute > r:Fentanyl_emax_-0.351_0.0992_Morphine_emax_-0.71_-0.403_count #1/R palette > 1,white:4.79,#ff7f7f:8.58,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.351_0.0992_Morphine_emax_-0.71_-0.403_count range 1 to 13 > color byattribute > r:Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count #1/R palette > 1,white:3.47,#ff7f7f:5.94,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count range 1 to 9 > select /R:201 4 atoms, 3 bonds, 1 residue, 1 model selected > select /R:197 6 atoms, 5 bonds, 1 residue, 1 model selected > select /R:174 7 atoms, 7 bonds, 1 residue, 1 model selected > select /R:280 8 atoms, 7 bonds, 1 residue, 1 model selected > select /R:261 8 atoms, 7 bonds, 1 residue, 1 model selected > color byattribute > r:Fentanyl_emax_-0.351_0.0992_Morphine_emax_-0.71_-0.403_count #1/R palette > 1,white:4.79,#ff7f7f:8.58,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.351_0.0992_Morphine_emax_-0.71_-0.403_count range 1 to 13 > select /R:327 4 atoms, 3 bonds, 1 residue, 1 model selected > select /R:328 12 atoms, 12 bonds, 1 residue, 1 model selected > select /R:149-150,153,242,246,295,297-299,327 83 atoms, 82 bonds, 10 residues, 1 model selected > select /R:149-150,153,179,235,298-299,302,308,324 85 atoms, 79 bonds, 10 residues, 1 model selected > select /R:149-150,153,179,235,242,295,298-299,302,327 93 atoms, 88 bonds, 11 residues, 1 model selected > select > /R:77,122-123,125-126,135,142,145,149-150,154,186,219,243,246,298-299,321,324-325,327-329 198 atoms, 194 bonds, 23 residues, 1 model selected > ui tool show "Render/Select by Attribute" > color byattribute > r:Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count #1/R palette > 1,white:3.47,#ff7f7f:5.94,red noValueColor white 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0703_Fentanyl_emax_-0.748_-0.355_count range 1 to 9 > ui tool show "Render/Select by Attribute" > color byattribute > r:Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute #1/R > palette 5.18,white:31.4,#7f7fff:57.5,blue noValueColor white 2272 atoms, 283 residues, atom Morphine_ec50_5.18_7.38_Surface_effect_-0.237_0.592_sum_absolute range 5.18 to 87.2 > ui tool show "Render/Select by Attribute" > color byattribute r:DAMGO_ec50_2.73_5.93_Surface_effect_-0.234_0.592_count > #1/R palette 1,white:6.77,#7f7fff:12.5,blue noValueColor white 2272 atoms, 283 residues, atom DAMGO_ec50_2.73_5.93_Surface_effect_-0.234_0.592_count range 1 to 19 > ui tool show "Render/Select by Attribute" [Repeated 2 time(s)] > color byattribute > r:Fentanyl_emax_-0.351_0.0992_Morphine_emax_-0.71_-0.403_count #1/R palette > 1,white:4.79,#ff7f7f:8.58,red noValueColor white 2272 atoms, 283 residues, atom Fentanyl_emax_-0.351_0.0992_Morphine_emax_-0.71_-0.403_count range 1 to 13 > ui tool show "Render/Select by Attribute" > color byattribute > r:Surface_effect_-0.234_0.592_DAMGO_ec50_2.73_5.93_sum_absolute #1/R palette > 0.00276414,white:1.49618,#7f7fff:2.43921,blue noValueColor white 2272 atoms, 283 residues, atom Surface_effect_-0.234_0.592_DAMGO_ec50_2.73_5.93_sum_absolute range 0.00276 to 3.16 > ui tool show "Render/Select by Attribute" > mutationscores define > Boltz2_Fentanyl_affinity_-1.01_0.446_Fentanyl_emax_-0.241_0.131_mean > fromScoreName Boltz2_Fentanyl_affinity combine mean ranges > "Boltz2_Fentanyl_affinity >= -1.01 and Boltz2_Fentanyl_affinity <= 0.446 and > Fentanyl_emax >= -0.241 and Fentanyl_emax <= 0.131" Defined score Boltz2_Fentanyl_affinity_-1.01_0.446_Fentanyl_emax_-0.241_0.131_mean having range -0.998 to -0.0799 for 22 residues using 72 mutations Set attribute Boltz2_Fentanyl_affinity_-1.01_0.446_Fentanyl_emax_-0.241_0.131_mean for 22 residues of chain #1/R > color byattribute > r:Boltz2_Fentanyl_affinity_-1.01_0.446_Fentanyl_emax_-0.241_0.131_mean #1/R > palette -0.0799,white:-0.369,#7f7fff:-0.659,blue noValueColor white 2272 atoms, 283 residues, atom Boltz2_Fentanyl_affinity_-1.01_0.446_Fentanyl_emax_-0.241_0.131_mean range -0.998 to -0.0799 > color byattribute > r:Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute #1/R > palette 5.90102,white:25.2183,#7f7fff:42.1843,blue noValueColor white 2272 atoms, 283 residues, atom Fentanyl_ec50_5.9_8.32_Surface_effect_-0.239_0.484_sum_absolute range 5.9 to 81.7 > color byattribute r:Fentanyl_ec50_0.941_3.82_Morphine_ec50_5.13_7.69_count > #1/R palette 1,white:1.49,#7f7fff:1.98,blue noValueColor white 2272 atoms, 283 residues, atom Fentanyl_ec50_0.941_3.82_Morphine_ec50_5.13_7.69_count range 1 to 3 > ui tool show "Render/Select by Attribute" > color byattribute > r:Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count #1/R palette > 1,#f5f3f3:6,#ffa4a3:12,red noValueColor #faffff 2272 atoms, 283 residues, atom Morphine_emax_-0.398_0.0811_Surface_effect_-0.236_0.655_count range 1 to 16 > ui tool show "Render/Select by Attribute" Traceback (most recent call last): File "/Applications/ChimeraX-1.11-rc2025.11.27.