Opened 3 days ago

Last modified 3 days ago

#19224 assigned defect

Claude MCP session reaching max conversation limit after just 3 prompts

Reported by: goddard@… Owned by: Zach Pearson
Priority: normal Milestone:
Component: UI Version:
Keywords: Cc:
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description

The following bug report has been submitted:
Platform:        macOS-26.0.1-arm64-arm-64bit
ChimeraX Version: 1.11.dev202510170018 (2025-10-17 00:18:50 UTC)
Description
Claude controling ChimeraX is hitting a maximum conversation length limit after just 3 prompts.  Using mcp_server bundle from 10 AM today.   Never saw this before in earlier mcp_server versions with conversations with 30 prompts.  The first conversation Claude asked to save an image but I did not respond, in the second short conversation I let it save one image.

Here is the Claude log of that second conversation:

New chat
Can you show me a human opioid receptor with fentanyl?
I'll help you visualize a human opioid receptor with fentanyl bound to it. Let me open a structure from the Protein Data Bank.
C
Open structure
I've opened structure 5C1M, which is a crystal structure of the human mu-opioid receptor. However, this structure contains BU72 (a different opioid agonist), not fentanyl. Let me search for a structure with fentanyl specifically.
C
Run command
fentanyl opioid receptor PDB structure
10 results








Perfect! I found it. Structure 8EF5 contains the human mu-opioid receptor bound to fentanyl in complex with a G protein RCSB PDBScienceDirect. Let me open this structure for you.
C
Open structure
Excellent! I've opened the structure. Now let me create a nice visualization showing the receptor with fentanyl. Let me first hide the G protein complex and focus on the receptor and fentanyl.
4 steps
C
Run command
C
Run command
Now let me capture the view to show you what this looks like:
C
Capture view
Great! Here's what you're looking at:
This is the structure of the human mu-opioid receptor (shown in blue and cyan, there are two copies) bound to fentanyl (shown in magenta/pink spheres in the center). The mu-opioid receptor is the primary target through which fentanyl and other opioids produce their effects - both pain relief and the dangerous side effects.
This structure was determined using cryo-electron microscopy and shows how fentanyl binds within the receptor's binding pocket RCSB PDBScienceDirect. You can see the fentanyl molecules nestled in the binding sites of each receptor copy.
The structure also includes the G protein complex that the receptor activates, though I've hidden that part to focus on the receptor and fentanyl binding. Would you like me to show you different views or highlight specific interactions between fentanyl and the receptor?
Can we replace fentanyl with carfentanil?
I'll search for a structure with carfentanil and the opioid receptor.
carfentanil opioid receptor PDB structure
10 results








Unfortunately, I don't see an experimental crystal or cryo-EM structure of carfentanil bound to the opioid receptor in the PDB database. However, computational studies have predicted how carfentanil binds to the mu-opioid receptor using molecular dynamics simulations NCBI.
What I can do instead is:
Keep the current fentanyl structure - This already shows you the binding mode which is very similar to carfentanil
Build a model of carfentanil - I could create a molecular model of carfentanil and overlay it on the fentanyl position based on the computational predictions
Show a different opioid - I could load structures with morphine or other opioids if you'd like to see how different drugs bind
Would you like me to try option 2 (building a carfentanil model in the binding site), or would you prefer to see a different comparison? The structural difference between fentanyl and carfentanil is actually quite small - carfentanil has a methyl ester group where fentanyl has other substituents, making it about 100 times more potent.
Yes, please build the model.
I'll build a carfentanil molecule and position it in the binding site where fentanyl currently is. Let me start by creating the molecular structure of carfentanil.
Generate 3D structure of carfentanil using RDKit
Let me install RDKit first:
Install RDKit for molecule building
Great! Now let me generate the carfentanil structure:
Generate 3D carfentanil structure
Now I need to align carfentanil to the fentanyl position in the receptor. Let me first extract the fentanyl coordinates from the structure:
C
Run command
Let me try a different approach - I'll use ChimeraX's temporary directory:
Create writable temporary directory
C
Run command





Log:
Startup Messages  
---  
note | Updated animation length to 0:05.00  
  
UCSF ChimeraX version: 1.11.dev202510170018 (2025-10-17)  
© 2016-2025 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> mcp start

> remotecontrol rest port

REST server is not running  

> remotecontrol rest start port 8080 json true log true

REST server started on port 8080 for MCP bridge connections  
REST server started on host 127.0.0.1 port 8080  
Visit http://127.0.0.1:8080/cmdline.html for CLI interface  

> open 8EFQ

Summary of feedback from opening 8EFQ fetched from pdb  
---  
warning | Atom C is not in the residue template for ETA /P:101  
note | Fetching compressed mmCIF 8efq from http://files.rcsb.org/download/8efq.cif  
  
8efq title:  
DAMGO-bound mu-opioid receptor-Gi complex [more info...]  
  
