Microsoft Windows [Version 10.0.22631.3447]
(c) Microsoft Corporation. Alle Rechte vorbehalten.

C:\Users\Tennstedt>"C:\Program Files\ChimeraX\bin\ChimeraX-console.exe" --debug
NOTE: Initializing core
Toolshed: __init__ False False None
Toolshed: cache dir: C:\Users\Tennstedt\AppData\Local\UCSF\ChimeraX\Cache\1.8\toolshed
Toolshed: site dir: C:\Users\Tennstedt\AppData\Local\UCSF\ChimeraX\1.8\Python311\site-packages
Toolshed: loading bundles
available bundle cache has not been initialized yet
Toolshed: reload False False
Toolshed: _bundle_cache False
Toolshed: InstalledBundleCache.load: rebuild_cache False
Toolshed: InstalledBundleCache._read_cache: C:\Users\Tennstedt\AppData\Local\UCSF\ChimeraX\Cache\1.8\toolshed\bundle_info.cache
Toolshed: _is_cache_newer
Toolshed: InstalledBundleCache._read_cache: 163 bundles
Toolshed: InstalledBundleCache.load: using cached data
Toolshed: register bundle ChimeraX-Arrays 1.1
Toolshed: register bundle ChimeraX-ToolshedUtils 1.2.4
Toolshed: register bundle ChimeraX-Core 1.8.dev202405040553
Toolshed: register bundle ChimeraX-RemoteControl 1.0
Toolshed: delay_registration remotecontrol xmlrpc
Toolshed: register bundle ChimeraX-SmoothLines 1.0
Toolshed: delay_registration smoothlines
Toolshed: register bundle ChimeraX-ListInfo 1.2.2
Toolshed: delay_registration info
Toolshed: register bundle ChimeraX-Segment 1.0.1
Toolshed: delay_registration segmentation
Toolshed: register bundle ChimeraX-Movie 1.0
Toolshed: delay_registration movie
Toolshed: register bundle ChimeraX-IO 1.0.1
Toolshed: register bundle ChimeraX-WebServices 1.1.3
Toolshed: register bundle ChimeraX-Test 1.0
Toolshed: delay_registration debug test
Toolshed: delay_registration debug exectest
Toolshed: delay_registration debug expectfail
Toolshed: register bundle ChimeraX-AmberInfo 1.0
Toolshed: register bundle ChimeraX-MCopy 1.0
Toolshed: delay_registration mcopy
Toolshed: register bundle ChimeraX-ToQuest 1.0
Toolshed: register bundle ChimeraX-RotamerLibMgr 4.0
Toolshed: register bundle ChimeraX-PresetMgr 1.1.1
Toolshed: delay_registration preset
Toolshed: register bundle ChimeraX-AtomicLibrary 14.0.3
Toolshed: register bundle ChimeraX-SchemeMgr 1.0
Toolshed: register bundle ChimeraX-Geometry 1.3
Toolshed: register bundle ChimeraX-RestServer 1.2
Toolshed: delay_registration remotecontrol rest
Toolshed: register bundle ChimeraX-Struts 1.0.1
Toolshed: delay_registration struts
Toolshed: delay_registration ~struts
Toolshed: register bundle ChimeraX-DataFormats 1.2.3
Toolshed: register bundle ChimeraX-SpaceNavigator 1.0
Toolshed: delay_registration device snav
Toolshed: register bundle ChimeraX-Dssp 2.0
Toolshed: register bundle ChimeraX-RotamerLibsDynameomics 2.0
Toolshed: register bundle ChimeraX-AtomSearch 2.0.1
Toolshed: register bundle ChimeraX-Crystal 1.0
Toolshed: register bundle ChimeraX-ConnectStructure 2.0.1
Toolshed: register bundle ChimeraX-RotamerLibsRichardson 2.0
Toolshed: register bundle ChimeraX-Shape 1.0.1
Toolshed: delay_registration shape boxPath
Toolshed: delay_registration shape cone
Toolshed: delay_registration shape cylinder
Toolshed: delay_registration shape ellipsoid
Toolshed: delay_registration shape icosahedron
Toolshed: delay_registration shape rectangle
Toolshed: delay_registration shape ribbon
Toolshed: delay_registration shape sphere
Toolshed: delay_registration shape triangle
Toolshed: delay_registration shape tube
Toolshed: register bundle ChimeraX-IMOD 1.0
Toolshed: register bundle ChimeraX-Graphics 1.1.1
Toolshed: register bundle ChimeraX-RotamerLibsDunbrack 2.0
Toolshed: register bundle ChimeraX-LookingGlass 1.1
Toolshed: delay_registration lookingglass
Toolshed: delay_registration device lookingglass
Toolshed: register bundle ChimeraX-vrml 1.0
Toolshed: register bundle ChimeraX-WebCam 1.0.2
Toolshed: delay_registration webcam
Toolshed: delay_registration device webcam
Toolshed: register bundle ChimeraX-Vive 1.1
Toolshed: delay_registration vr
Toolshed: delay_registration xr
Toolshed: delay_registration device vr
Toolshed: register bundle ChimeraX-MouseModes 1.2
Toolshed: delay_registration ui mousemode
Toolshed: delay_registration mousemode
Toolshed: register bundle ChimeraX-MapData 2.0
Toolshed: register bundle ChimeraX-EMDB-SFF 1.0
Toolshed: register bundle ChimeraX-IUPAC 1.0
Toolshed: register bundle ChimeraX-ImageFormats 1.2
Toolshed: register bundle ChimeraX-Registration 1.1.2
Toolshed: delay_registration registration status
Toolshed: delay_registration registration file
Toolshed: register bundle ChimeraX-WavefrontOBJ 1.0
Toolshed: register bundle ChimeraX-SDF 2.0.2
Toolshed: register bundle ChimeraX-RNALayout 1.0
Toolshed: delay_registration rna path
Toolshed: delay_registration rna model
Toolshed: register bundle ChimeraX-mmCIF 2.14.1
Toolshed: register bundle ChimeraX-BugReporter 1.0.1
Toolshed: register bundle ChimeraX-CageBuilder 1.0.1
Toolshed: delay_registration cage
Toolshed: register bundle ChimeraX-Modeller 1.5.15
Toolshed: delay_registration modeller comparative
Toolshed: delay_registration modeller loops
Toolshed: delay_registration modeller refine
Toolshed: delay_registration modeller scores
Toolshed: register bundle ChimeraX-CrystalContacts 1.0.1
Toolshed: delay_registration crystalcontacts
Toolshed: register bundle ChimeraX-ViewDockX 1.4.1
Toolshed: delay_registration viewdockx
Toolshed: delay_registration viewdockx down
Toolshed: delay_registration viewdockx up
Toolshed: register bundle ChimeraX-AlignmentMatrices 2.1
Toolshed: register bundle ChimeraX-Markers 1.0.1
Toolshed: delay_registration marker
Toolshed: register bundle ChimeraX-VolumeMenu 1.0.1
Toolshed: register bundle ChimeraX-Shortcuts 1.1.1
Toolshed: delay_registration ks
Toolshed: delay_registration snapshot
Toolshed: register bundle ChimeraX-Map 1.2
Toolshed: delay_registration volume
Toolshed: delay_registration molmap
Toolshed: delay_registration measure mapstats
Toolshed: delay_registration measure mapvalues
Toolshed: register bundle ChimeraX-Neuron 1.0
Toolshed: register bundle ChimeraX-HKCage 1.3
Toolshed: delay_registration hkcage
Toolshed: register bundle ChimeraX-VIPERdb 1.0
Toolshed: register bundle ChimeraX-AlignmentAlgorithms 2.0.2
Toolshed: register bundle ChimeraX-Crosslinks 1.0
Toolshed: delay_registration crosslinks
Toolshed: register bundle ChimeraX-SeqView 2.11.2
Toolshed: register bundle ChimeraX-ModelPanel 1.5
Toolshed: register bundle ChimeraX-PDBMatrices 1.0
Toolshed: register bundle ChimeraX-TapeMeasure 1.0
Toolshed: register bundle ChimeraX-Maestro 1.9.1
Toolshed: register bundle ChimeraX-ChangeChains 1.1
Toolshed: delay_registration changechains
Toolshed: register bundle ChimeraX-Dicom 1.2
Toolshed: register bundle ChimeraX-Atomic 1.57
Toolshed: delay_registration log chains
Toolshed: delay_registration combine
Toolshed: delay_registration pbond
Toolshed: delay_registration ~pbond
Toolshed: register bundle ChimeraX-Alignments 2.12.6
Toolshed: delay_registration sequence
Toolshed: register bundle ChimeraX-FunctionKey 1.0.1
Toolshed: delay_registration ui functionkey
Toolshed: delay_registration functionkey
Toolshed: register bundle ChimeraX-UnitCell 1.0.1
Toolshed: delay_registration unitcell
Toolshed: register bundle ChimeraX-Centroids 1.4
Toolshed: delay_registration define centroid
Toolshed: register bundle ChimeraX-UI 1.39
Toolshed: delay_registration ui
Toolshed: delay_registration tool
Toolshed: register bundle ChimeraX-StructMeasure 1.2.1
Toolshed: register bundle ChimeraX-ShowSequences 1.0.3
Toolshed: register bundle ChimeraX-RenumberResidues 1.1
Toolshed: delay_registration renumber