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/ui/widgets/color_button.py", line 159, in color_to_numpy_rgba8 color = BuiltinColors[color] ~~~~~~~~~~~~~^^^^^^^ KeyError: '#faffff' During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/Applications/ChimeraX-1.11-rc2025.11.27.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/mutation_scores/ms_color_history.py", line 218, in _adjust_colors _show_render_by_attribute_panel(self.session, mset, attribute_name, File "/Applications/ChimeraX-1.11-rc2025.11.27.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/mutation_scores/ms_scatter_plot.py", line 777, in _show_render_by_attribute_panel rba_gui.no_value_color.color = no_value_color ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/Applications/ChimeraX-1.11-rc2025.11.27.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/ui/widgets/color_button.py", line 82, in set_color rgba = color_to_numpy_rgba8(color) ^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/Applications/ChimeraX-1.11-rc2025.11.27.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/ui/widgets/color_button.py", line 161, in color_to_numpy_rgba8 raise ValueError("'%s' is not a built-in color name" % color) ValueError: '#faffff' is not a built-in color name ValueError: '#faffff' is not a built-in color name File "/Applications/ChimeraX-1.11-rc2025.11.27.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site- packages/chimerax/ui/widgets/color_button.py", line 161, in color_to_numpy_rgba8 raise ValueError("'%s' is not a built-in color name" % color) See log for complete Python traceback. > save "/Users/willowcoyote-maestas/Library/CloudStorage/Box-Box/WCM > Lab/Willow/MOR_analysis/012026/mor_scores_012126.cxs" OpenGL version: 4.1 Metal - 89.4 OpenGL renderer: Apple M1 Pro OpenGL vendor: Apple Python: 3.11.9 Locale: en_US.UTF-8 Qt version: PyQt6 6.9.1, Qt 6.9.0 Qt runtime version: 6.9.2 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: MacBookPro18,3 Model Number: MKGQ3LL/A Chip: Apple M1 Pro Total Number of Cores: 10 (8 performance and 2 efficiency) Memory: 16 GB System Firmware Version: 13822.61.10 OS Loader Version: 11881.140.96 Software: System Software Overview: System Version: macOS 15.7.3 (24G419) Kernel Version: Darwin 24.6.0 Time since boot: 10 days, 10 hours, 10 minutes Graphics/Displays: Apple M1 Pro: Chipset Model: Apple M1 Pro Type: GPU Bus: Built-In Total Number of Cores: 16 Vendor: Apple (0x106b) Metal Support: Metal 3 Displays: Color LCD: Display Type: Built-in Liquid Retina XDR Display Resolution: 3024 x 1964 Retina Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal Installed Packages: aiohappyeyeballs: 2.6.1 aiohttp: 3.13.1 aiosignal: 1.4.0 alabaster: 1.0.0 annotated-types: 0.7.0 anyio: 4.11.0 appdirs: 1.4.4 appnope: 0.1.4 asttokens: 3.0.1 attrs: 25.4.0 babel: 2.17.0 beautifulsoup4: 4.13.5 blockdiag: 3.0.0 blosc2: 3.11.1 build: 1.3.0 certifi: 2025.7.14 cftime: 1.6.5 charset-normalizer: 3.4.4 ChimeraX-AddCharge: 1.5.20 ChimeraX-AddH: 2.2.8 ChimeraX-AlignmentAlgorithms: 2.0.2 ChimeraX-AlignmentHdrs: 3.6.1 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 3.1.1 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: 1.61.4 ChimeraX-AtomicLibrary: 14.2.1 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 ChimeraX-ChangeChains: 1.1 ChimeraX-CheckWaters: 1.5 ChimeraX-ChemGroup: 2.0.2 ChimeraX-Clashes: 2.3 ChimeraX-ColorActions: 1.0.5 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.8 ChimeraX-CommandLine: 1.3.0 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.11rc202511270036 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: 1.1.4 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: 1.7.2 ChimeraX-Label: 1.2 ChimeraX-ListInfo: 1.2.2 ChimeraX-Log: 1.2.2 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.9.2 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-MatchMaker: 2.2.2 ChimeraX-MCopy: 1.0 ChimeraX-MCPServer: 0.1.0 ChimeraX-MDcrds: 2.17.2 ChimeraX-MedicalToolbar: 1.1 ChimeraX-Meeting: 1.0.1 ChimeraX-Minimize: 1.3.2 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.16 ChimeraX-MMTF: 2.2 ChimeraX-ModelArchive: 1.0 ChimeraX-Modeller: 1.5.22 ChimeraX-ModelPanel: 1.6 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: 1.15.2 ChimeraX-OrthoPick: 1.0.1 ChimeraX-PDB: 2.7.11 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: 1.4.1 ChimeraX-PubChem: 2.2 