![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 14 months ago
Closed 14 months ago
#15894 closed defect (duplicate)
Crash on Mac waking from sleep
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Window Toolkit | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description (last modified by )
The following bug report has been submitted:
Platform: macOS-14.6.1-x86_64-i386-64bit
ChimeraX Version: 1.8 (2024-06-10 23:15:52 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault
Current thread 0x00007ff84bff7dc0 (most recent call first):
File "/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 315 in event_loop
File "/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1003 in init
File "/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1166 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, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.map._map, charset_normalizer.md, PIL._imaging, matplotlib._c_internal_utils, matplotlib._path, kiwisolver._cext, matplotlib._image, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.surface._surface, chimerax.pdb_lib._load_libs, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, lz4._version, lz4.frame._frame, msgpack._cmsgpack, chimerax.core._serialize, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, chimerax.pdb._pdbio, psutil._psutil_osx, psutil._psutil_posix, lxml._elementpath, lxml.etree, scipy._lib._ccallback_c, scipy.linalg._fblas, scipy.linalg._flapack, scipy.linalg.cython_lapack, scipy.linalg._cythonized_array_utils, scipy.linalg._solve_toeplitz, scipy.linalg._decomp_lu_cython, scipy.linalg._matfuncs_sqrtm_triu, scipy.linalg.cython_blas, scipy.linalg._matfuncs_expm, scipy.linalg._decomp_update, scipy.sparse._sparsetools, _csparsetools, scipy.sparse._csparsetools, scipy.sparse.linalg._dsolve._superlu, scipy.sparse.linalg._eigen.arpack._arpack, scipy.sparse.linalg._propack._spropack, scipy.sparse.linalg._propack._dpropack, scipy.sparse.linalg._propack._cpropack, scipy.sparse.linalg._propack._zpropack, scipy.sparse.csgraph._tools, scipy.sparse.csgraph._shortest_path, scipy.sparse.csgraph._traversal, scipy.sparse.csgraph._min_spanning_tree, scipy.sparse.csgraph._flow, scipy.sparse.csgraph._matching, scipy.sparse.csgraph._reordering, scipy.optimize._minpack2, scipy.optimize._group_columns, scipy._lib.messagestream, scipy.optimize._trlib._trlib, scipy.optimize._lbfgsb, _moduleTNC, scipy.optimize._moduleTNC, scipy.optimize._cobyla, scipy.optimize._slsqp, scipy.optimize._minpack, scipy.optimize._lsq.givens_elimination, scipy.optimize._zeros, scipy.optimize._highs.cython.src._highs_wrapper, scipy.optimize._highs._highs_wrapper, scipy.optimize._highs.cython.src._highs_constants, scipy.optimize._highs._highs_constants, scipy.linalg._interpolative, scipy.optimize._bglu_dense, scipy.optimize._lsap, scipy.spatial._ckdtree, scipy.spatial._qhull, scipy.spatial._voronoi, scipy.spatial._distance_wrap, scipy.spatial._hausdorff, scipy.special._ufuncs_cxx, scipy.special._cdflib, scipy.special._ufuncs, scipy.special._specfun, scipy.special._comb, scipy.special._ellip_harm_2, scipy.spatial.transform._rotation, scipy.optimize._direct (total: 119)
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{
"uptime" : 46000,
"procRole" : "Background",
"version" : 2,
"userID" : 502,
"deployVersion" : 210,
"modelCode" : "MacBookPro16,1",
"coalitionID" : 1753,
"osVersion" : {
"train" : "macOS 14.6.1",
"build" : "23G93",
"releaseType" : "User"
},
"captureTime" : "2024-09-06 11:19:56.1245 +0100",
"codeSigningMonitor" : 0,
"incident" : "9E3BF4C3-1C10-4A22-AB6D-493483018667",
"pid" : 3323,
"cpuType" : "X86-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2024-09-05 16:43:08.7851 +0100",
"procStartAbsTime" : 830618767194,
"procExitAbsTime" : 46825794072184,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.8.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.8.0","CFBundleVersion":"1.8.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"5FC18D3C-1898-50CA-92F1-24E40C066179","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "22AFD314-FBF5-45F4-A151-6BB76F846F16",
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"wakeTime" : 7,
"bridgeVersion" : {"build":"21P6074","train":"8.6"},
"sleepWakeUUID" : "A8E6E653-2337-48CF-8F68-5725D47601B4",
"sip" : "enabled",
"vmRegionInfo" : "0 is not in any region. Bytes before following region: 4394663936\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 105f14000-105f18000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.8.app\/Contents\/MacOS\/ChimeraX",
"exception" : {"codes":"0x0000000000000001, 0x0000000000000000","rawCodes":[1,0],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x0000000000000000"},
"termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":3323},
"vmregioninfo" : "0 is not in any region. Bytes before following region: 4394663936\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 105f14000-105f18000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.8.app\/Contents\/MacOS\/ChimeraX",
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"faultingThread" : 0,
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===== Log before crash start =====
UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
> open
> /Users/cvetkom/Documents/chimera_sessions/20240903_CMGC4MCT_Fpl20MN_krios_II_merged_NCP_Tof1HTH_density_comparison_Alessandro.cxs
Opened cryosparc_P17_J544_007_volume_map_EMReady_zflip.mrc as #178, grid size
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Opened cryosparc_P17_J544_007_volume_map_zflip.mrc as #179, grid size
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Opened cryosparc_P17_J984_clss_00_00062_volume_sharp_zflip.mrc as #233, grid
size 128,128,128, pixel 3.27, shown at level 1.4, step 1, values float32
Opened cryosparc_P17_J544_007_volume_map_zflip.mrc as #236, grid size
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Opened cryosparc_P17_J864_007_volume_map_zflip.mrc as #235, grid size
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Opened cryosparc_P17_J1206_003_volume_map_sharp_zflip.mrc as #3, grid size