Toolshed: register bundle ChimeraX-Help 1.2.2
Toolshed: delay_registration help
Toolshed: register bundle ChimeraX-FileHistory 1.0.1
Toolshed: register bundle ChimeraX-OpenCommand 1.13.4
Toolshed: delay_registration open
Toolshed: delay_registration usage open
Toolshed: register bundle ChimeraX-MapSeries 2.1.1
Toolshed: delay_registration vseries
Toolshed: delay_registration measure motion
Toolshed: register bundle ChimeraX-Tug 1.0.1
Toolshed: delay_registration tug
Toolshed: register bundle ChimeraX-CoreFormats 1.2
Toolshed: register bundle ChimeraX-StdCommands 1.16.4
Toolshed: delay_registration alias
Toolshed: delay_registration alias list
Toolshed: delay_registration alias delete
Toolshed: delay_registration ~alias
Toolshed: delay_registration align
Toolshed: delay_registration altlocs
Toolshed: delay_registration angle
Toolshed: delay_registration camera
Toolshed: delay_registration cartoon
Toolshed: delay_registration ~cartoon
Toolshed: delay_registration cd
Toolshed: delay_registration clip
Toolshed: delay_registration ~clip
Toolshed: delay_registration close
Toolshed: delay_registration cofr
Toolshed: delay_registration ~cofr
Toolshed: delay_registration color
Toolshed: delay_registration colour
Toolshed: delay_registration color delete
Toolshed: delay_registration color list
Toolshed: delay_registration color name
Toolshed: delay_registration color show
Toolshed: delay_registration colordef
Toolshed: delay_registration ~colordef
Toolshed: delay_registration colourdef
Toolshed: delay_registration ~colourdef
Toolshed: delay_registration coordset
Toolshed: delay_registration crossfade
Toolshed: delay_registration defattr
Toolshed: delay_registration delete
Toolshed: delay_registration dssp
Toolshed: delay_registration exit
Toolshed: delay_registration quit
Toolshed: delay_registration fly
Toolshed: delay_registration getcrd
Toolshed: delay_registration graphics
Toolshed: delay_registration hide
Toolshed: delay_registration ~show
Toolshed: delay_registration ~display
Toolshed: delay_registration lighting
Toolshed: delay_registration lighting model
Toolshed: delay_registration material
Toolshed: delay_registration measure buriedarea
Toolshed: delay_registration measure center
Toolshed: delay_registration measure convexity
Toolshed: delay_registration measure correlation
Toolshed: delay_registration measure inertia
Toolshed: delay_registration measure length
Toolshed: delay_registration measure rotation
Toolshed: delay_registration measure symmetry
Toolshed: delay_registration move
Toolshed: delay_registration move cofr
Toolshed: delay_registration palette
Toolshed: delay_registration perframe
Toolshed: delay_registration ~perframe
Toolshed: delay_registration pwd
Toolshed: delay_registration rainbow
Toolshed: delay_registration rename
Toolshed: delay_registration ribbon
Toolshed: delay_registration ~ribbon
Toolshed: delay_registration rmsd
Toolshed: delay_registration rock
Toolshed: delay_registration roll
Toolshed: delay_registration runscript
Toolshed: delay_registration select
Toolshed: delay_registration ~select
Toolshed: delay_registration set
Toolshed: delay_registration ~set
Toolshed: delay_registration setattr
Toolshed: delay_registration show
Toolshed: delay_registration display
Toolshed: delay_registration size
Toolshed: delay_registration split
Toolshed: delay_registration stop
Toolshed: delay_registration style
Toolshed: delay_registration sym
Toolshed: delay_registration tile
Toolshed: delay_registration ~tile
Toolshed: delay_registration time
Toolshed: delay_registration transparency
Toolshed: delay_registration turn
Toolshed: delay_registration undo
Toolshed: delay_registration redo
Toolshed: delay_registration usage
Toolshed: delay_registration version
Toolshed: delay_registration view
Toolshed: delay_registration wait
Toolshed: delay_registration windowsize
Toolshed: delay_registration wobble
Toolshed: delay_registration worm
Toolshed: delay_registration ~worm
Toolshed: delay_registration select zone
Toolshed: delay_registration zoom
Toolshed: register bundle ChimeraX-SideView 1.0.1
Toolshed: register bundle ChimeraX-PubChem 2.2
Toolshed: register bundle ChimeraX-SwapAA 2.0.1
Toolshed: delay_registration swapaa mousemode
Toolshed: register bundle ChimeraX-Smiles 2.1.2
Toolshed: register bundle ChimeraX-TaskManager 1.0
Toolshed: delay_registration taskman
Toolshed: register bundle ChimeraX-ItemsInspection 1.0.1
Toolshed: register bundle ChimeraX-Zone 1.0.1
Toolshed: delay_registration zone
Toolshed: register bundle ChimeraX-DockPrep 1.1.3
Toolshed: delay_registration dockprep
Toolshed: register bundle ChimeraX-Segger 1.0
Toolshed: delay_registration segger
Toolshed: register bundle ChimeraX-MedicalToolbar 1.0.2
Toolshed: register bundle ChimeraX-NMRSTAR 1.0.2
Toolshed: register bundle ChimeraX-ColorKey 1.5.5
Toolshed: delay_registration key
Toolshed: delay_registration ~key
Toolshed: register bundle ChimeraX-CellPack 1.0
Toolshed: register bundle ChimeraX-Label 1.1.9
Toolshed: delay_registration 2dlabels
Toolshed: delay_registration scalebar
Toolshed: delay_registration label
Toolshed: delay_registration ~label
Toolshed: register bundle ChimeraX-Mask 1.0.2
Toolshed: delay_registration volume mask
Toolshed: delay_registration volume onesmask
Toolshed: register bundle ChimeraX-PDBLibrary 1.0.4
Toolshed: register bundle ChimeraX-CommandLine 1.2.5
Toolshed: register bundle ChimeraX-Clashes 2.2.4
Toolshed: delay_registration clashes
Toolshed: delay_registration contacts
Toolshed: delay_registration ~clashes
Toolshed: delay_registration ~contacts
Toolshed: register bundle ChimeraX-AddH 2.2.6
Toolshed: delay_registration addh
Toolshed: register bundle ChimeraX-AlignmentHdrs 3.5
Toolshed: register bundle ChimeraX-STL 1.0.1
Toolshed: register bundle ChimeraX-Surface 1.0.1
Toolshed: delay_registration color electrostatic
Toolshed: delay_registration color sample
Toolshed: delay_registration color gradient
Toolshed: delay_registration color radial
Toolshed: delay_registration color cylindrical
Toolshed: delay_registration color height
Toolshed: delay_registration color image
Toolshed: delay_registration surface
Toolshed: delay_registration ~surface
Toolshed: delay_registration surface showPatches
Toolshed: delay_registration surface hidePatches
Toolshed: delay_registration surface close
Toolshed: delay_registration surface style
Toolshed: delay_registration surface squaremesh
Toolshed: delay_registration surface showall
Toolshed: delay_registration surface cap
Toolshed: delay_registration surface dust
Toolshed: delay_registration surface undust
Toolshed: delay_registration surface invertShown
Toolshed: delay_registration surface transform
Toolshed: delay_registration surface zone
Toolshed: delay_registration surface unzone
Toolshed: delay_registration surface check
Toolshed: delay_registration surface splitbycolor
Toolshed: delay_registration sop
Toolshed: delay_registration volume splitbyzone
Toolshed: delay_registration measure sasa
Toolshed: delay_registration measure volume
Toolshed: delay_registration measure area
Toolshed: delay_registration measure contactArea
Toolshed: register bundle ChimeraX-ColorGlobe 1.0
Toolshed: register bundle ChimeraX-AddCharge 1.5.17
Toolshed: delay_registration addcharge
Toolshed: delay_registration addcharge nonstd
Toolshed: register bundle ChimeraX-ReadPbonds 1.0.1
Toolshed: register bundle ChimeraX-BILD 1.0
Toolshed: register bundle ChimeraX-Bumps 1.0
Toolshed: delay_registration bumps
Toolshed: delay_registration cbumps
Toolshed: register bundle ChimeraX-NRRD 1.1