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.6.5 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: 3.5.10 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.17.3 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-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.19.1 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: 2.5.2 ChimeraX-TapeMeasure: 1.0 ChimeraX-TaskManager: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.2.3 ChimeraX-ToolshedUtils: 1.2.4 ChimeraX-Topography: 1.0 ChimeraX-ToQuest: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.49.1 ChimeraX-Umap: 1.0 ChimeraX-uniprot: 2.3.2 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDock: 1.5.2 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: 8.3.1 colorama: 0.4.6 comm: 0.2.3 contourpy: 1.3.3 coverage: 7.12.0 cxservices: 1.2.3 cycler: 0.12.1 Cython: 3.1.4 debugpy: 1.8.17 decorator: 5.2.1 docutils: 0.21.2 executing: 2.2.1 filelock: 3.19.1 fonttools: 4.60.1 frozenlist: 1.8.0 funcparserlib: 2.0.0a0 glfw: 2.10.0 grako: 3.16.5 h11: 0.16.0 h5py: 3.15.1 html2text: 2025.4.15 httpcore: 1.0.9 httpx: 0.28.1 httpx-sse: 0.4.3 idna: 3.11 ihm: 2.2 imagecodecs: 2024.6.1 imagesize: 1.4.1 iniconfig: 2.3.0 ipykernel: 6.30.1 ipython: 9.5.0 ipython_pygments_lexers: 1.1.1 ipywidgets: 8.1.8 jedi: 0.19.2 Jinja2: 3.1.6 jsonschema: 4.25.1 jsonschema-specifications: 2025.9.1 jupyter_client: 8.6.3 jupyter_core: 5.9.1 jupyterlab_widgets: 3.0.16 kiwisolver: 1.4.9 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: 0.2.1 mcp: 1.18.0 msgpack: 1.1.1 multidict: 6.7.0 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 OpenMM: 8.2.0 openvr: 1.26.701 packaging: 25.0 ParmEd: 4.2.2 parso: 0.8.5 pep517: 0.13.1 pexpect: 4.9.0 pickleshare: 0.7.5 pillow: 11.3.0 pip: 25.2 pkginfo: 1.12.1.2 platformdirs: 4.5.0 pluggy: 1.6.0 prompt_toolkit: 3.0.52 propcache: 0.4.1 psutil: 7.0.0 ptyprocess: 0.7.0 pure_eval: 0.2.3 py-cpuinfo: 9.0.0 pybind11: 3.0.1 pycollada: 0.8 pydantic: 2.12.5 pydantic-settings: 2.12.0 pydantic_core: 2.41.5 pydicom: 2.4.4 Pygments: 2.18.0 pynmrstar: 3.3.6 pynrrd: 1.0.0 PyOpenGL: 3.1.10 PyOpenGL-accelerate: 3.1.10 pyopenxr: 1.1.4501 pyparsing: 3.2.5 pyproject_hooks: 1.2.0 PyQt6-commercial: 6.9.1 PyQt6-Qt6: 6.9.2 PyQt6-WebEngine-commercial: 6.9.0 PyQt6-WebEngine-Qt6: 6.9.2 PyQt6_sip: 13.10.2 pytest: 9.0.1 pytest-cov: 7.0.0 python-dateutil: 2.9.0.post0 python-dotenv: 1.2.1 python-multipart: 0.0.20 pytz: 2025.2 pyzmq: 27.1.0 qtconsole: 5.7.0 QtPy: 2.4.3 qtshim: 1.2 RandomWords: 0.4.0 referencing: 0.37.0 requests: 2.32.5 roman-numerals-py: 3.1.0 rpds-py: 0.29.0 scipy: 1.14.0 setuptools: 80.9.0 sfftk-rw: 0.8.1 six: 1.17.0 sniffio: 1.3.1 snowballstemmer: 3.0.1 sortedcontainers: 2.4.0 soupsieve: 2.8 Sphinx: 8.2.3 sphinx-autodoc-typehints: 3.2.0 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: 3.0.3 stack-data: 0.6.3 starlette: 0.50.0 superqt: 0.7.6 tables: 3.10.2 tcia_utils: 1.5.1 tifffile: 2025.3.13 tinyarray: 1.2.5 tornado: 6.5.2 traitlets: 5.14.3 typing-inspection: 0.4.2 typing_extensions: 4.15.0 tzdata: 2025.2 urllib3: 2.5.0 uvicorn: 0.38.0 wcwidth: 0.2.14 webcolors: 24.11.1 wheel: 0.45.1 wheel-filename: 1.4.2 widgetsnbextension: 4.0.15 yarl: 1.22.0 File attachment: mor_scores_012126.cxs mor_scores_012126.cxs
#19757	duplicate	Crash in swap_buffers exposing status line during Mac wakeup, macOS 26.2	Tom Goddard	chimerax-bug-report@…
Description	The following bug report has been submitted: Platform: macOS-26.2-arm64-arm-64bit ChimeraX Version: 1.11 (2025-12-17 06:45:39 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. Fatal Python error: Bus error Current thread 0x00000001f74bac40 (most recent call first): File "/Applications/ChimeraX-1.11.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/opengl.py", line 248 in swap_buffers File "/Applications/ChimeraX-1.11.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/opengl.py", line 561 in swap_buffers File "/Applications/ChimeraX-1.11.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/statusbar.py", line 166 in status File "/Applications/ChimeraX-1.11.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/statusbar.py", line 98 in _expose_event File "/Applications/ChimeraX-1.11.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 414 in event_loop File "/Applications/ChimeraX-1.11.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1064 in init File "/Applications/ChimeraX-1.11.