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Opened cryosparc_P17_J1206_003_volume_map_EMReady.mrc as #4, grid size
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Opened cryosparc_P17_J1207_map_sharp.mrc as #5, grid size 440,440,440, pixel
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Opened cryosparc_P17_J1210_map_sharp.mrc as #6, grid size 440,440,440, pixel
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Opened cryosparc_P17_J1268_002_volume_map_sharp.mrc as #7, grid size
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Opened cryosparc_P17_J1163_006_volume_map.mrc as #8, grid size 588,588,588,
pixel 0.95, shown at level 0.155, step 1, values float32
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Opened cryosparc_P17_J959_008_volume_map_zflip.mrc as #10, grid size
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Opened Ref3D_job802_run_class001.mrc as #11, grid size 588,588,588, pixel
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Opened cryosparc_P17_J1206_003_volume_map_EMReady.mrc z flip as #12, grid size
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Opened cryosparc_P17_J1207_map_sharp.mrc z flip as #13, grid size 440,440,440,
pixel 0.95, shown at level 0.02, step 1, values float32
Opened cryosparc_P17_J1210_map_sharp.mrc z flip as #14, grid size 440,440,440,
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Opened cryosparc_P17_J1268_002_volume_map_sharp.mrc as #15, grid size
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Opened cryosparc_P17_J535_003_volume_map_zflip.mrc as #16, grid size
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Opened cryosparc_P17_J655_005_volume_map_sharp.mrc as #17, grid size
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Opened cryosparc_P17_J645_010_volume_map_sharp.mrc as #18, grid size
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Opened cryosparc_P17_J842_005_volume_map_sharp.mrc as #19, grid size
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Opened cryosparc_P17_J845_005_volume_map_sharp.mrc as #20, grid size
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Opened cryosparc_P17_J846_005_volume_map_sharp.mrc as #21, grid size
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Opened cryosparc_P17_J842_005_volume_map_sharp.mrc copy as #42, grid size
588,588,588, pixel 0.95, shown at level 0.3, step 1, values float32
Opened cryosparc_P17_J1206_003_volume_map_sharp_zflip.mrc copy as #44, grid
size 440,440,440, pixel 0.95, shown at level 0.25, step 1, values float32
Opened cryosparc_P17_J544_007_volume_map_EMReady_zflip.mrc as #45, grid size
588,588,588, pixel 0.95, shown at level 0.957, step 1, values float32
Opened BestNCP-NUrefine-31k-3p8A-P9_J1636.mrc as #49, grid size 472,472,472,
pixel 0.95, shown at level 0.256, step 1, values float32
Opened copy of 1id3 map 5 as #50, grid size 81,64,83, pixel 1.67, shown at
level 0.101, step 1, values float32
Log from Thu Sep 5 16:18:15 2024UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
> open
> /Users/cvetkom/Documents/chimera_sessions/20240903_CMGC4MCT_Fpl20MN_krios_II_merged_NCP_Tof1HTH_density_comparison.cxs
Opened cryosparc_P17_J544_007_volume_map_EMReady_zflip.mrc as #178, grid size
588,588,588, pixel 0.95, shown at level 0.995, step 1, values float32
Opened cryosparc_P17_J544_007_volume_map_zflip.mrc as #179, grid size
588,588,588, pixel 0.95, shown at level 0.16, step 1, values float32
Opened cryosparc_P17_J984_clss_00_00062_volume_sharp_zflip.mrc as #233, grid
size 128,128,128, pixel 3.27, shown at level 1.4, step 1, values float32
Opened cryosparc_P17_J544_007_volume_map_zflip.mrc as #236, grid size
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Opened cryosparc_P17_J864_007_volume_map_zflip.mrc as #235, grid size
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Opened cryosparc_P17_J1206_003_volume_map_sharp_zflip.mrc as #3, grid size
440,440,440, pixel 0.95, shown at level 0.25, step 1, values float32
Opened cryosparc_P17_J1206_003_volume_map_EMReady.mrc as #4, grid size
440,440,440, pixel 0.95, shown at level 0.00374, step 2, values float32
Opened cryosparc_P17_J1207_map_sharp.mrc as #5, grid size 440,440,440, pixel
0.95, shown at level 2.63e-06, step 2, values float32
Opened cryosparc_P17_J1210_map_sharp.mrc as #6, grid size 440,440,440, pixel
0.95, shown at level 0.000291, step 2, values float32
Opened cryosparc_P17_J1268_002_volume_map_sharp.mrc as #7, grid size
440,440,440, pixel 0.95, shown at level 0.22, step 1, values float32
Opened cryosparc_P17_J1163_006_volume_map.mrc as #8, grid size 588,588,588,
pixel 0.95, shown at level 0.155, step 1, values float32
Opened cryosparc_P17_J864_007_volume_map_zflip.mrc as #9, grid size
588,588,588, pixel 0.95, shown at level 0.153, step 1, values float32
Opened cryosparc_P17_J959_008_volume_map_zflip.mrc as #10, grid size
588,588,588, pixel 0.95, shown at level 0.173, step 1, values float32
Opened Ref3D_job802_run_class001.mrc as #11, grid size 588,588,588, pixel
0.95, shown at level 0.00416, step 1, values float32
Opened cryosparc_P17_J1206_003_volume_map_EMReady.mrc z flip as #12, grid size
440,440,440, pixel 0.95, shown at level 2.11, step 1, values float32
Opened cryosparc_P17_J1207_map_sharp.mrc z flip as #13, grid size 440,440,440,
pixel 0.95, shown at level 0.02, step 1, values float32
Opened cryosparc_P17_J1210_map_sharp.mrc z flip as #14, grid size 440,440,440,
pixel 0.95, shown at level 0.25, step 1, values float32
Opened cryosparc_P17_J1268_002_volume_map_sharp.mrc as #15, grid size
440,440,440, pixel 0.95, shown at level 0.22, step 1, values float32
Opened cryosparc_P17_J535_003_volume_map_zflip.mrc as #16, grid size
588,588,588, pixel 0.95, shown at level 0.232, step 1, values float32
Opened cryosparc_P17_J655_005_volume_map_sharp.mrc as #17, grid size
588,588,588, pixel 0.95, shown at level 0.427, step 1, values float32
Opened cryosparc_P17_J645_010_volume_map_sharp.mrc as #18, grid size
588,588,588, pixel 0.95, shown at level 0.442, step 1, values float32
Opened cryosparc_P17_J842_005_volume_map_sharp.mrc as #19, grid size