Toolshed: register bundle ChimeraX-RenderByAttr 1.4.1
Toolshed: register bundle ChimeraX-BuildStructure 2.12.1
Toolshed: delay_registration build
Toolshed: delay_registration bond
Toolshed: delay_registration ~bond
Toolshed: delay_registration bond length
Toolshed: register bundle ChimeraX-PickBlobs 1.0.1
Toolshed: delay_registration measure blob
Toolshed: register bundle ChimeraX-MDcrds 2.7
Toolshed: register bundle ChimeraX-Mol2 2.0.3
Toolshed: register bundle ChimeraX-ColorActions 1.0.4
Toolshed: register bundle ChimeraX-Nucleotides 2.0.3
Toolshed: delay_registration nucleotides
Toolshed: delay_registration ~nucleotides
Toolshed: register bundle ChimeraX-ButtonPanel 1.0.1
Toolshed: delay_registration buttonpanel
Toolshed: register bundle ChimeraX-ResidueFit 1.0.1
Toolshed: delay_registration resfit
Toolshed: register bundle ChimeraX-SelInspector 1.0
Toolshed: register bundle ChimeraX-AlphaFold 1.0
Toolshed: delay_registration alphafold match
Toolshed: delay_registration alphafold fetch
Toolshed: delay_registration alphafold search
Toolshed: delay_registration alphafold predict
Toolshed: delay_registration alphafold pae
Toolshed: delay_registration alphafold contacts
Toolshed: delay_registration alphafold dimers
Toolshed: delay_registration alphafold monomers
Toolshed: delay_registration alphafold interfaces
Toolshed: register bundle ChimeraX-MMTF 2.2
Toolshed: register bundle ChimeraX-BlastProtein 2.4.5
Toolshed: delay_registration blastprotein
Toolshed: delay_registration blastpdb
Toolshed: delay_registration blastprotein pull
Toolshed: register bundle ChimeraX-Log 1.1.6
Toolshed: delay_registration echo
Toolshed: delay_registration log
Toolshed: register bundle ChimeraX-ChemGroup 2.0.1
Toolshed: register bundle ChimeraX-BasicActions 1.1.2
Toolshed: delay_registration name
Toolshed: delay_registration name frozen
Toolshed: delay_registration name delete
Toolshed: delay_registration name list
Toolshed: register bundle ChimeraX-MLP 1.1.1
Toolshed: delay_registration mlp
Toolshed: register bundle ChimeraX-coulombic 1.4.3
Toolshed: delay_registration coulombic
Toolshed: register bundle ChimeraX-ModelSeries 1.0.1
Toolshed: delay_registration mseries
Toolshed: register bundle ChimeraX-PDB 2.7.5
Toolshed: register bundle ChimeraX-Segmentations 1.0.4
Toolshed: delay_registration ui view
Toolshed: register bundle ChimeraX-CheckWaters 1.4
Toolshed: register bundle ChimeraX-ESMFold 1.0
Toolshed: delay_registration esmfold contacts
Toolshed: delay_registration esmfold fetch
Toolshed: delay_registration esmfold match
Toolshed: delay_registration esmfold pae
Toolshed: delay_registration esmfold predict
Toolshed: delay_registration esmfold search
Toolshed: register bundle ChimeraX-MapFit 2.0
Toolshed: delay_registration fitmap
Toolshed: register bundle ChimeraX-gltf 1.0
Toolshed: register bundle ChimeraX-MapEraser 1.0.1
Toolshed: delay_registration volume erase
Toolshed: register bundle ChimeraX-Storm 1.0
Toolshed: register bundle ChimeraX-Positions 1.0
Toolshed: register bundle ChimeraX-MapFilter 2.0.1
Toolshed: delay_registration volume add
Toolshed: delay_registration volume bin
Toolshed: delay_registration volume boxes
Toolshed: delay_registration volume copy
Toolshed: delay_registration volume cover
Toolshed: delay_registration volume falloff
Toolshed: delay_registration volume flatten
Toolshed: delay_registration volume flip
Toolshed: delay_registration volume fourier
Toolshed: delay_registration volume gaussian
Toolshed: delay_registration volume laplacian
Toolshed: delay_registration volume localCorrelation
Toolshed: delay_registration volume maximum
Toolshed: delay_registration volume minimum
Toolshed: delay_registration volume median
Toolshed: delay_registration volume morph
Toolshed: delay_registration volume multiply
Toolshed: delay_registration volume new
Toolshed: delay_registration volume octant
Toolshed: delay_registration volume ~octant
Toolshed: delay_registration volume permuteAxes
Toolshed: delay_registration volume resample
Toolshed: delay_registration volume ridges
Toolshed: delay_registration volume scale
Toolshed: delay_registration volume sharpen
Toolshed: delay_registration volume subtract
Toolshed: delay_registration volume threshold
Toolshed: delay_registration volume tile
Toolshed: delay_registration volume unbend
Toolshed: delay_registration volume unroll
Toolshed: delay_registration volume zone
Toolshed: delay_registration volume unzone
Toolshed: delay_registration vop
Toolshed: register bundle ChimeraX-DiffPlot 1.0
Toolshed: delay_registration diffplot
Toolshed: register bundle ChimeraX-Toolbar 1.1.2
Toolshed: register bundle ChimeraX-Hbonds 2.4
Toolshed: delay_registration hbonds
Toolshed: delay_registration ~hbonds
Toolshed: register bundle ChimeraX-Topography 1.0
Toolshed: delay_registration topography
Toolshed: register bundle ChimeraX-SaveCommand 1.5.1
Toolshed: delay_registration save
Toolshed: delay_registration usage save
Toolshed: register bundle ChimeraX-VTK 1.0
Toolshed: register bundle ChimeraX-IHM 1.1
Toolshed: register bundle ChimeraX-MatchMaker 2.1.3
Toolshed: delay_registration matchmaker
Toolshed: delay_registration mmaker
Toolshed: register bundle ChimeraX-PDBBio 1.0.1
Toolshed: register bundle ChimeraX-Nifti 1.1
Toolshed: register bundle ChimeraX-Meeting 1.0.1
Toolshed: delay_registration meeting start
Toolshed: delay_registration meeting join
Toolshed: delay_registration meeting
Toolshed: delay_registration meeting close
Toolshed: delay_registration meeting info
Toolshed: delay_registration meeting settings
Toolshed: delay_registration meeting server
Toolshed: delay_registration meeting unname
Toolshed: delay_registration meeting send
Toolshed: register bundle ChimeraX-Mole 1.0
Toolshed: register bundle ChimeraX-Shell 1.0.1
Toolshed: register bundle ChimeraX-Contacts 1.0.1
Toolshed: delay_registration interfaces
Toolshed: register bundle ChimeraX-SwapRes 2.5
Toolshed: delay_registration swapaa
Toolshed: delay_registration swapna
Toolshed: register bundle ChimeraX-uniprot 2.3
Toolshed: register bundle ChimeraX-BondRot 2.0.4
Toolshed: delay_registration torsion
Toolshed: register bundle ChimeraX-AltlocExplorer 1.1.1
Toolshed: register bundle ChimeraX-AxesPlanes 2.4
Toolshed: delay_registration define plane
Toolshed: delay_registration define axis
Toolshed: register bundle ChimeraX-DistMonitor 1.4.2
Toolshed: delay_registration distance
Toolshed: delay_registration ~distance
Toolshed: register bundle ChimeraX-Morph 1.0.2
Toolshed: delay_registration morph
Toolshed: Initiated toolshed check: 2024-05-07T11:12:55.327357
Toolshed: finished loading bundles
NOTE: Initializing bundles
Toolshed: initialize_bundles False
Toolshed: initialize manager rotamers for bundle 'ChimeraX-RotamerLibMgr'
Toolshed: initialize manager presets for bundle 'ChimeraX-PresetMgr'
Toolshed: initialize manager url_schemes for bundle 'ChimeraX-SchemeMgr'
Toolshed: initialize manager data formats for bundle 'ChimeraX-DataFormats'
Toolshed: skip non-autostart manager sequence features for bundle 'ChimeraX-Atomic'
Toolshed: initialize manager alignments for bundle 'ChimeraX-Alignments'
Toolshed: find_bundle ChimeraX-DataFormats True None
C:\Program Files\ChimeraX\bin\Lib\site-packages\chimerax\core\toolshed\__init__.py:669: DeprecationWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html
  from pkg_resources import parse_version
C:\Program Files\ChimeraX\bin\Lib\site-packages\pkg_resources\__init__.py:2832: DeprecationWarning: Deprecated call to `pkg_resources.declare_namespace('sphinxcontrib')`.