Chain information for 8efq #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 #1  
---  
ETA — ethanolamine  
  

> save /tmp/tmp3l7bsjv2.png width 1200 height 900 supersample 1

> close #1

> open 8TFP

Summary of feedback from opening 8TFP fetched from pdb  
---  
notes | Fetching compressed mmCIF 8tfp from http://files.rcsb.org/download/8tfp.cif  
Fetching CCD 84K from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/K/84K/84K.cif  
  
8tfp title:  
Fab from C10-S66K antibody in complex with carfentanil [more info...]  
  
Chain information for 8tfp #1  
---  
Chain | Description  
A L | Light chain of Fab from C10-S66K antibody  
B H | Heavy chain of Fab from C10-S66K antibody  
  
Non-standard residues in 8tfp #1  
---  
84K — Carfentanil (methyl
1-(2-phenylethyl)-4-(N-phenylpropanamido)piperidine-4-carboxylate)  
  
8tfp mmCIF Assemblies  
---  
1| author_and_software_defined_assembly  
2| author_and_software_defined_assembly  
  
174 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.  
6296 atoms have anisotropic B-factors. Depict anisotropic information with
Thermal Ellipsoids [start tool...] or the aniso command.  

> select :84K

118 atoms, 122 bonds, 2 residues, 1 model selected  

> color sel red

> save /tmp/tmpusn535gm.png width 1200 height 900 supersample 1

> open 5C1M

Summary of feedback from opening 5C1M fetched from pdb  
---  
notes | Fetching compressed mmCIF 5c1m from http://files.rcsb.org/download/5c1m.cif  
Fetching CCD VF1 from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/1/VF1/VF1.cif  
  
5c1m title:  
Crystal structure of active mu-opioid receptor bound to the agonist BU72 [more
info...]  
  
Chain information for 5c1m #2  
---  
Chain | Description | UniProt  
A | Mu-type opioid receptor | OPRM_MOUSE 52-347  
B | Nanobody 39 |   
  
Non-standard residues in 5c1m #2  
---  
CLR — cholesterol  
OLC — (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate (1-Oleoyl-R-glycerol)  
P6G — hexaethylene glycol (polyethylene glycol PEG400)  
PO4 — phosphate ion  
VF1 —
(2R,3S,3aR,5aR,6R,11bR,11cS)-3a-methoxy-3,14-dimethyl-2-phenyl-2,3,3a,6,7,11c-hexahydro-1H-6,11b-(epiminoethano)-3,5a-methanonaphtho[2,1-g]indol-10-ol
(BU72)  
  
34 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.  
3259 atoms have anisotropic B-factors. Depict anisotropic information with
Thermal Ellipsoids [start tool...] or the aniso command.  

> close

> open 8EF5

8ef5 title:  
Fentanyl-bound mu-opioid receptor-Gi complex [more info...]  
  
Chain information for 8ef5 #1  
---  
Chain | Description | UniProt  
A F | 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  
C | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | GBG2_BOVIN 1-68  
E | scFv16 |   
M R | Mu-type opioid receptor | OPRM_HUMAN 2-368  
  
Non-standard residues in 8ef5 #1  
---  
7V7 — N-phenyl-N-[1-(2-phenylethyl)piperidin-4-yl]propanamide  
CLR — cholesterol  
  

> hide /A,B,C,E,F cartoons

> style :7V7 sphere

Changed 50 atom styles  

> color :7V7 magenta

> color /M,R bychain

> view :7V7

> lighting soft

> save /tmp/tmplb33qvp2.png width 1200 height 900 supersample 2

> save /home/claude/fentanyl_ref.pdb :7V7

Cannot save '/home/claude/fentanyl_ref.pdb': Unable to open file
'/home/claude/fentanyl_ref.pdb' for writing  

> save /tmp/chimerax_work/fentanyl_ref.pdb :7V7

Cannot save '/tmp/chimerax_work/fentanyl_ref.pdb': Unable to open file
'/tmp/chimerax_work/fentanyl_ref.pdb' for writing  

> usage boltz predict

boltz predict [sequences] [ligands a residues specifier] [excludeLigands a
text string] [protein sequences] [dna sequences] [rna sequences] [ligandCcd
ligands] [ligandSmiles ligands] [forEachSmilesLigand list of name and smiles
string] [name a text string] [resultsDirectory name of a folder to save/write;
a name of 'browse' will bring up a file browser] [device device] [kernels true
or false] [precision precision] [float16 true or false] [affinity a text
string] [steering true or false] [samples an integer] [recycles an integer]
[seed an integer] [useMsaCache true or false] [msaOnly true or false] [open
true or false] [installLocation name of a folder to save/write; a name of
'browse' will bring up a file browser] [wait true or false]  
— Predict a structure with Boltz  
sequences: sequences  
device: one of cpu, default, or gpu  
precision: one of 16, 32, bf16-mixed, or bf16-true  




OpenGL version: 4.1 Metal - 90.5
OpenGL renderer: Apple M1 Max
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: MacBookPro18,2
      Model Number: MK1H3LL/A
      Chip: Apple M1 Max
      Total Number of Cores: 10 (8 performance and 2 efficiency)
      Memory: 32 GB
      System Firmware Version: 13822.1.2
      OS Loader Version: 13822.1.2

Software:

    System Software Overview:

      System Version: macOS 26.0.1 (25A362)
      Kernel Version: Darwin 25.0.0
      Time since boot: 5 days, 11 hours, 28 minutes

Graphics/Displays:

    Apple M1 Max:

      Chipset Model: Apple M1 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: No
          Connection Type: Internal


Installed Packages:
    aiohappyeyeballs: 2.6.1
    aiohappyeyeballs: 2.6.1
    aiohttp: 3.13.1
    aiohttp: 3.13.1
    aiosignal: 1.4.0
    aiosignal: 1.4.0
    alabaster: 1.0.0
    annotated-types: 0.7.0
    annotated-types: 0.7.0
    anyio: 4.11.0
    anyio: 4.11.0
    appdirs: 1.4.4
    appnope: 0.1.4
    asttokens: 3.0.0
    attrs: 25.4.0
    attrs: 25.4.0
    babel: 2.17.0
    beautifulsoup4: 4.13.5
    blockdiag: 3.0.0
    blosc2: 3.10.2
    build: 1.3.0
    certifi: 2025.8.3
    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: 3.0.2
    ChimeraX-AlphaFold: 1.0.1
    ChimeraX-AltlocExplorer: 1.1.2
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Animations: 1.0
    ChimeraX-Aniso: 1.3.2
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.60.17
    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.dev202510170018
    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: 1.2.1
    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: 2.17.1
    ChimeraX-MedicalToolbar: 1.1
    ChimeraX-Meeting: 1.0.1
    ChimeraX-Minimize: 1.3.1
    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: 1.15.1
    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
    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: 1.3.1
    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: 0.2.3
    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: 2.17.2
    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: 1.48.4
    ChimeraX-Umap: 1.0
    ChimeraX-uniprot: 2.3.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDock: 1.5.1
    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: 1.1.5
    ChimeraX-Zone: 1.0.1
    click: 8.3.0
    click: 8.3.0
    colorama: 0.4.6
    comm: 0.2.3
    contourpy: 1.3.3
    coverage: 7.11.0
    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
    frozenlist: 1.8.0
    funcparserlib: 2.0.0a0
    glfw: 2.10.0
    grako: 3.16.5
    h11: 0.16.0
    h11: 0.16.0
    h5py: 3.15.1
    html2text: 2025.4.15
    httpcore: 1.0.9
    httpcore: 1.0.9
    httpx: 0.28.1
    httpx: 0.28.1
    httpx-sse: 0.4.3
    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: 8.1.7
    jedi: 0.19.2
    Jinja2: 3.1.6
    jsonschema: 4.25.1
    jsonschema: 4.25.1
    jsonschema-specifications: 2025.9.1
    jsonschema-specifications: 2025.9.1
    jupyter_client: 8.6.3
    jupyter_core: 5.9.1
    jupyterlab_widgets: 3.0.15
    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: 3.10.5
    matplotlib-inline: 0.1.7
    mcp: 1.18.0
    mcp: 1.18.0
    msgpack: 1.1.1
    multidict: 6.7.0
    multidict: 6.7.0
    ndindex: 1.10.0
    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
    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: 2.12.3
    pydantic: 2.12.3
    pydantic-settings: 2.11.0
    pydantic-settings: 2.11.0
    pydantic_core: 2.41.4
    pydantic_core: 2.41.4
    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: 6.9.1
    PyQt6-Qt6: 6.9.2
    PyQt6-WebEngine: 6.9.0
    PyQt6-WebEngine-Qt6: 6.9.2
    PyQt6_sip: 13.10.2
    pytest: 8.4.2
    pytest-cov: 7.0.0
    python-dateutil: 2.9.0.post0
    python-dotenv: 1.1.1
    python-dotenv: 1.1.1
    python-multipart: 0.0.20
    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
    referencing: 0.37.0
    requests: 2.32.5
    roman-numerals-py: 3.1.0
    rpds-py: 0.28.0
    rpds-py: 0.28.0
    scipy: 1.14.0
    setuptools: 80.9.0
    sfftk-rw: 0.8.1
    six: 1.17.0
    sniffio: 1.3.1
    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: 3.0.2
    sse-starlette: 3.0.2
    stack-data: 0.6.3
    starlette: 0.48.0
    starlette: 0.48.0
    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-inspection: 0.4.2
    typing_extensions: 4.15.0
    tzdata: 2025.2
    urllib3: 2.5.0
    uvicorn: 0.38.0
    uvicorn: 0.38.0
    wcwidth: 0.2.14
    webcolors: 24.11.1
    wheel: 0.45.1
    wheel-filename: 1.4.2
    widgetsnbextension: 4.0.14
    yarl: 1.22.0
    yarl: 1.22.0

Change History (2)

comment:1 by Tom Goddard, 3 days ago

Component: UnassignedUI
Owner: set to Zach Pearson
Platform: all
Project: ChimeraX
Status: newassigned
Summary: ChimeraX bug report submissionClaude MCP session reaching max conversation limit after just 3 prompts

comment:2 by Tom Goddard, 3 days ago

Turning off capture view fixes this max conversation limit error.

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