588,588,588, pixel 0.95, shown at level 0.3, step 1, values float32
Opened cryosparc_P17_J845_005_volume_map_sharp.mrc as #20, grid size
588,588,588, pixel 0.95, shown at level 0.3, step 1, values float32
Opened cryosparc_P17_J846_005_volume_map_sharp.mrc as #21, grid size
588,588,588, pixel 0.95, shown at level 0.3, step 1, values float32
Opened cryosparc_P17_J842_005_volume_map_sharp.mrc copy as #42, grid size
588,588,588, pixel 0.95, shown at level 0.3, step 1, values float32
Log from Wed Sep 4 05:32:36 2024UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
> open
> /Users/cvetkom/Documents/chimera_sessions/20240903_CMGC4MCT_Fpl20MN_krios_II_merged_NCP_Tof1HTH_density_comparison.cxs
Opened cryosparc_P17_J544_007_volume_map_EMReady_zflip.mrc as #178, grid size
588,588,588, pixel 0.95, shown at level 0.995, step 1, values float32
Opened cryosparc_P17_J544_007_volume_map_zflip.mrc as #179, grid size
588,588,588, pixel 0.95, shown at level 0.16, step 1, values float32
Opened cryosparc_P17_J984_clss_00_00062_volume_sharp_zflip.mrc as #233, grid
size 128,128,128, pixel 3.27, shown at level 1.4, step 1, values float32
Opened cryosparc_P17_J544_007_volume_map_zflip.mrc as #236, grid size
588,588,588, pixel 0.95, shown at level 0.173, step 1, values float32
Opened cryosparc_P17_J864_007_volume_map_zflip.mrc as #235, grid size
588,588,588, pixel 0.95, shown at level 0.153, step 1, values float32
Opened cryosparc_P17_J1206_003_volume_map_sharp_zflip.mrc as #3, grid size
440,440,440, pixel 0.95, shown at level 0.25, step 1, values float32
Opened cryosparc_P17_J1206_003_volume_map_EMReady.mrc as #4, grid size
440,440,440, pixel 0.95, shown at level 0.00374, step 2, values float32
Opened cryosparc_P17_J1207_map_sharp.mrc as #5, grid size 440,440,440, pixel
0.95, shown at level 2.63e-06, step 2, values float32
Opened cryosparc_P17_J1210_map_sharp.mrc as #6, grid size 440,440,440, pixel
0.95, shown at level 0.000291, step 2, values float32
Opened cryosparc_P17_J1268_002_volume_map_sharp.mrc as #7, grid size
440,440,440, pixel 0.95, shown at level 0.22, step 1, values float32
Opened cryosparc_P17_J1163_006_volume_map.mrc as #8, grid size 588,588,588,
pixel 0.95, shown at level 0.155, step 1, values float32
Opened cryosparc_P17_J864_007_volume_map_zflip.mrc as #9, grid size
588,588,588, pixel 0.95, shown at level 0.153, step 1, values float32
Opened cryosparc_P17_J959_008_volume_map_zflip.mrc as #10, grid size
588,588,588, pixel 0.95, shown at level 0.173, step 1, values float32
Opened Ref3D_job802_run_class001.mrc as #11, grid size 588,588,588, pixel
0.95, shown at level 0.00416, step 1, values float32
Opened cryosparc_P17_J1206_003_volume_map_EMReady.mrc z flip as #12, grid size
440,440,440, pixel 0.95, shown at level 2.11, step 1, values float32
Opened cryosparc_P17_J1207_map_sharp.mrc z flip as #13, grid size 440,440,440,
pixel 0.95, shown at level 0.02, step 1, values float32
Opened cryosparc_P17_J1210_map_sharp.mrc z flip as #14, grid size 440,440,440,
pixel 0.95, shown at level 0.25, step 1, values float32
Opened cryosparc_P17_J1268_002_volume_map_sharp.mrc as #15, grid size
440,440,440, pixel 0.95, shown at level 0.22, step 1, values float32
Log from Tue Sep 3 13:30:10 2024UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
> open
> /Users/cvetkom/Documents/chimera_sessions/20240718_CMGC4MCT_Fpl20MN_krios_II_merged_3Dclasses_concensus_Ctf4Mrc1_mix.cxs
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
Opened Cl3D_job357_run_it025_class001.mrc as #1, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job357_run_it025_class002.mrc as #2, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job357_run_it025_class003.mrc as #3, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job357_run_it025_class004.mrc as #4, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job357_run_it025_class005.mrc as #5, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job357_run_it025_class006.mrc as #6, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job358_run_it025_class001.mrc as #7, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job358_run_it025_class002.mrc as #8, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job358_run_it025_class003.mrc as #9, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job358_run_it025_class004.mrc as #10, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job358_run_it025_class005.mrc as #11, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job358_run_it025_class006.mrc as #12, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job411_run_it025_class001.mrc as #13, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job411_run_it025_class002.mrc as #14, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job411_run_it025_class003.mrc as #15, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job411_run_it025_class004.mrc as #16, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job411_run_it025_class005.mrc as #17, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job411_run_it025_class006.mrc as #18, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Ref3D_job417_run_class001.mrc as #19, grid size 294,294,294, pixel 1.9,
shown at level 0.013, step 1, values float32
Opened postprocess_masked_job423.mrc as #20, grid size 294,294,294, pixel 1.9,
shown at level 0.013, step 1, values float32
Opened cryosparc_P17_J368_007_volume_map_sharp.mrc as #21, grid size