Implementing implicit namespace packages (as specified in PEP 420) is preferred to `pkg_resources.declare_namespace`. See https://setuptools.pypa.io/en/latest/references/keywords.html#keyword-namespace-packages
  declare_namespace(pkg)
Toolshed: initialize manager open command for bundle 'ChimeraX-OpenCommand'
Database-fetch provider 'redo' in bundle Map specified unknown data format 'MTZ'
Toolshed: initialize manager items inspection for bundle 'ChimeraX-ItemsInspection'
Toolshed: skip non-autostart manager render by attribute for bundle 'ChimeraX-RenderByAttr'
Toolshed: skip non-autostart manager start structure for bundle 'ChimeraX-BuildStructure'
Toolshed: skip non-autostart manager start structure fragments for bundle 'ChimeraX-BuildStructure'
Toolshed: initialize manager toolbar for bundle 'ChimeraX-Toolbar'
Toolshed: find_bundle ChimeraX-Toolbar True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Nucleotides True None
Toolshed: find_bundle ChimeraX-Nucleotides True None
Toolshed: find_bundle ChimeraX-Nucleotides True None
Toolshed: find_bundle ChimeraX-Nucleotides True None
Toolshed: find_bundle ChimeraX-Nucleotides True None
Toolshed: find_bundle ChimeraX-DataFormats True None
Toolshed: initialize manager save command for bundle 'ChimeraX-SaveCommand'
Toolshed: custom initialization for bundle 'ChimeraX-ToolshedUtils'
Toolshed: custom initialization for bundle 'ChimeraX-RestServer'
Toolshed: custom initialization for bundle 'ChimeraX-Vive'
Toolshed: custom initialization for bundle 'ChimeraX-MouseModes'
Toolshed: custom initialization for bundle 'ChimeraX-Registration'
Toolshed: custom initialization for bundle 'ChimeraX-BugReporter'
Toolshed: custom initialization for bundle 'ChimeraX-ViewDockX'
Toolshed: custom initialization for bundle 'ChimeraX-Markers'
Toolshed: custom initialization for bundle 'ChimeraX-VolumeMenu'
Toolshed: custom initialization for bundle 'ChimeraX-Map'
Toolshed: custom initialization for bundle 'ChimeraX-TapeMeasure'
Toolshed: custom initialization for bundle 'ChimeraX-Dicom'
Toolshed: custom initialization for bundle 'ChimeraX-Atomic'
Toolshed: custom initialization for bundle 'ChimeraX-FunctionKey'
Toolshed: custom initialization for bundle 'ChimeraX-StructMeasure'
Toolshed: custom initialization for bundle 'ChimeraX-Help'
Toolshed: custom initialization for bundle 'ChimeraX-MapSeries'
Toolshed: custom initialization for bundle 'ChimeraX-Tug'
Toolshed: custom initialization for bundle 'ChimeraX-StdCommands'
Toolshed: custom initialization for bundle 'ChimeraX-SwapAA'
Toolshed: custom initialization for bundle 'ChimeraX-Zone'
Toolshed: custom initialization for bundle 'ChimeraX-NMRSTAR'
Toolshed: custom initialization for bundle 'ChimeraX-Label'
Toolshed: custom initialization for bundle 'ChimeraX-CommandLine'
Toolshed: custom initialization for bundle 'ChimeraX-Surface'
Toolshed: custom initialization for bundle 'ChimeraX-BuildStructure'
Toolshed: custom initialization for bundle 'ChimeraX-PickBlobs'
Toolshed: custom initialization for bundle 'ChimeraX-Log'
Toolshed: custom initialization for bundle 'ChimeraX-ChemGroup'
Toolshed: custom initialization for bundle 'ChimeraX-BasicActions'
Toolshed: custom initialization for bundle 'ChimeraX-Segmentations'
Toolshed: custom initialization for bundle 'ChimeraX-MapEraser'
Toolshed: custom initialization for bundle 'ChimeraX-SwapRes'
Toolshed: custom initialization for bundle 'ChimeraX-BondRot'
Toolshed: custom initialization for bundle 'ChimeraX-DistMonitor'
NOTE: Starting main interface
Your computer has Intel graphics driver 7925 with a known bug that causes all Qt user interface panels to be blank. ChimeraX can partially fix this but may make some panel titlebars and edges black.  Hopefully newer Intel graphics drivers will fix this.
Toolshed: find_bundle ChimeraX-Toolbar True None
Toolshed: find_bundle ChimeraX-Toolbar True None
Toolshed: find_bundle ChimeraX-Toolbar True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-SelInspector True None
Toolshed: AvailableBundleCache.load: toolshed_url https://cxtoolshed.rbvi.ucsf.edu
Toolshed: AvailableBundleCache.load: url https://cxtoolshed.rbvi.ucsf.edu/bundle/?uuid=d0b35e9f-9c10-5eb4-b095-4abd4d69bfa0&format_version=2
Toolshed: find_bundle ChimeraX-Core True None
Windows fatal exception: access violation

Thread 0x000041f4 (most recent call first):
  File "C:\Program Files\ChimeraX\bin\Lib\socket.py", line 836 in create_connection
  File "C:\Program Files\ChimeraX\bin\Lib\http\client.py", line 945 in connect
  File "C:\Program Files\ChimeraX\bin\Lib\http\client.py", line 1451 in connect
  File "C:\Program Files\ChimeraX\bin\Lib\http\client.py", line 979 in send
  File "C:\Program Files\ChimeraX\bin\Lib\http\client.py", line 1041 in _send_output
  File "C:\Program Files\ChimeraX\bin\Lib\http\client.py", line 1281 in endheaders
  File "C:\Program Files\ChimeraX\bin\Lib\http\client.py", line 1332 in _send_request
  File "C:\Program Files\ChimeraX\bin\Lib\http\client.py", line 1286 in request
  File "C:\Program Files\ChimeraX\bin\Lib\urllib\request.py", line 1348 in do_open
  File "C:\Program Files\ChimeraX\bin\Lib\urllib\request.py", line 1391 in https_open
  File "C:\Program Files\ChimeraX\bin\Lib\urllib\request.py", line 496 in _call_chain
  File "C:\Program Files\ChimeraX\bin\Lib\urllib\request.py", line 536 in _open
  File "C:\Program Files\ChimeraX\bin\Lib\urllib\request.py", line 519 in open
  File "C:\Program Files\ChimeraX\bin\Lib\urllib\request.py", line 216 in urlopen
  File "C:\Program Files\ChimeraX\bin\Lib\site-packages\chimerax\core\toolshed\available.py", line 62 in load
  File "C:\Program Files\ChimeraX\bin\Lib\site-packages\chimerax\core\toolshed\__init__.py", line 467 in reload_available
  File "C:\Program Files\ChimeraX\bin\Lib\threading.py", line 975 in run
  File "C:\Program Files\ChimeraX\bin\Lib\threading.py", line 1038 in _bootstrap_inner
  File "C:\Program Files\ChimeraX\bin\Lib\threading.py", line 995 in _bootstrap

Current thread 0x000034c4 (most recent call first):
  File "C:\Program Files\ChimeraX\bin\Lib\site-packages\chimerax\ui\gui.py", line 285 in event_loop
  File "C:\Program Files\ChimeraX\bin\Lib\site-packages\chimerax\core\__main__.py", line 1006 in init
  File "C:\Program Files\ChimeraX\bin\Lib\site-packages\chimerax\core\__main__.py", line 1169 in <module>
  File "<frozen runpy>", line 88 in _run_code
  File "<frozen runpy>", line 198 in _run_module_as_main

C:\Users\Tennstedt>"C:\Program Files\ChimeraX\bin\ChimeraX-console.exe" --debug > C:\Users\Tennstedt\Desktop\Debug_CimeraX_V01.txt
Toolshed: __init__ False False None
Toolshed: cache dir: C:\Users\Tennstedt\AppData\Local\UCSF\ChimeraX\Cache\1.8\toolshed
Toolshed: site dir: C:\Users\Tennstedt\AppData\Local\UCSF\ChimeraX\1.8\Python311\site-packages
Toolshed: loading bundles
Toolshed: reload False False
Toolshed: _bundle_cache False
Toolshed: InstalledBundleCache.load: rebuild_cache False