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1229 in File "", line 88 in _run_code File "", line 198 in _run_module_as_main Extension modules: chimerax.arrays._arrays, numpy.core._multiarray_umath, numpy.core._multiarray_tests, numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._mt19937, numpy.random.mtrand, numpy.random._philox, numpy.random._pcg64, numpy.random._sfc64, numpy.random._generator, chimerax.geometry._geometry, PyQt6.QtCore, PyQt6.QtGui, PyQt6.QtWidgets, PyQt6.QtNetwork, PyQt6.QtPrintSupport, PyQt6.QtWebChannel, PyQt6.QtWebEngineCore, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, 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All rights reserved. How to cite UCSF ChimeraX > open > /Users/pc126390/Integrative_Modelling/Projet_DMC1/transfer_11636725_files_2946497c/BRCA2map.cxs Opened cryosparc_P26_J759_009_volume_map.mrc as #1, grid size 336,336,336, pixel 0.745, shown at level 0.0137, step 2, values float32 Opened cryosparc_P26_J780_map_locres.mrc as #2, grid size 336,336,336, pixel 0.745, shown at level 6.08, step 2, values float32 > view name session-start opened ChimeraX session > select /A 2485 atoms, 2523 bonds, 2 pseudobonds, 319 residues, 3 models selected > volume #1 step 1 > volume #1 style mesh > graphics silhouettes false > select #1/X Nothing selected > select #1/X Nothing selected > show atoms > hide atoms > select #3/X 360 atoms, 395 bonds, 18 residues, 1 model selected > show sel atoms > style sel ball Changed 360 atom styles > select #3/E 2485 atoms, 2523 bonds, 2 pseudobonds, 319 residues, 3 models selected > rainbow sel > select #3/C 2485 atoms, 2523 bonds, 2 pseudobonds, 319 residues, 3 models selected > rainbow sel > select #3/X 360 atoms, 395 bonds, 18 residues, 1 model selected > sequence chain #3/X Alignment identifier is 3/X > select #3/O 66 atoms, 69 bonds, 8 residues, 1 model selected > show sel atoms > sequence chain #3/O Alignment identifier is 3/O > select #3/O 66 atoms, 69 bonds, 8 residues, 1 model selected > view sel > select zone sel 4.5 #1/C residues true No target atoms or surfaces > select zone sel 4.5 #3/C residues true Selected 99 atoms > show sel atoms > style sel ball Changed 99 atom styles > color sel bychain > color sel byhetero > hide sel cartoons > select #3/C 2485 atoms, 2523 bonds, 2 pseudobonds, 319 residues, 3 models selected > hide sel cartoons > show sel atoms > style sel ball Changed 2485 atom styles > color sel byhetero > show sel cartoons > view #3 clip false > select #3/C 2485 atoms, 2523 bonds, 2 pseudobonds, 319 residues, 3 models selected > color sel bychain > color sel byhetero > select #3 15583 atoms, 15863 bonds, 11 pseudobonds, 1971 residues, 3 models selected > color sel bychain > select #3/C 2485 atoms, 2523 bonds, 2 pseudobonds, 319 residues, 3 models selected > color sel byhetero > select #3/D 2485 atoms, 2523 bonds, 2 pseudobonds, 319 residues, 3 models selected > show sel atoms > style sel ball Changed 2485 atom styles > open 1V5W Summary of feedback from opening 1V5W fetched from pdb --- note \| Fetching compressed mmCIF 1v5w from http://files.rcsb.org/download/1v5w.cif 1v5w title: Crystal structure of the human Dmc1 protein [more info...] Chain information for 1v5w #4 --- Chain \| Description \| UniProt A B \| Meiotic recombination protein DMC1/LIM15 homolog \| DMC1_HUMAN 1-340 1v5w mmCIF Assemblies --- 1\| author_and_software_defined_assembly 2\| software_defined_assembly > hide #!3 models > view #4 clip false > open /Users/pc126390/Integrative_Modelling/Projet_DMC1/1V5W-assembly1.cif 1V5W-assembly1.cif title: Crystal structure of the human Dmc1 protein [more info...] Chain information for 1V5W-assembly1.cif #5 --- Chain \| Description A A-2 A-3 A-4 B B-2 B-3 B-4 \| Meiotic recombination protein DMC1/LIM15 homolog > hide #!4 models > hide #!5 atoms > show #!5 cartoons > open 8QQE Summary of feedback from opening 8QQE fetched from pdb --- note \| Fetching compressed mmCIF 8qqe from http://files.rcsb.org/download/8qqe.cif 8qqe title: Crystal structure of the complex between DMC1 and the PhePP domain of BRCA2 [more info...] Chain information for 8qqe #6 --- Chain \| Description \| UniProt A B \| Meiotic recombination protein DMC1/LIM15 homolog \| DMC1_HUMAN 2-340 C D \| Breast cancer type 2 susceptibility protein \| BRCA2_HUMAN 1398-1417 2398-2417 Non-standard residues in 8qqe #6 --- CL — chloride ion MG — magnesium ion 8qqe mmCIF Assemblies --- 1\| author_defined_assembly 39 atoms have alternate locations. Control/examine alternate locations with Altloc Explorer [start tool...] or the altlocs command. 