294,294,294, pixel 1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job414_run_it025_class001.mrc as #22, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job414_run_it025_class002.mrc as #23, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job414_run_it025_class003.mrc as #24, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job414_run_it025_class004.mrc as #25, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job414_run_it025_class005.mrc as #26, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job414_run_it025_class006.mrc as #27, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j560_run_it025_class001.mrc as #32, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j560_run_it025_class002.mrc as #33, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j560_run_it025_class003.mrc as #34, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j560_run_it025_class004.mrc as #35, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j561_run_it025_class001.mrc as #36, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j561_run_it025_class002.mrc as #37, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j561_run_it025_class003.mrc as #38, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j569_run_it025_class001.mrc as #39, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j569_run_it025_class002.mrc as #40, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j569_run_it025_class003.mrc as #41, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j569_run_it025_class004.mrc as #42, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j569_run_it025_class005.mrc as #43, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j570_run_it025_class001.mrc as #44, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j570_run_it025_class002.mrc as #45, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j570_run_it025_class003.mrc as #46, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j570_run_it025_class004.mrc as #47, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j570_run_it025_class005.mrc as #48, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j570_run_it025_class006.mrc as #49, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job542_run_it025_class001.mrc as #50, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job542_run_it025_class002.mrc as #51, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job542_run_it025_class003.mrc as #52, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job545_run_it025_class001.mrc as #53, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job545_run_it025_class002.mrc as #54, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job545_run_it025_class003.mrc as #55, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j563_run_it025_class001.mrc as #56, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j563_run_it025_class002.mrc as #57, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j563_run_it025_class003.mrc as #58, grid size 294,294,294, pixel
1.9, shown at level 0.0185, step 1, values float32
Opened Cl3D_job566_run_it025_class001.mrc as #59, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_job566_run_it025_class002.mrc as #60, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job566_run_it025_class003.mrc as #61, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job566_run_it025_class004.mrc as #62, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j567_run_it025_class001.mrc as #63, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j567_run_it025_class002.mrc as #64, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j567_run_it025_class003.mrc as #65, grid size 294,294,294, pixel
1.9, shown at level 0.0198, step 1, values float32
Opened Cl3D_j567_run_it025_class004.mrc as #66, grid size 294,294,294, pixel
1.9, shown at level 0.0163, step 1, values float32
Opened Cl3D_j568_run_it025_class001.mrc as #67, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j568_run_it025_class002.mrc as #68, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j568_run_it025_class003.mrc as #69, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j576_run_it025_class001.mrc as #70, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j576_run_it025_class002.mrc as #71, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j576_run_it025_class003.mrc as #72, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j576_run_it025_class004.mrc as #73, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j576_run_it025_class005.mrc as #74, grid size 294,294,294, pixel
1.9, shown at level 0.0136, step 1, values float32
Opened Cl3D_j576_run_it025_class006.mrc as #75, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened cryosparc_P17_J577_class_02_00082_volume.mrc as #82, grid size
128,128,128, pixel 4.36, shown at level 1.63, step 1, values float32
Opened cryosparc_P17_J583_class_02_00082_volume.mrc as #83, grid size
128,128,128, pixel 4.36, shown at level 1.36, step 1, values float32
Opened cryosparc_P17_J610_002_volume_map.mrc as #84, grid size 294,294,294,
pixel 1.9, shown at level 0.45, step 1, values float32
Opened Cl3D_j574_run_it025_class001.mrc as #85, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j574_run_it025_class002.mrc as #86, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j574_run_it025_class003.mrc as #87, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j574_run_it025_class004.mrc as #88, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j574_run_it025_class005.mrc as #89, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j574_run_it025_class006.mrc as #90, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened cryosparc_P17_J611_002_volume_map.mrc as #91, grid size 294,294,294,
pixel 1.9, shown at level 0.45, step 1, values float32
Opened cryosparc_P17_J615_class_00_final_volume.mrc as #76, grid size
192,192,192, pixel 2.91, shown at level 0.3, step 1, values float32
Opened cryosparc_P17_J616_class_00_final_volume.mrc as #77, grid size
192,192,192, pixel 2.91, shown at level 0.416, step 1, values float32
Opened cryosparc_P17_J621_mask.mrc as #78, grid size 192,192,192, pixel 2.91,
shown at level 1, step 1, values float32
Opened cryosparc_P17_J617_class_00_final_volume.mrc as #79, grid size
192,192,192, pixel 2.91, shown at level 0.373, step 1, values float32
Opened cryosparc_P17_J620_007_volume_map.mrc as #80, grid size 294,294,294,
pixel 1.9, shown at level 0.32, step 1, values float32
Opened cryosparc_P17_J368_007_volume_map.mrc as #81, grid size 294,294,294,
pixel 1.9, shown at level 0.35, step 1, values float32
Opened cryosparc_P17_J619_class_00_final_volume.mrc as #92, grid size
192,192,192, pixel 2.91, shown at level 0.414, step 1, values float32
Opened cryosparc_P17_J623_007_volume_map.mrc as #93, grid size 294,294,294,
pixel 1.9, shown at level 0.32, step 1, values float32