Toolshed: InstalledBundleCache._read_cache: C:\Users\Tennstedt\AppData\Local\UCSF\ChimeraX\Cache\1.8\toolshed\bundle_info.cache
Toolshed: _is_cache_newer
Toolshed: InstalledBundleCache._read_cache: 163 bundles
Toolshed: InstalledBundleCache.load: using cached data
Toolshed: register bundle ChimeraX-Arrays 1.1
Toolshed: register bundle ChimeraX-ToolshedUtils 1.2.4
Toolshed: register bundle ChimeraX-Core 1.8.dev202405040553
Toolshed: register bundle ChimeraX-RemoteControl 1.0
Toolshed: delay_registration remotecontrol xmlrpc
Toolshed: register bundle ChimeraX-SmoothLines 1.0
Toolshed: delay_registration smoothlines
Toolshed: register bundle ChimeraX-ListInfo 1.2.2
Toolshed: delay_registration info
Toolshed: register bundle ChimeraX-Segment 1.0.1
Toolshed: delay_registration segmentation
Toolshed: register bundle ChimeraX-Movie 1.0
Toolshed: delay_registration movie
Toolshed: register bundle ChimeraX-IO 1.0.1
Toolshed: register bundle ChimeraX-WebServices 1.1.3
Toolshed: register bundle ChimeraX-Test 1.0
Toolshed: delay_registration debug test
Toolshed: delay_registration debug exectest
Toolshed: delay_registration debug expectfail
Toolshed: register bundle ChimeraX-AmberInfo 1.0
Toolshed: register bundle ChimeraX-MCopy 1.0
Toolshed: delay_registration mcopy
Toolshed: register bundle ChimeraX-ToQuest 1.0
Toolshed: register bundle ChimeraX-RotamerLibMgr 4.0
Toolshed: register bundle ChimeraX-PresetMgr 1.1.1
Toolshed: delay_registration preset
Toolshed: register bundle ChimeraX-AtomicLibrary 14.0.3
Toolshed: register bundle ChimeraX-SchemeMgr 1.0
Toolshed: register bundle ChimeraX-Geometry 1.3
Toolshed: register bundle ChimeraX-RestServer 1.2
Toolshed: delay_registration remotecontrol rest
Toolshed: register bundle ChimeraX-Struts 1.0.1
Toolshed: delay_registration struts
Toolshed: delay_registration ~struts
Toolshed: register bundle ChimeraX-DataFormats 1.2.3
Toolshed: register bundle ChimeraX-SpaceNavigator 1.0
Toolshed: delay_registration device snav
Toolshed: register bundle ChimeraX-Dssp 2.0
Toolshed: register bundle ChimeraX-RotamerLibsDynameomics 2.0
Toolshed: register bundle ChimeraX-AtomSearch 2.0.1
Toolshed: register bundle ChimeraX-Crystal 1.0
Toolshed: register bundle ChimeraX-ConnectStructure 2.0.1
Toolshed: register bundle ChimeraX-RotamerLibsRichardson 2.0
Toolshed: register bundle ChimeraX-Shape 1.0.1
Toolshed: delay_registration shape boxPath
Toolshed: delay_registration shape cone
Toolshed: delay_registration shape cylinder
Toolshed: delay_registration shape ellipsoid
Toolshed: delay_registration shape icosahedron
Toolshed: delay_registration shape rectangle
Toolshed: delay_registration shape ribbon
Toolshed: delay_registration shape sphere
Toolshed: delay_registration shape triangle
Toolshed: delay_registration shape tube
Toolshed: register bundle ChimeraX-IMOD 1.0
Toolshed: register bundle ChimeraX-Graphics 1.1.1
Toolshed: register bundle ChimeraX-RotamerLibsDunbrack 2.0
Toolshed: register bundle ChimeraX-LookingGlass 1.1
Toolshed: delay_registration lookingglass
Toolshed: delay_registration device lookingglass
Toolshed: register bundle ChimeraX-vrml 1.0
Toolshed: register bundle ChimeraX-WebCam 1.0.2
Toolshed: delay_registration webcam
Toolshed: delay_registration device webcam
Toolshed: register bundle ChimeraX-Vive 1.1
Toolshed: delay_registration vr
Toolshed: delay_registration xr
Toolshed: delay_registration device vr
Toolshed: register bundle ChimeraX-MouseModes 1.2
Toolshed: delay_registration ui mousemode
Toolshed: delay_registration mousemode
Toolshed: register bundle ChimeraX-MapData 2.0
Toolshed: register bundle ChimeraX-EMDB-SFF 1.0
Toolshed: register bundle ChimeraX-IUPAC 1.0
Toolshed: register bundle ChimeraX-ImageFormats 1.2
Toolshed: register bundle ChimeraX-Registration 1.1.2
Toolshed: delay_registration registration status
Toolshed: delay_registration registration file
Toolshed: register bundle ChimeraX-WavefrontOBJ 1.0
Toolshed: register bundle ChimeraX-SDF 2.0.2
Toolshed: register bundle ChimeraX-RNALayout 1.0
Toolshed: delay_registration rna path
Toolshed: delay_registration rna model
Toolshed: register bundle ChimeraX-mmCIF 2.14.1
Toolshed: register bundle ChimeraX-BugReporter 1.0.1
Toolshed: register bundle ChimeraX-CageBuilder 1.0.1
Toolshed: delay_registration cage
Toolshed: register bundle ChimeraX-Modeller 1.5.15
Toolshed: delay_registration modeller comparative
Toolshed: delay_registration modeller loops
Toolshed: delay_registration modeller refine
Toolshed: delay_registration modeller scores
Toolshed: register bundle ChimeraX-CrystalContacts 1.0.1
Toolshed: delay_registration crystalcontacts
Toolshed: register bundle ChimeraX-ViewDockX 1.4.1
Toolshed: delay_registration viewdockx
Toolshed: delay_registration viewdockx down
Toolshed: delay_registration viewdockx up
Toolshed: register bundle ChimeraX-AlignmentMatrices 2.1
Toolshed: register bundle ChimeraX-Markers 1.0.1
Toolshed: delay_registration marker
Toolshed: register bundle ChimeraX-VolumeMenu 1.0.1
Toolshed: register bundle ChimeraX-Shortcuts 1.1.1
Toolshed: delay_registration ks
Toolshed: delay_registration snapshot
Toolshed: register bundle ChimeraX-Map 1.2
Toolshed: delay_registration volume
Toolshed: delay_registration molmap
Toolshed: delay_registration measure mapstats
Toolshed: delay_registration measure mapvalues
Toolshed: register bundle ChimeraX-Neuron 1.0
Toolshed: register bundle ChimeraX-HKCage 1.3
Toolshed: delay_registration hkcage
Toolshed: register bundle ChimeraX-VIPERdb 1.0
Toolshed: register bundle ChimeraX-AlignmentAlgorithms 2.0.2
Toolshed: register bundle ChimeraX-Crosslinks 1.0
Toolshed: delay_registration crosslinks
Toolshed: register bundle ChimeraX-SeqView 2.11.2
Toolshed: register bundle ChimeraX-ModelPanel 1.5
Toolshed: register bundle ChimeraX-PDBMatrices 1.0
Toolshed: register bundle ChimeraX-TapeMeasure 1.0
Toolshed: register bundle ChimeraX-Maestro 1.9.1
Toolshed: register bundle ChimeraX-ChangeChains 1.1
Toolshed: delay_registration changechains
Toolshed: register bundle ChimeraX-Dicom 1.2
Toolshed: register bundle ChimeraX-Atomic 1.57
Toolshed: delay_registration log chains
Toolshed: delay_registration combine
Toolshed: delay_registration pbond
Toolshed: delay_registration ~pbond
Toolshed: register bundle ChimeraX-Alignments 2.12.6
Toolshed: delay_registration sequence
Toolshed: register bundle ChimeraX-FunctionKey 1.0.1
Toolshed: delay_registration ui functionkey
Toolshed: delay_registration functionkey
Toolshed: register bundle ChimeraX-UnitCell 1.0.1
Toolshed: delay_registration unitcell
Toolshed: register bundle ChimeraX-Centroids 1.4
Toolshed: delay_registration define centroid
Toolshed: register bundle ChimeraX-UI 1.39
Toolshed: delay_registration ui
Toolshed: delay_registration tool
Toolshed: register bundle ChimeraX-StructMeasure 1.2.1
Toolshed: register bundle ChimeraX-ShowSequences 1.0.3
Toolshed: register bundle ChimeraX-RenumberResidues 1.1
Toolshed: delay_registration renumber
Toolshed: register bundle ChimeraX-Help 1.2.2