4377 atoms have anisotropic B-factors. Depict anisotropic information with Thermal Ellipsoids [start tool...] or the aniso command. > close #6 > close #5 > close #4 > open /Users/pc126390/Integrative_Modelling/Projet_DMC1/8QQE-assembly1.cif 8QQE-assembly1.cif title: Crystal structure of the complex between DMC1 and the PhePP domain of BRCA2 [more info...] Chain information for 8QQE-assembly1.cif #4 --- Chain \| Description A A-2 A-3 A-4 B B-2 B-3 B-4 \| Meiotic recombination protein DMC1/LIM15 homolog C C-2 C-3 C-4 D D-2 D-3 D-4 \| Breast cancer type 2 susceptibility protein Non-standard residues in 8QQE-assembly1.cif #4 --- CL — chloride ion MG — magnesium ion 156 atoms have alternate locations. Control/examine alternate locations with Altloc Explorer [start tool...] or the altlocs command. 17508 atoms have anisotropic B-factors. Depict anisotropic information with Thermal Ellipsoids [start tool...] or the aniso command. > hide #!4 atoms > show #!4 cartoons > color #!4 bychain > mmaker #4/A to #3/C Parameters --- Chain pairing \| bb Alignment algorithm \| Needleman-Wunsch Similarity matrix \| BLOSUM-62 SS fraction \| 0.3 Gap open (HH/SS/other) \| 18/18/6 Gap extend \| 1 SS matrix \| \| \| H \| S \| O ---\|---\|---\|--- H \| 6 \| -9 \| -6 S \| \| 6 \| -6 O \| \| \| 4 Iteration cutoff \| 2 Matchmaker BRCA2L-J759_m1_real_space_refined_001.pdb, chain C (#3) with 8QQE- assembly1.cif, chain A (#4), sequence alignment score = 1514.3 RMSD between 222 pruned atom pairs is 0.707 angstroms; (across all 296 pairs: 8.936) > view #3/C > show #!3 models > hide #!3 models > show #!3 models > view #4/D > select #4/D 39 atoms, 41 bonds, 5 residues, 1 model selected > show sel atoms > style sel ball Changed 39 atom styles > hide #!3 models > mmaker #4/B to #3/C Parameters --- Chain pairing \| bb Alignment algorithm \| Needleman-Wunsch Similarity matrix \| BLOSUM-62 SS fraction \| 0.3 Gap open (HH/SS/other) \| 18/18/6 Gap extend \| 1 SS matrix \| \| \| H \| S \| O ---\|---\|---\|--- H \| 6 \| -9 \| -6 S \| \| 6 \| -6 O \| \| \| 4 Iteration cutoff \| 2 Matchmaker BRCA2L-J759_m1_real_space_refined_001.pdb, chain C (#3) with 8QQE- assembly1.cif, chain B (#4), sequence alignment score = 1453.7 RMSD between 222 pruned atom pairs is 0.703 angstroms; (across all 247 pairs: 2.555) > show #!3 models > view #4/B > hide #!3 models > show #!3 models > hide #!4 models > view #3/C > select #3/C 2485 atoms, 2523 bonds, 2 pseudobonds, 319 residues, 3 models selected > sequence chain #3/C Alignment identifier is 3/C > ui tool show "Selection Inspector" > select #3/X 360 atoms, 395 bonds, 18 residues, 1 model selected > save /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_structs.cxs > show #!1 models > show #!2 models > show #!4 models > hide #!1 models > hide #!2 models > hide #!4 models > select #3/A 2485 atoms, 2523 bonds, 2 pseudobonds, 319 residues, 3 models selected > select #3/A 2485 atoms, 2523 bonds, 2 pseudobonds, 319 residues, 3 models selected > save /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_A.pdb models #3 > selectedOnly true > select #3/B 2485 atoms, 2523 bonds, 2 pseudobonds, 319 residues, 3 models selected > save /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_B.pdb models #3 > selectedOnly true > select #3/C 2485 atoms, 2523 bonds, 2 pseudobonds, 319 residues, 3 models selected > save /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_C.pdb models #3 > selectedOnly true > select #3/D 2485 atoms, 2523 bonds, 2 pseudobonds, 319 residues, 3 models selected > save /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_D.pdb models #3 > selectedOnly true > select #3/E 2485 atoms, 2523 bonds, 2 pseudobonds, 319 residues, 3 models selected > save /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_E.pdb models #3 > selectedOnly true > select #3/F 2438 atoms, 2476 bonds, 1 pseudobond, 314 residues, 2 models selected > save /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_F.pdb models #3 > selectedOnly true > select #3/O 66 atoms, 69 bonds, 8 residues, 1 model selected > save /Users/pc126390/Integrative_Modelling/Projet_DMC1/brca2_O.pdb models #3 > selectedOnly true > open /Users/pc126390/Integrative_Modelling/Projet_DMC1/brca2_O.pdb > /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_A.pdb > /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_B.pdb > /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_C.pdb > /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_D.pdb > /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_E.pdb > /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_F.pdb Summary of feedback from opening /Users/pc126390/Integrative_Modelling/Projet_DMC1/brca2_O.pdb --- warnings \| Start residue of secondary structure not found: HELIX 1 1 ILE A 24 HIS A 30 1 7 Start residue of secondary structure not found: HELIX 2 2 VAL A 34 VAL A 43 1 10 Start residue of secondary structure not found: HELIX 3 3 ILE A 48 MET A 53 1 6 Start residue