Opened cryosparc_P17_J625_007_volume_map.mrc as #94, grid size 294,294,294,
pixel 1.9, shown at level 0.25, step 1, values float32
Opened cryosparc_P17_J631_class_01_00042_volume.mrc as #95, grid size
128,128,128, pixel 4.36, shown at level 1, step 1, values float32
Opened cryosparc_P17_J629_class_01_00042_volume.mrc as #96, grid size
128,128,128, pixel 4.36, shown at level 1, step 1, values float32
Opened cryosparc_P17_J628_class_01_00042_volume.mrc as #97, grid size
128,128,128, pixel 4.36, shown at level 1, step 1, values float32
Opened Cl3D_j581_run_it025_class001.mrc as #98, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j581_run_it025_class002.mrc as #99, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j581_run_it025_class003.mrc as #100, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j581_run_it025_class004.mrc as #101, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j581_run_it025_class005.mrc as #102, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j581_run_it025_class006.mrc as #103, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j581_run_it025_class007.mrc as #104, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j586_run_it025_class001.mrc as #110, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j586_run_it025_class002.mrc as #111, grid size 294,294,294, pixel
1.9, shown at level 0.0146, step 1, values float32
Opened Cl3D_j586_run_it025_class003.mrc as #112, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j586_run_it025_class004.mrc as #113, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j586_run_it025_class005.mrc as #114, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j586_run_it025_class006.mrc as #115, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j586_run_it025_class007.mrc as #116, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j583_run_it025_class001.mrc as #105, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j583_run_it025_class002.mrc as #106, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j583_run_it025_class003.mrc as #107, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j583_run_it025_class004.mrc as #108, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j583_run_it025_class005.mrc as #109, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j587_run_it025_class001.mrc as #117, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j587_run_it025_class002.mrc as #118, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j587_run_it025_class003.mrc as #119, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j587_run_it025_class004.mrc as #120, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j587_run_it025_class005.mrc as #121, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j590_run_it025_class001.mrc as #122, grid size 294,294,294, pixel
1.9, shown at level 0.015, step 1, values float32
Opened Cl3D_j590_run_it025_class002.mrc as #123, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j590_run_it025_class003.mrc as #124, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j590_run_it025_class004.mrc as #125, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j590_run_it025_class005.mrc as #126, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j590_run_it025_class006.mrc as #127, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j590_run_it025_class007.mrc as #128, grid size 294,294,294, pixel
1.9, shown at level 0.014, step 1, values float32
Opened Cl3D_j591_run_it025_class001.mrc as #129, grid size 294,294,294, pixel
1.9, shown at level 0.014, step 1, values float32
Opened Cl3D_j591_run_it025_class002.mrc as #130, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j591_run_it025_class003.mrc as #131, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j591_run_it025_class004.mrc as #132, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j591_run_it025_class005.mrc as #133, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j591_run_it025_class006.mrc as #134, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j591_run_it025_class007.mrc as #135, grid size 294,294,294, pixel
1.9, shown at level 0.014, step 1, values float32
Opened cryosparc_P17_J680_volume_map.mrc as #136, grid size 294,294,294, pixel
1.9, shown at level 0.314, step 1, values float32
Opened cryosparc_P17_J676_class_00_final_volume.mrc as #137, grid size
192,192,192, pixel 2.91, shown at level 0.3, step 1, values float32
Opened cryosparc_P17_J678_class_00_final_volume.mrc as #138, grid size
192,192,192, pixel 2.91, shown at level 0.3, step 1, values float32
Opened cryosparc_P17_J681_volume_map.mrc as #139, grid size 294,294,294, pixel
1.9, shown at level 0.294, step 1, values float32
Opened cryosparc_P17_J684_010_volume_map.mrc as #140, grid size 294,294,294,
pixel 1.9, shown at level 0.36, step 1, values float32
Opened cryosparc_P17_J677_class_00_final_volume.mrc as #142, grid size
192,192,192, pixel 2.91, shown at level 0.3, step 1, values float32
Opened cryosparc_P17_J679_class_00_final_volume.mrc as #143, grid size
192,192,192, pixel 2.91, shown at level 0.25, step 1, values float32
Opened cryosparc_P17_J686_mask.mrc as #144, grid size 192,192,192, pixel 2.91,
shown at level 1, step 1, values float32
Opened cryosparc_P17_J688_007_volume_map.mrc as #145, grid size 294,294,294,
pixel 1.9, shown at level 0.365, step 1, values float32
Opened cryosparc_P17_J689_008_volume_map.mrc as #146, grid size 294,294,294,
pixel 1.9, shown at level 0.365, step 1, values float32
Opened cryosparc_P17_J691_008_volume_map.mrc as #148, grid size 294,294,294,
pixel 1.9, shown at level 0.365, step 1, values float32
Opened cryosparc_P17_J692_009_volume_map.mrc as #149, grid size 294,294,294,
pixel 1.9, shown at level 0.366, step 1, values float32
Opened cryosparc_P17_J693_006_volume_map.mrc as #150, grid size 294,294,294,
pixel 1.9, shown at level 0.2, step 1, values float32
Opened cryosparc_P17_J688_007_volume_map.mrc z flip as #151, grid size
294,294,294, pixel 1.9, shown at level 0.36, step 1, values float32
Opened cryosparc_P17_J689_008_volume_map.mrc z flip as #152, grid size
294,294,294, pixel 1.9, shown at level 0.365, step 1, values float32