Toolshed: delay_registration help
Toolshed: register bundle ChimeraX-FileHistory 1.0.1
Toolshed: register bundle ChimeraX-OpenCommand 1.13.4
Toolshed: delay_registration open
Toolshed: delay_registration usage open
Toolshed: register bundle ChimeraX-MapSeries 2.1.1
Toolshed: delay_registration vseries
Toolshed: delay_registration measure motion
Toolshed: register bundle ChimeraX-Tug 1.0.1
Toolshed: delay_registration tug
Toolshed: register bundle ChimeraX-CoreFormats 1.2
Toolshed: register bundle ChimeraX-StdCommands 1.16.4
Toolshed: delay_registration alias
Toolshed: delay_registration alias list
Toolshed: delay_registration alias delete
Toolshed: delay_registration ~alias
Toolshed: delay_registration align
Toolshed: delay_registration altlocs
Toolshed: delay_registration angle
Toolshed: delay_registration camera
Toolshed: delay_registration cartoon
Toolshed: delay_registration ~cartoon
Toolshed: delay_registration cd
Toolshed: delay_registration clip
Toolshed: delay_registration ~clip
Toolshed: delay_registration close
Toolshed: delay_registration cofr
Toolshed: delay_registration ~cofr
Toolshed: delay_registration color
Toolshed: delay_registration colour
Toolshed: delay_registration color delete
Toolshed: delay_registration color list
Toolshed: delay_registration color name
Toolshed: delay_registration color show
Toolshed: delay_registration colordef
Toolshed: delay_registration ~colordef
Toolshed: delay_registration colourdef
Toolshed: delay_registration ~colourdef
Toolshed: delay_registration coordset
Toolshed: delay_registration crossfade
Toolshed: delay_registration defattr
Toolshed: delay_registration delete
Toolshed: delay_registration dssp
Toolshed: delay_registration exit
Toolshed: delay_registration quit
Toolshed: delay_registration fly
Toolshed: delay_registration getcrd
Toolshed: delay_registration graphics
Toolshed: delay_registration hide
Toolshed: delay_registration ~show
Toolshed: delay_registration ~display
Toolshed: delay_registration lighting
Toolshed: delay_registration lighting model
Toolshed: delay_registration material
Toolshed: delay_registration measure buriedarea
Toolshed: delay_registration measure center
Toolshed: delay_registration measure convexity
Toolshed: delay_registration measure correlation
Toolshed: delay_registration measure inertia
Toolshed: delay_registration measure length
Toolshed: delay_registration measure rotation
Toolshed: delay_registration measure symmetry
Toolshed: delay_registration move
Toolshed: delay_registration move cofr
Toolshed: delay_registration palette
Toolshed: delay_registration perframe
Toolshed: delay_registration ~perframe
Toolshed: delay_registration pwd
Toolshed: delay_registration rainbow
Toolshed: delay_registration rename
Toolshed: delay_registration ribbon
Toolshed: delay_registration ~ribbon
Toolshed: delay_registration rmsd
Toolshed: delay_registration rock
Toolshed: delay_registration roll
Toolshed: delay_registration runscript
Toolshed: delay_registration select
Toolshed: delay_registration ~select
Toolshed: delay_registration set
Toolshed: delay_registration ~set
Toolshed: delay_registration setattr
Toolshed: delay_registration show
Toolshed: delay_registration display
Toolshed: delay_registration size
Toolshed: delay_registration split
Toolshed: delay_registration stop
Toolshed: delay_registration style
Toolshed: delay_registration sym
Toolshed: delay_registration tile
Toolshed: delay_registration ~tile
Toolshed: delay_registration time
Toolshed: delay_registration transparency
Toolshed: delay_registration turn
Toolshed: delay_registration undo
Toolshed: delay_registration redo
Toolshed: delay_registration usage
Toolshed: delay_registration version
Toolshed: delay_registration view
Toolshed: delay_registration wait
Toolshed: delay_registration windowsize
Toolshed: delay_registration wobble
Toolshed: delay_registration worm
Toolshed: delay_registration ~worm
Toolshed: delay_registration select zone
Toolshed: delay_registration zoom
Toolshed: register bundle ChimeraX-SideView 1.0.1
Toolshed: register bundle ChimeraX-PubChem 2.2
Toolshed: register bundle ChimeraX-SwapAA 2.0.1
Toolshed: delay_registration swapaa mousemode
Toolshed: register bundle ChimeraX-Smiles 2.1.2
Toolshed: register bundle ChimeraX-TaskManager 1.0
Toolshed: delay_registration taskman
Toolshed: register bundle ChimeraX-ItemsInspection 1.0.1
Toolshed: register bundle ChimeraX-Zone 1.0.1
Toolshed: delay_registration zone
Toolshed: register bundle ChimeraX-DockPrep 1.1.3
Toolshed: delay_registration dockprep
Toolshed: register bundle ChimeraX-Segger 1.0
Toolshed: delay_registration segger
Toolshed: register bundle ChimeraX-MedicalToolbar 1.0.2
Toolshed: register bundle ChimeraX-NMRSTAR 1.0.2
Toolshed: register bundle ChimeraX-ColorKey 1.5.5
Toolshed: delay_registration key
Toolshed: delay_registration ~key
Toolshed: register bundle ChimeraX-CellPack 1.0
Toolshed: register bundle ChimeraX-Label 1.1.9
Toolshed: delay_registration 2dlabels
Toolshed: delay_registration scalebar
Toolshed: delay_registration label
Toolshed: delay_registration ~label
Toolshed: register bundle ChimeraX-Mask 1.0.2
Toolshed: delay_registration volume mask
Toolshed: delay_registration volume onesmask
Toolshed: register bundle ChimeraX-PDBLibrary 1.0.4
Toolshed: register bundle ChimeraX-CommandLine 1.2.5
Toolshed: register bundle ChimeraX-Clashes 2.2.4
Toolshed: delay_registration clashes
Toolshed: delay_registration contacts
Toolshed: delay_registration ~clashes
Toolshed: delay_registration ~contacts
Toolshed: register bundle ChimeraX-AddH 2.2.6
Toolshed: delay_registration addh
Toolshed: register bundle ChimeraX-AlignmentHdrs 3.5
Toolshed: register bundle ChimeraX-STL 1.0.1
Toolshed: register bundle ChimeraX-Surface 1.0.1
Toolshed: delay_registration color electrostatic
Toolshed: delay_registration color sample
Toolshed: delay_registration color gradient
Toolshed: delay_registration color radial
Toolshed: delay_registration color cylindrical
Toolshed: delay_registration color height
Toolshed: delay_registration color image
Toolshed: delay_registration surface
Toolshed: delay_registration ~surface
Toolshed: delay_registration surface showPatches
Toolshed: delay_registration surface hidePatches
Toolshed: delay_registration surface close
Toolshed: delay_registration surface style
Toolshed: delay_registration surface squaremesh
Toolshed: delay_registration surface showall
Toolshed: delay_registration surface cap
Toolshed: delay_registration surface dust
Toolshed: delay_registration surface undust
Toolshed: delay_registration surface invertShown
Toolshed: delay_registration surface transform
Toolshed: delay_registration surface zone
Toolshed: delay_registration surface unzone
Toolshed: delay_registration surface check
Toolshed: delay_registration surface splitbycolor
Toolshed: delay_registration sop
Toolshed: delay_registration volume splitbyzone
Toolshed: delay_registration measure sasa
Toolshed: delay_registration measure volume