of secondary structure not found: HELIX 4 4 ARG A 56 ASN A 61 1 6 Start residue of secondary structure not found: HELIX 5 5 GLU A 67 LEU A 80 1 14 151 messages similar to the above omitted Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Summary of feedback from opening /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_A.pdb --- warnings \| Start residue of secondary structure not found: HELIX 16 16 ILE B 24 HIS B 30 1 7 Start residue of secondary structure not found: HELIX 17 17 VAL B 34 VAL B 43 1 10 Start residue of secondary structure not found: HELIX 18 18 ILE B 48 MET B 53 1 6 Start residue of secondary structure not found: HELIX 19 19 ARG B 56 ASN B 61 1 6 Start residue of secondary structure not found: HELIX 20 20 GLU B 67 LEU B 80 1 14 125 messages similar to the above omitted Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Summary of feedback from opening /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_B.pdb --- warnings \| Start residue of secondary structure not found: HELIX 1 1 ILE A 24 HIS A 30 1 7 Start residue of secondary structure not found: HELIX 2 2 VAL A 34 VAL A 43 1 10 Start residue of secondary structure not found: HELIX 3 3 ILE A 48 MET A 53 1 6 Start residue of secondary structure not found: HELIX 4 4 ARG A 56 ASN A 61 1 6 Start residue of secondary structure not found: HELIX 5 5 GLU A 67 LEU A 80 1 14 125 messages similar to the above omitted Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Summary of feedback from opening /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_C.pdb --- warnings \| Start residue of secondary structure not found: HELIX 1 1 ILE A 24 HIS A 30 1 7 Start residue of secondary structure not found: HELIX 2 2 VAL A 34 VAL A 43 1 10 Start residue of secondary structure not found: HELIX 3 3 ILE A 48 MET A 53 1 6 Start residue of secondary structure not found: HELIX 4 4 ARG A 56 ASN A 61 1 6 Start residue of secondary structure not found: HELIX 5 5 GLU A 67 LEU A 80 1 14 125 messages similar to the above omitted Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Summary of feedback from opening /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_D.pdb --- warnings \| Start residue of secondary structure not found: HELIX 1 1 ILE A 24 HIS A 30 1 7 Start residue of secondary structure not found: HELIX 2 2 VAL A 34 VAL A 43 1 10 Start residue of secondary structure not found: HELIX 3 3 ILE A 48 MET A 53 1 6 Start residue of secondary structure not found: HELIX 4 4 ARG A 56 ASN A 61 1 6 Start residue of secondary structure not found: HELIX 5 5 GLU A 67 LEU A 80 1 14 125 messages similar to the above omitted Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Summary of feedback from opening /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_E.pdb --- warnings \| Start residue of secondary structure not found: HELIX 1 1 ILE A 24 HIS A 30 1 7 Start residue of secondary structure not found: HELIX 2 2 VAL A 34 VAL A 43 1 10 Start residue of secondary structure not found: HELIX 3 3 ILE A 48 MET A 53 1 6 Start residue of secondary structure not found: HELIX 4 4 ARG A 56 ASN A 61 1 6 Start residue of secondary structure not found: HELIX 5 5 GLU A 67 LEU A 80 1 14 124 messages similar to the above omitted Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Summary of feedback from opening /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_F.pdb --- warnings \| Start residue of secondary structure not found: HELIX 1 1 ILE A 24 HIS A 30 1 7 Start residue of secondary structure not found: HELIX 2 2 VAL A 34 VAL A 43 1 10 Start residue of secondary structure not found: HELIX 3 3 ILE A 48 MET A 53 1 6 Start residue of secondary structure not found: HELIX 4 4 ARG A 56 ASN A 61 1 6 Start residue of secondary structure not found: HELIX 5 5 GLU A 67 LEU A 80 1 14 126 messages similar to the above omitted Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Chain information for brca2_O.pdb #5 --- Chain \| Description O \| No description available Chain information for dmc1_A.pdb #6 --- Chain \| Description A \| No description available Chain information for dmc1_B.pdb #7 --- Chain \| Description B \| No description available Chain information for dmc1_C.pdb #8 --- Chain \| Description C \| No description available Chain information for dmc1_D.pdb #9 --- Chain \| Description D \| No description available Chain information for dmc1_E.pdb #10 --- Chain \| Description E \| No description available Chain information for dmc1_F.pdb #11 --- Chain \| Description F \| No description available > hide #!3 models > hide #!6 models > show #!6 models > hide #5 models > show #5 models > hide #!6 models > show #!6 models > hide #!7 models > show #!7 models > hide #!8 models > show #!8 models > select #3/X 360 atoms, 395 bonds, 18 residues, 1 model selected > save /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_X.pdb models #3 > selectedOnly true > open /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_X.pdb Summary of feedback from opening /Users/pc126390/Integrative_Modelling/Projet_DMC1/dmc1_X.pdb --- warnings \| Start residue of secondary structure not found: HELIX 1 1 ILE A 24 HIS A 30 1 7 Start residue of secondary structure not found: HELIX 2 2 VAL A 34 VAL A 43 1 10 Start residue of secondary structure not found: HELIX 3 3 ILE A 48 MET A 53 1 6 Start residue of secondary structure not found: HELIX 4 4 ARG A 56 ASN A 61 1 6 Start residue of secondary structure not found: HELIX 5 5 GLU A 67 LEU A 80 1 14 151 messages similar to the above omitted Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Cannot find LINK/SSBOND residue ANP (401 ) Chain information for dmc1_X.pdb #12 --- Chain \| Description X \| No description available Computing secondary structure > hide #5 models > hide #!7 models > hide #!8 models > hide #!9 models > hide #!10 models > hide #!11 models > hide #12 models > show #!11 models > hide #!11 models > hide #!6 models > show #!7 models > hide #!7 models > show #!7 models > hide #!7 models > show #!8 models > hide #!8 models > show #!8 models > hide #!8 models > show #!9 models > hide #!9 models > show #!10 models > hide #!10 models > show #!11 models > show #!10 models > hide #!10 models > show #!10 models > hide #!10 models > show #!10 models > show #!9 models > show #!8 models > show #!7 models > show #!6 models > select #3/A:ANP 31 atoms, 33 bonds, 1 residue, 1 model selected > view sel No displayed objects specified. > select #3/A:ANP 31 atoms, 33 bonds, 1 residue, 1 model selected > view #8/A:ANP No objects specified. > hide #!8 models > show #!8 models > hide #!8 models > show #!8 models > show #12 models > hide #12 models > show #12 models > show #!4 models > hide #!4 models > show #!4 models > hide #!6 models > hide #!7 models > hide #!8 models > hide #!9 models > hide #!10 models > hide #!11 models > hide #12 models > show #!6 models > hide #!6 models > show #!6 models > show #!7 models Unsupported scale factor (0.000000) detected on Display0 ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.11 (2025-12-17) © 2016-2025 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 4.1 Metal - 90.5 OpenGL renderer: Apple M4 Max OpenGL vendor: Apple Python: 3.11.9 Locale: fr_FR.UTF-8 Qt version: PyQt6 6.9.1, Qt 6.9.0 Qt runtime version: 6.9.2 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: Mac16,5 Model Number: Z1FV000H9FN/A Chip: Apple M4 Max Total Number of Cores: 14 (10 performance and 4 efficiency) Memory: 36 GB System Firmware Version: 13822.61.10 OS Loader Version: 13822.61.10 Software: System Software Overview: System Version: macOS 26.2 (25C56) Kernel Version: Darwin 25.2.0 Time since boot: 2 jours, 12 heures et 55 minutes Graphics/Displays: Apple M4 Max: Chipset Model: Apple M4 Max Type: GPU Bus: Built-In Total Number of Cores: 32 Vendor: Apple (0x106b) Metal Support: Metal 4 Displays: Color LCD: Display Type: Built-in Liquid Retina XDR Display Resolution: 3456 x 2234 Retina Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal Studio Display: Display Type: Retina LCD Resolution: 5120 x 2880 Retina Display Serial Number: LY0X41HPJ4 Display Firmware Version: Version 17.0 (Build 21A329) Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Installed Packages: aiohappyeyeballs: 2.6.1 aiohttp: 3.13.1 aiosignal: 1.4.0 alabaster: 1.0.0 annotated-types: 0.7.0 anyio: 4.12.0 appdirs: 1.4.4 appnope: 0.1.4 asttokens: 3.0.1 attrs: 25.4.0 babel: 2.17.0 beautifulsoup4: 4.13.5 blockdiag: 3.0.0 blosc2: 3.12.2 build: 1.3.0 certifi: 2025.7.14 cftime: 1.6.5 charset-normalizer: 3.4.4 ChimeraX-AddCharge: 1.5.20 ChimeraX-AddH: 2.2.8 ChimeraX-AlignmentAlgorithms: 2.0.2 ChimeraX-AlignmentHdrs: 3.6.1 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 3.1.1 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: 1.61.4 ChimeraX-AtomicLibrary: 14.2.1 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 ChimeraX-ChangeChains: 1.1 ChimeraX-CheckWaters: 1.5 ChimeraX-ChemGroup: 2.0.2 ChimeraX-Clashes: 2.3 ChimeraX-ColorActions: 1.0.5 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.8 ChimeraX-CommandLine: 1.3.0 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.11 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: 1.1.4 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: 1.7.3 ChimeraX-Label: 1.2 ChimeraX-ListInfo: 1.2.2 ChimeraX-Log: 