Opened cryosparc_P17_J691_008_volume_map.mrc z flip as #153, grid size
294,294,294, pixel 1.9, shown at level 0.365, step 1, values float32
Opened cryosparc_P17_J692_009_volume_map.mrc z flip as #154, grid size
294,294,294, pixel 1.9, shown at level 0.366, step 1, values float32
Opened cryosparc_P17_J697_006_volume_map.mrc z flip as #161, grid size
294,294,294, pixel 1.9, shown at level 0.36, step 1, values float32
Opened cryosparc_P17_J693_006_volume_mask_refine.mrc as #162, grid size
294,294,294, pixel 1.9, shown at level 1, step 1, values float32
Opened cryosparc_P17_J704_mask.mrc as #163, grid size 294,294,294, pixel 1.9,
shown at level 1, step 1, values float32
Opened cryosparc_P17_J707_009_volume_map.mrc as #164, grid size 294,294,294,
pixel 1.9, shown at level 0.4, step 1, values float32
Opened cryosparc_P17_J708_mask.mrc as #165, grid size 294,294,294, pixel 1.9,
shown at level 1, step 1, values float32
Opened cryosparc_P17_J705_006_volume_map.mrc as #166, grid size 294,294,294,
pixel 1.9, shown at level 0.384, step 1, values float32
Opened cryosparc_P17_J706_004_volume_map.mrc as #167, grid size 294,294,294,
pixel 1.9, shown at level 0.36, step 1, values float32
Opened cryosparc_P17_J695_class_00_final_volume.mrc as #168, grid size
192,192,192, pixel 2.91, shown at level 0.3, step 1, values float32
Opened cryosparc_P17_J714_mask.mrc as #169, grid size 192,192,192, pixel 2.91,
shown at level 1, step 1, values float32
Opened cryosparc_P17_J715_mask.mrc as #170, grid size 192,192,192, pixel 2.91,
shown at level 1, step 1, values float32
Opened cryosparc_P17_J715_mask(1).mrc as #171, grid size 192,192,192, pixel
2.91, shown at level 1, step 1, values float32
Opened cryosparc_P17_J709_007_volume_map.mrc as #172, grid size 294,294,294,
pixel 1.9, shown at level 0.351, step 1, values float32
Opened cryosparc_P17_J709_007_volume_map_sharp.mrc as #158, grid size
294,294,294, pixel 1.9, shown at level 0.338, step 1, values float32
Opened cryosparc_P17_J544_007_volume_map_EMReady_zflip.mrc as #178, grid size
588,588,588, pixel 0.95, shown at level 0.995, step 1, values float32
Opened cryosparc_P17_J544_007_volume_map_zflip.mrc as #179, grid size
588,588,588, pixel 0.95, shown at level 0.16, step 1, values float32
Opened cryosparc_P17_J786_005_volume_map_sharp.mrc as #181, grid size
588,588,588, pixel 0.95, shown at level 0.4, step 1, values float32
Opened cryosparc_P17_J787_005_volume_map_sharp.mrc as #182, grid size
588,588,588, pixel 0.95, shown at level 0.39, step 1, values float32
Opened cryosparc_P17_J792_volume_map_sharp.mrc as #183, grid size 520,520,520,
pixel 0.95, shown at level 0.392, step 1, values float32
Opened cryosparc_P17_J757_volume_map.mrc as #186, grid size 520,520,520, pixel
0.95, shown at level 0.226, step 1, values float32
Opened cryosparc_P17_J792_volume_map.mrc as #187, grid size 520,520,520, pixel
0.95, shown at level 0.247, step 1, values float32
Opened cryosparc_P17_J797_009_volume_map_sharp.mrc as #184, grid size
520,520,520, pixel 0.95, shown at level 0.716, step 1, values float32
Opened cryosparc_P17_J797_009_volume_map.mrc as #185, grid size 520,520,520,
pixel 0.95, shown at level 0.31, step 1, values float32
Opened cryosparc_P17_J760_mask(1).mrc as #188, grid size 520,520,520, pixel
0.95, shown at level 0.998, step 1, values float32
Opened cryosparc_P17_J802_009_volume_map.mrc as #180, grid size 520,520,520,
pixel 0.95, shown at level 0.31, step 1, values float32
Opened cryosparc_P17_J802_009_volume_map_sharp.mrc as #189, grid size
520,520,520, pixel 0.95, shown at level 0.6, step 1, values float32
Opened cryosparc_P17_J803_005_volume_map.mrc as #190, grid size 588,588,588,
pixel 0.95, shown at level 0.301, step 1, values float32
Opened cryosparc_P17_J803_005_volume_map_sharp.mrc as #191, grid size
588,588,588, pixel 0.95, shown at level 0.39, step 1, values float32
Opened cryosparc_P17_J811_volume_map.mrc as #192, grid size 520,520,520, pixel
0.95, shown at level 0.1, step 1, values float32
Opened cryosparc_P17_J813_mask.mrc as #193, grid size 520,520,520, pixel 0.95,
shown at level 1, step 1, values float32
Opened cryosparc_P17_J805_008_volume_map.mrc as #194, grid size 520,520,520,
pixel 0.95, shown at level 0.348, step 1, values float32
Opened cryosparc_P17_J817_class_00_00116_volume.mrc as #195, grid size
336,336,336, pixel 1.47, shown at level 0.283, step 1, values float32
Opened cryosparc_P17_J817_class_04_00116_volume.mrc as #196, grid size
336,336,336, pixel 1.47, shown at level 0.289, step 1, values float32
Opened cryosparc_P17_J819_005_volume_map.mrc as #197, grid size 588,588,588,
pixel 0.95, shown at level 0.196, step 1, values float32
Opened cryosparc_P17_J819_005_volume_map_sharp.mrc as #198, grid size
588,588,588, pixel 0.95, shown at level 0.46, step 1, values float32
Opened cryosparc_P17_J822_volume_map.mrc as #199, grid size 588,588,588, pixel
0.95, shown at level 0.15, step 1, values float32
Opened cryosparc_P17_J823_mask.mrc as #200, grid size 588,588,588, pixel 0.95,
shown at level 1, step 1, values float32
Opened cryosparc_P17_J824_005_volume_map_sharp.mrc as #201, grid size
588,588,588, pixel 0.95, shown at level 0.35, step 1, values float32
Opened cryosparc_P17_J828_volume_map.mrc as #208, grid size 588,588,588, pixel
0.95, shown at level 0.0845, step 1, values float32
Opened cryosparc_P17_J829_class_00_final_volume.mrc as #209, grid size
192,192,192, pixel 2.91, shown at level 0.5, step 1, values float32
Opened cryosparc_P17_J830_mask.mrc as #210, grid size 192,192,192, pixel 2.91,
shown at level 1, step 1, values float32
Opened cryosparc_P17_J831_007_volume_map_sharp.mrc as #212, grid size
588,588,588, pixel 0.95, shown at level 0.239, step 1, values float32
Opened cryosparc_P17_J831_007_volume_mask_refine.mrc as #213, grid size
588,588,588, pixel 0.95, shown at level 1, step 1, values float32
Opened cryosparc_P17_J843_008_volume_map_sharp.mrc as #211, grid size
520,520,520, pixel 0.95, shown at level 0.65, step 1, values float32
Opened cryosparc_P17_J721_006_volume_map.mrc as #202, grid size 294,294,294,