Toolshed: delay_registration measure area
Toolshed: delay_registration measure contactArea
Toolshed: register bundle ChimeraX-ColorGlobe 1.0
Toolshed: register bundle ChimeraX-AddCharge 1.5.17
Toolshed: delay_registration addcharge
Toolshed: delay_registration addcharge nonstd
Toolshed: register bundle ChimeraX-ReadPbonds 1.0.1
Toolshed: register bundle ChimeraX-BILD 1.0
Toolshed: register bundle ChimeraX-Bumps 1.0
Toolshed: delay_registration bumps
Toolshed: delay_registration cbumps
Toolshed: register bundle ChimeraX-NRRD 1.1
Toolshed: register bundle ChimeraX-RenderByAttr 1.4.1
Toolshed: register bundle ChimeraX-BuildStructure 2.12.1
Toolshed: delay_registration build
Toolshed: delay_registration bond
Toolshed: delay_registration ~bond
Toolshed: delay_registration bond length
Toolshed: register bundle ChimeraX-PickBlobs 1.0.1
Toolshed: delay_registration measure blob
Toolshed: register bundle ChimeraX-MDcrds 2.7
Toolshed: register bundle ChimeraX-Mol2 2.0.3
Toolshed: register bundle ChimeraX-ColorActions 1.0.4
Toolshed: register bundle ChimeraX-Nucleotides 2.0.3
Toolshed: delay_registration nucleotides
Toolshed: delay_registration ~nucleotides
Toolshed: register bundle ChimeraX-ButtonPanel 1.0.1
Toolshed: delay_registration buttonpanel
Toolshed: register bundle ChimeraX-ResidueFit 1.0.1
Toolshed: delay_registration resfit
Toolshed: register bundle ChimeraX-SelInspector 1.0
Toolshed: register bundle ChimeraX-AlphaFold 1.0
Toolshed: delay_registration alphafold match
Toolshed: delay_registration alphafold fetch
Toolshed: delay_registration alphafold search
Toolshed: delay_registration alphafold predict
Toolshed: delay_registration alphafold pae
Toolshed: delay_registration alphafold contacts
Toolshed: delay_registration alphafold dimers
Toolshed: delay_registration alphafold monomers
Toolshed: delay_registration alphafold interfaces
Toolshed: register bundle ChimeraX-MMTF 2.2
Toolshed: register bundle ChimeraX-BlastProtein 2.4.5
Toolshed: delay_registration blastprotein
Toolshed: delay_registration blastpdb
Toolshed: delay_registration blastprotein pull
Toolshed: register bundle ChimeraX-Log 1.1.6
Toolshed: delay_registration echo
Toolshed: delay_registration log
Toolshed: register bundle ChimeraX-ChemGroup 2.0.1
Toolshed: register bundle ChimeraX-BasicActions 1.1.2
Toolshed: delay_registration name
Toolshed: delay_registration name frozen
Toolshed: delay_registration name delete
Toolshed: delay_registration name list
Toolshed: register bundle ChimeraX-MLP 1.1.1
Toolshed: delay_registration mlp
Toolshed: register bundle ChimeraX-coulombic 1.4.3
Toolshed: delay_registration coulombic
Toolshed: register bundle ChimeraX-ModelSeries 1.0.1
Toolshed: delay_registration mseries
Toolshed: register bundle ChimeraX-PDB 2.7.5
Toolshed: register bundle ChimeraX-Segmentations 1.0.4
Toolshed: delay_registration ui view
Toolshed: register bundle ChimeraX-CheckWaters 1.4
Toolshed: register bundle ChimeraX-ESMFold 1.0
Toolshed: delay_registration esmfold contacts
Toolshed: delay_registration esmfold fetch
Toolshed: delay_registration esmfold match
Toolshed: delay_registration esmfold pae
Toolshed: delay_registration esmfold predict
Toolshed: delay_registration esmfold search
Toolshed: register bundle ChimeraX-MapFit 2.0
Toolshed: delay_registration fitmap
Toolshed: register bundle ChimeraX-gltf 1.0
Toolshed: register bundle ChimeraX-MapEraser 1.0.1
Toolshed: delay_registration volume erase
Toolshed: register bundle ChimeraX-Storm 1.0
Toolshed: register bundle ChimeraX-Positions 1.0
Toolshed: register bundle ChimeraX-MapFilter 2.0.1
Toolshed: delay_registration volume add
Toolshed: delay_registration volume bin
Toolshed: delay_registration volume boxes
Toolshed: delay_registration volume copy
Toolshed: delay_registration volume cover
Toolshed: delay_registration volume falloff
Toolshed: delay_registration volume flatten
Toolshed: delay_registration volume flip
Toolshed: delay_registration volume fourier
Toolshed: delay_registration volume gaussian
Toolshed: delay_registration volume laplacian
Toolshed: delay_registration volume localCorrelation
Toolshed: delay_registration volume maximum
Toolshed: delay_registration volume minimum
Toolshed: delay_registration volume median
Toolshed: delay_registration volume morph
Toolshed: delay_registration volume multiply
Toolshed: delay_registration volume new
Toolshed: delay_registration volume octant
Toolshed: delay_registration volume ~octant
Toolshed: delay_registration volume permuteAxes
Toolshed: delay_registration volume resample
Toolshed: delay_registration volume ridges
Toolshed: delay_registration volume scale
Toolshed: delay_registration volume sharpen
Toolshed: delay_registration volume subtract
Toolshed: delay_registration volume threshold
Toolshed: delay_registration volume tile
Toolshed: delay_registration volume unbend
Toolshed: delay_registration volume unroll
Toolshed: delay_registration volume zone
Toolshed: delay_registration volume unzone
Toolshed: delay_registration vop
Toolshed: register bundle ChimeraX-DiffPlot 1.0
Toolshed: delay_registration diffplot
Toolshed: register bundle ChimeraX-Toolbar 1.1.2
Toolshed: register bundle ChimeraX-Hbonds 2.4
Toolshed: delay_registration hbonds
Toolshed: delay_registration ~hbonds
Toolshed: register bundle ChimeraX-Topography 1.0
Toolshed: delay_registration topography
Toolshed: register bundle ChimeraX-SaveCommand 1.5.1
Toolshed: delay_registration save
Toolshed: delay_registration usage save
Toolshed: register bundle ChimeraX-VTK 1.0
Toolshed: register bundle ChimeraX-IHM 1.1
Toolshed: register bundle ChimeraX-MatchMaker 2.1.3
Toolshed: delay_registration matchmaker
Toolshed: delay_registration mmaker
Toolshed: register bundle ChimeraX-PDBBio 1.0.1
Toolshed: register bundle ChimeraX-Nifti 1.1
Toolshed: register bundle ChimeraX-Meeting 1.0.1
Toolshed: delay_registration meeting start
Toolshed: delay_registration meeting join
Toolshed: delay_registration meeting
Toolshed: delay_registration meeting close
Toolshed: delay_registration meeting info
Toolshed: delay_registration meeting settings
Toolshed: delay_registration meeting server
Toolshed: delay_registration meeting unname
Toolshed: delay_registration meeting send
Toolshed: register bundle ChimeraX-Mole 1.0
Toolshed: register bundle ChimeraX-Shell 1.0.1
Toolshed: register bundle ChimeraX-Contacts 1.0.1
Toolshed: delay_registration interfaces
Toolshed: register bundle ChimeraX-SwapRes 2.5
Toolshed: delay_registration swapaa
Toolshed: delay_registration swapna
Toolshed: register bundle ChimeraX-uniprot 2.3
Toolshed: register bundle ChimeraX-BondRot 2.0.4
Toolshed: delay_registration torsion
Toolshed: register bundle ChimeraX-AltlocExplorer 1.1.1
Toolshed: register bundle ChimeraX-AxesPlanes 2.4
Toolshed: delay_registration define plane
Toolshed: delay_registration define axis
Toolshed: register bundle ChimeraX-DistMonitor 1.4.2
Toolshed: delay_registration distance
Toolshed: delay_registration ~distance
Toolshed: register bundle ChimeraX-Morph 1.0.2