1.2.2 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.9.2 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-MatchMaker: 2.2.2 ChimeraX-MCopy: 1.0 ChimeraX-MCPServer: 0.1.0 ChimeraX-MDcrds: 2.17.2 ChimeraX-MedicalToolbar: 1.1 ChimeraX-Meeting: 1.0.1 ChimeraX-Minimize: 1.3.2 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.16 ChimeraX-MMTF: 2.2 ChimeraX-ModelArchive: 1.0 ChimeraX-Modeller: 1.5.22 ChimeraX-ModelPanel: 1.6 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: 1.15.2 ChimeraX-OrthoPick: 1.0.1 ChimeraX-PDB: 2.7.11 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: 1.4.2 ChimeraX-PubChem: 2.2 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.6.5 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: 3.5.10 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.17.3 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-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.19.1 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: 2.5.2 ChimeraX-TapeMeasure: 1.0 ChimeraX-TaskManager: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.2.3 ChimeraX-ToolshedUtils: 1.2.4 ChimeraX-Topography: 1.0 ChimeraX-ToQuest: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.49.1 ChimeraX-Umap: 1.0 ChimeraX-uniprot: 2.3.2 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDock: 1.5.2 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: 8.3.1 colorama: 0.4.6 comm: 0.2.3 contourpy: 1.3.3 coverage: 7.13.0 cxservices: 1.2.3 cycler: 0.12.1 Cython: 3.1.4 debugpy: 1.8.19 decorator: 5.2.1 docutils: 0.21.2 executing: 2.2.1 filelock: 3.19.1 fonttools: 4.61.1 frozenlist: 1.8.0 funcparserlib: 2.0.0a0 glfw: 2.10.0 grako: 3.16.5 h11: 0.16.0 h5py: 3.15.1 html2text: 2025.4.15 httpcore: 1.0.9 httpx: 0.28.1 httpx-sse: 0.4.3 idna: 3.11 ihm: 2.2 imagecodecs: 2024.6.1 imagesize: 1.4.1 iniconfig: 2.3.0 ipykernel: 6.30.1 ipython: 9.5.0 ipython_pygments_lexers: 1.1.1 ipywidgets: 8.1.8 jedi: 0.19.2 Jinja2: 3.1.6 jsonschema: 4.25.1 jsonschema-specifications: 2025.9.1 jupyter_client: 8.6.3 jupyter_core: 5.9.1 jupyterlab_widgets: 3.0.16 kiwisolver: 1.4.9 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: 0.2.1 mcp: 1.18.0 msgpack: 1.1.1 multidict: 6.7.0 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 OpenMM: 8.2.0 openvr: 1.26.701 packaging: 25.0 ParmEd: 4.2.2 parso: 0.8.5 pep517: 0.13.1 pexpect: 4.9.0 pickleshare: 0.7.5 pillow: 11.3.0 pip: 25.2 pkginfo: 1.12.1.2 platformdirs: 4.5.1 pluggy: 1.6.0 prompt_toolkit: 3.0.52 propcache: 0.4.1 psutil: 7.0.0 ptyprocess: 0.7.0 pure_eval: 0.2.3 py-cpuinfo: 9.0.0 pybind11: 3.0.1 pycollada: 0.8 pydantic: 2.12.5 pydantic-settings: 2.12.0 pydantic_core: 2.41.5 pydicom: 2.4.4 Pygments: 2.18.0 pynmrstar: 3.3.6 pynrrd: 1.0.0 PyOpenGL: 3.1.10 PyOpenGL-accelerate: 3.1.10 pyopenxr: 1.1.4501 pyparsing: 3.2.5 pyproject_hooks: 1.2.0 PyQt6-commercial: 6.9.1 PyQt6-Qt6: 6.9.2 PyQt6-WebEngine-commercial: 6.9.0 PyQt6-WebEngine-Qt6: 6.9.2 PyQt6_sip: 13.10.2 pytest: 9.0.2 pytest-cov: 7.0.0 python-dateutil: 2.9.0.post0 python-dotenv: 1.2.1 python-multipart: 0.0.21 pytz: 2025.2 pyzmq: 27.1.0 qtconsole: 5.7.0 QtPy: 2.4.3 qtshim: 1.2 RandomWords: 0.4.0 referencing: 0.37.0 requests: 2.32.5 roman-numerals: 4.0.0 roman-numerals-py: 4.0.0 rpds-py: 0.30.0 scipy: 1.14.0 setuptools: 80.9.0 sfftk-rw: 0.8.1 six: 1.17.0 snowballstemmer: 3.0.1 sortedcontainers: 2.4.0 soupsieve: 2.8 Sphinx: 8.2.3 sphinx-autodoc-typehints: 3.2.0 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: 3.0.4 stack-data: 0.6.3 starlette: 0.50.0 superqt: 0.7.6 tables: 3.10.2 tcia_utils: 1.5.1 tifffile: 2025.3.13 tinyarray: 1.2.5 tornado: 6.5.4 traitlets: 5.14.3 typing-inspection: 0.4.2 typing_extensions: 4.15.0 tzdata: 2025.3 urllib3: 2.6.2 uvicorn: 0.38.0 wcwidth: 0.2.14 webcolors: 24.11.1 wheel: 0.45.1 wheel-filename: 1.4.2 widgetsnbextension: 4.0.15 yarl: 1.22.0

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Query Language

query: TracLinks and the [[TicketQuery]] macro both use a mini “query language” for specifying query filters. Basically, the filters are separated by ampersands (&). Each filter then 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 left out 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

Note: See TracWiki for help on using the wiki.

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Plain Text

Context Navigation

Trac Ticket Queries

Table of Contents

Filters

Navigating Tickets

Saving Queries

Using TracLinks

Using the [[TicketQuery]] Macro

Customizing the table format

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Results (1 - 3 of 13388)

Query Language

Download in other formats:

Using the `[[TicketQuery]]` Macro