pixel 1.9, shown at level 0.333, step 1, values float32
Opened cryosparc_P17_J517_006_volume_map_zflip.mrc as #155, grid size
588,588,588, pixel 0.95, shown at level 0.158, step 1, values float32
Opened cryosparc_P17_J851_volume_map.mrc as #156, grid size 588,588,588, pixel
0.95, shown at level 0.08, step 1, values float32
Opened cryosparc_P17_J854_volume_map.mrc as #159, grid size 588,588,588, pixel
0.95, shown at level 0.15, step 1, values float32
Opened cryosparc_P17_J858_007_volume_map.mrc as #173, grid size 588,588,588,
pixel 0.95, shown at level 0.154, step 1, values float32
Opened cryosparc_P17_J866_class_00_00042_volume.mrc as #175, grid size
128,128,128, pixel 4.36, shown at level 0.9, step 1, values float32
Opened cryosparc_P17_J869_mask.mrc as #176, grid size 128,128,128, pixel 4.36,
shown at level 1, step 1, values float32
Opened cryosparc_P17_J870_mask.mrc as #203, grid size 128,128,128, pixel 4.36,
shown at level 1, step 1, values float32
Opened cryosparc_P17_J867_007_volume_map.mrc as #204, grid size 588,588,588,
pixel 0.95, shown at level 0.155, step 1, values float32
Opened cryosparc_P17_J871_007_volume_map.mrc as #205, grid size 588,588,588,
pixel 0.95, shown at level 0.151, step 1, values float32
Opened cryosparc_P17_J876_class_00_final_volume.mrc as #206, grid size
192,192,192, pixel 2.91, shown at level 0.348, step 1, values float32
Opened cryosparc_P17_J880_class_00_final_volume.mrc as #207, grid size
192,192,192, pixel 2.91, shown at level 0.511, step 1, values float32
Opened cryosparc_P17_J874_volume_map.mrc as #214, grid size 294,294,294, pixel
1.9, shown at level 0.33, step 1, values float32
Opened cryosparc_P17_J882_volume_map.mrc as #215, grid size 294,294,294, pixel
1.9, shown at level 0.3, step 1, values float32
Opened cryosparc_P17_J878_class_00_00042_volume.mrc as #216, grid size
128,128,128, pixel 4.36, shown at level 1.25, step 1, values float32
Opened cryosparc_P17_J878_class_01_00042_volume.mrc as #217, grid size
128,128,128, pixel 4.36, shown at level 0.8, step 1, values float32
Opened cryosparc_P17_J883_mask.mrc as #218, grid size 128,128,128, pixel 4.36,
shown at level 1, step 1, values float32
Opened Ref3D_job506_run_class001.mrc as #221, grid size 588,588,588, pixel
0.95, shown at level 0.0045, step 1, values float32
Opened Ref3D_job506_run_class001_NCP.mrc as #222, grid size 588,588,588, pixel
0.95, shown at level 0.0045, step 1, values float32
Opened mask_job519.mrc as #223, grid size 588,588,588, pixel 0.95, shown at
level 1, step 1, values float32
Opened Ref3D_job506_run_class001_bareNCP.mrc as #224, grid size 588,588,588,
pixel 0.95, shown at level 0.0045, step 1, values float32
Opened cryosparc_P17_J884_009_volume_map.mrc as #219, grid size 294,294,294,
pixel 1.9, shown at level 0.35, step 1, values float32
Opened cryosparc_P17_J885_008_volume_map.mrc as #220, grid size 294,294,294,
pixel 1.9, shown at level 0.35, step 2, values float32
Opened cryosparc_P17_J888_009_volume_map.mrc as #227, grid size 294,294,294,
pixel 1.9, shown at level 0.356, step 1, values float32
Opened cryosparc_P17_J984_class_00_00062_volume_sharp.mrc as #225, grid size
128,128,128, pixel 3.27, shown at level 1.6, step 1, values float32
Opened cryosparc_P17_J981_class_00_00062_volume_sharp.mrc as #228, grid size
128,128,128, pixel 3.27, shown at level 1.82, step 1, values float32
Opened cryosparc_P17_J967_class_00_final_volume.mrc as #229, grid size
192,192,192, pixel 2.18, shown at level 0.8, step 1, values float32
Opened cryosparc_P17_J842_005_volume_map_sharp.mrc as #226, grid size
588,588,588, pixel 0.95, shown at level 0.33, step 1, values float32
Opened cryosparc_P17_J845_005_volume_map_sharp.mrc as #230, grid size
588,588,588, pixel 0.95, shown at level 0.3, step 1, values float32
Opened cryosparc_P17_J846_005_volume_map_sharp.mrc as #231, grid size
588,588,588, pixel 0.95, shown at level 0.3, step 1, values float32
Opened cryosparc_P17_J984_clss_00_00062_volume_sharp_zflip.mrc as #233, grid
size 128,128,128, pixel 3.27, shown at level 1.4, step 1, values float32
Opened cryosparc_P17_J544_007_volume_map_zflip.mrc as #236, grid size
588,588,588, pixel 0.95, shown at level 0.173, step 1, values float32
Opened cryosparc_P17_J864_007_volume_map.mrc as #239, grid size 588,588,588,
pixel 0.95, shown at level 0.153, step 1, values float32
Opened cryosparc_P17_J864_007_volume_map_zflip.mrc as #235, grid size
588,588,588, pixel 0.95, shown at level 0.153, step 1, values float32
Opened cryosparc_P17_J368_007_volume_map.mrc as #244, grid size 294,294,294,
pixel 1.9, shown at level 0.36, step 1, values float32
Opened cryosparc_P17_J685_007_volume_map.mrc as #245, grid size 294,294,294,
pixel 1.9, shown at level 0.36, step 1, values float32
Opened cryosparc_P17_J690_006_volume_map.mrc as #246, grid size 294,294,294,
pixel 1.9, shown at level 0.36, step 1, values float32
Opened cryosparc_P17_J697_006_volume_map.mrc as #247, grid size 294,294,294,
pixel 1.9, shown at level 0.36, step 1, values float32
Opened cryosparc_P17_J362_007_volume_map.mrc as #248, grid size 294,294,294,
pixel 1.9, shown at level 0.36, step 1, values float32
Opened cryosparc_P17_J1103_006_volume_map.mrc as #249, grid size 294,294,294,
pixel 1.9, shown at level 0.358, step 2, values float32
Opened cryosparc_P17_J1105_008_volume_map.mrc as #250, grid size 294,294,294,
pixel 1.9, shown at level 0.362, step 2, values float32
Opened cryosparc_P17_J1106_006_volume_map.mrc as #251, grid size 294,294,294,
pixel 1.9, shown at level 0.333, step 1, values float32
Opened cryosparc_P17_J1107_006_volume_map.mrc as #252, grid size 294,294,294,
pixel 1.9, shown at level 0.34, step 1, values float32
Log from Tue Jul 30 11:34:25 2024UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
> open
> /Users/cvetkom/Documents/chimera_sessions/20240718_CMGC4MCT_Fpl20MN_krios_II_merged_3Dclasses_concensus_Ctf4Mrc1_mix.cxs