Toolshed: delay_registration morph
Toolshed: Initiated toolshed check: 2024-05-07T11:18:10.468129
Toolshed: finished loading bundles
Toolshed: initialize_bundles False
Toolshed: initialize manager rotamers for bundle 'ChimeraX-RotamerLibMgr'
Toolshed: initialize manager presets for bundle 'ChimeraX-PresetMgr'
Toolshed: initialize manager url_schemes for bundle 'ChimeraX-SchemeMgr'
Toolshed: initialize manager data formats for bundle 'ChimeraX-DataFormats'
Toolshed: skip non-autostart manager sequence features for bundle 'ChimeraX-Atomic'
Toolshed: initialize manager alignments for bundle 'ChimeraX-Alignments'
Toolshed: find_bundle ChimeraX-DataFormats True None
Toolshed: initialize manager open command for bundle 'ChimeraX-OpenCommand'
Toolshed: initialize manager items inspection for bundle 'ChimeraX-ItemsInspection'
Toolshed: skip non-autostart manager render by attribute for bundle 'ChimeraX-RenderByAttr'
Toolshed: skip non-autostart manager start structure for bundle 'ChimeraX-BuildStructure'
Toolshed: skip non-autostart manager start structure fragments for bundle 'ChimeraX-BuildStructure'
Toolshed: initialize manager toolbar for bundle 'ChimeraX-Toolbar'
Toolshed: find_bundle ChimeraX-Toolbar True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Nucleotides True None
Toolshed: find_bundle ChimeraX-Nucleotides True None
Toolshed: find_bundle ChimeraX-Nucleotides True None
Toolshed: find_bundle ChimeraX-Nucleotides True None
Toolshed: find_bundle ChimeraX-Nucleotides True None
Toolshed: find_bundle ChimeraX-DataFormats True None
Toolshed: initialize manager save command for bundle 'ChimeraX-SaveCommand'
Toolshed: custom initialization for bundle 'ChimeraX-ToolshedUtils'
Toolshed: custom initialization for bundle 'ChimeraX-RestServer'
Toolshed: custom initialization for bundle 'ChimeraX-Vive'
Toolshed: custom initialization for bundle 'ChimeraX-MouseModes'
Toolshed: custom initialization for bundle 'ChimeraX-Registration'
Toolshed: custom initialization for bundle 'ChimeraX-BugReporter'
Toolshed: custom initialization for bundle 'ChimeraX-ViewDockX'
Toolshed: custom initialization for bundle 'ChimeraX-Markers'
Toolshed: custom initialization for bundle 'ChimeraX-VolumeMenu'
Toolshed: custom initialization for bundle 'ChimeraX-Map'
Toolshed: custom initialization for bundle 'ChimeraX-TapeMeasure'
Toolshed: custom initialization for bundle 'ChimeraX-Dicom'
Toolshed: custom initialization for bundle 'ChimeraX-Atomic'
Toolshed: custom initialization for bundle 'ChimeraX-FunctionKey'
Toolshed: custom initialization for bundle 'ChimeraX-StructMeasure'
Toolshed: custom initialization for bundle 'ChimeraX-Help'
Toolshed: custom initialization for bundle 'ChimeraX-MapSeries'
Toolshed: custom initialization for bundle 'ChimeraX-Tug'
Toolshed: custom initialization for bundle 'ChimeraX-StdCommands'
Toolshed: custom initialization for bundle 'ChimeraX-SwapAA'
Toolshed: custom initialization for bundle 'ChimeraX-Zone'
Toolshed: custom initialization for bundle 'ChimeraX-NMRSTAR'
Toolshed: custom initialization for bundle 'ChimeraX-Label'
Toolshed: custom initialization for bundle 'ChimeraX-CommandLine'
Toolshed: custom initialization for bundle 'ChimeraX-Surface'
Toolshed: custom initialization for bundle 'ChimeraX-BuildStructure'
Toolshed: custom initialization for bundle 'ChimeraX-PickBlobs'
Toolshed: custom initialization for bundle 'ChimeraX-Log'
Toolshed: custom initialization for bundle 'ChimeraX-ChemGroup'
Toolshed: custom initialization for bundle 'ChimeraX-BasicActions'
Toolshed: custom initialization for bundle 'ChimeraX-Segmentations'
Toolshed: custom initialization for bundle 'ChimeraX-MapEraser'
Toolshed: custom initialization for bundle 'ChimeraX-SwapRes'
Toolshed: custom initialization for bundle 'ChimeraX-BondRot'
Toolshed: custom initialization for bundle 'ChimeraX-DistMonitor'
Your computer has Intel graphics driver 7925 with a known bug that causes all Qt user interface panels to be blank. ChimeraX can partially fix this but may make some panel titlebars and edges black.  Hopefully newer Intel graphics drivers will fix this.
Toolshed: find_bundle ChimeraX-Toolbar True None
Toolshed: find_bundle ChimeraX-Toolbar True None
Toolshed: find_bundle ChimeraX-Toolbar True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-Shortcuts True None
Toolshed: find_bundle ChimeraX-SelInspector True None
Toolshed: AvailableBundleCache.load: toolshed_url https://cxtoolshed.rbvi.ucsf.edu
Toolshed: AvailableBundleCache.load: url https://cxtoolshed.rbvi.ucsf.edu/bundle/?uuid=d0b35e9f-9c10-5eb4-b095-4abd4d69bfa0&format_version=2
Toolshed: find_bundle ChimeraX-Core True None
Windows fatal exception: access violation

Thread 0x00001f24 (most recent call first):
  File "C:\Program Files\ChimeraX\bin\Lib\socket.py", line 836 in create_connection
  File "C:\Program Files\ChimeraX\bin\Lib\http\client.py", line 945 in connect
  File "C:\Program Files\ChimeraX\bin\Lib\http\client.py", line 1451 in connect
  File "C:\Program Files\ChimeraX\bin\Lib\http\client.py", line 979 in send
  File "C:\Program Files\ChimeraX\bin\Lib\http\client.py", line 1041 in _send_output
  File "C:\Program Files\ChimeraX\bin\Lib\http\client.py", line 1281 in endheaders
  File "C:\Program Files\ChimeraX\bin\Lib\http\client.py", line 1332 in _send_request
  File "C:\Program Files\ChimeraX\bin\Lib\http\client.py", line 1286 in request
  File "C:\Program Files\ChimeraX\bin\Lib\urllib\request.py", line 1348 in do_open
  File "C:\Program Files\ChimeraX\bin\Lib\urllib\request.py", line 1391 in https_open
  File "C:\Program Files\ChimeraX\bin\Lib\urllib\request.py", line 496 in _call_chain
  File "C:\Program Files\ChimeraX\bin\Lib\urllib\request.py", line 536 in _open
  File "C:\Program Files\ChimeraX\bin\Lib\urllib\request.py", line 519 in open
  File "C:\Program Files\ChimeraX\bin\Lib\urllib\request.py", line 216 in urlopen
  File "C:\Program Files\ChimeraX\bin\Lib\site-packages\chimerax\core\toolshed\available.py", line 62 in load
  File "C:\Program Files\ChimeraX\bin\Lib\site-packages\chimerax\core\toolshed\__init__.py", line 467 in reload_available
  File "C:\Program Files\ChimeraX\bin\Lib\threading.py", line 975 in run
  File "C:\Program Files\ChimeraX\bin\Lib\threading.py", line 1038 in _bootstrap_inner
  File "C:\Program Files\ChimeraX\bin\Lib\threading.py", line 995 in _bootstrap

Current thread 0x000048b4 (most recent call first):
  File "C:\Program Files\ChimeraX\bin\Lib\site-packages\chimerax\ui\gui.py", line 285 in event_loop
  File "C:\Program Files\ChimeraX\bin\Lib\site-packages\chimerax\core\__main__.py", line 1006 in init
  File "C:\Program Files\ChimeraX\bin\Lib\site-packages\chimerax\core\__main__.py", line 1169 in <module>
  File "<frozen runpy>", line 88 in _run_code
  File "<frozen runpy>", line 198 in _run_module_as_main

C:\Users\Tennstedt>"C:\Program Files\ChimeraX\bin\ChimeraX-console.exe" --debug > C:\Users\Tennstedt\Desktop\Debug_CimeraX_V01.txt