Opened Cl3D_job357_run_it025_class001.mrc as #1, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job357_run_it025_class002.mrc as #2, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job357_run_it025_class003.mrc as #3, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job357_run_it025_class004.mrc as #4, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job357_run_it025_class005.mrc as #5, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job357_run_it025_class006.mrc as #6, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job358_run_it025_class001.mrc as #7, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job358_run_it025_class002.mrc as #8, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job358_run_it025_class003.mrc as #9, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job358_run_it025_class004.mrc as #10, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job358_run_it025_class005.mrc as #11, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job358_run_it025_class006.mrc as #12, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job411_run_it025_class001.mrc as #13, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job411_run_it025_class002.mrc as #14, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job411_run_it025_class003.mrc as #15, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job411_run_it025_class004.mrc as #16, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job411_run_it025_class005.mrc as #17, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job411_run_it025_class006.mrc as #18, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Ref3D_job417_run_class001.mrc as #19, grid size 294,294,294, pixel 1.9,
shown at level 0.013, step 1, values float32
Opened postprocess_masked_job423.mrc as #20, grid size 294,294,294, pixel 1.9,
shown at level 0.013, step 1, values float32
Opened cryosparc_P17_J368_007_volume_map_sharp.mrc as #21, grid size
294,294,294, pixel 1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job414_run_it025_class001.mrc as #22, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job414_run_it025_class002.mrc as #23, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job414_run_it025_class003.mrc as #24, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job414_run_it025_class004.mrc as #25, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job414_run_it025_class005.mrc as #26, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job414_run_it025_class006.mrc as #27, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j559_run_it025_class001.mrc as #28, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j559_run_it025_class002.mrc as #29, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j559_run_it025_class003.mrc as #30, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j559_run_it025_class004.mrc as #31, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j560_run_it025_class001.mrc as #32, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j560_run_it025_class002.mrc as #33, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j560_run_it025_class003.mrc as #34, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j560_run_it025_class004.mrc as #35, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j561_run_it025_class001.mrc as #36, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j561_run_it025_class002.mrc as #37, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j561_run_it025_class003.mrc as #38, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j569_run_it025_class001.mrc as #39, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j569_run_it025_class002.mrc as #40, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j569_run_it025_class003.mrc as #41, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j569_run_it025_class004.mrc as #42, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j569_run_it025_class005.mrc as #43, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j570_run_it025_class001.mrc as #44, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j570_run_it025_class002.mrc as #45, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j570_run_it025_class003.mrc as #46, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j570_run_it025_class004.mrc as #47, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j570_run_it025_class005.mrc as #48, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j570_run_it025_class006.mrc as #49, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job542_run_it025_class001.mrc as #50, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job542_run_it025_class002.mrc as #51, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job542_run_it025_class003.mrc as #52, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job545_run_it025_class001.mrc as #53, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job545_run_it025_class002.mrc as #54, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job545_run_it025_class003.mrc as #55, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j563_run_it025_class001.mrc as #56, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j563_run_it025_class002.mrc as #57, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j563_run_it025_class003.mrc as #58, grid size 294,294,294, pixel
1.9, shown at level 0.0185, step 1, values float32
Opened Cl3D_job566_run_it025_class001.mrc as #59, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_job566_run_it025_class002.mrc as #60, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job566_run_it025_class003.mrc as #61, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_job566_run_it025_class004.mrc as #62, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j567_run_it025_class001.mrc as #63, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j567_run_it025_class002.mrc as #64, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j567_run_it025_class003.mrc as #65, grid size 294,294,294, pixel
1.9, shown at level 0.0198, step 1, values float32
Opened Cl3D_j567_run_it025_class004.mrc as #66, grid size 294,294,294, pixel
1.9, shown at level 0.0163, step 1, values float32
Opened Cl3D_j568_run_it025_class001.mrc as #67, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j568_run_it025_class002.mrc as #68, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j568_run_it025_class003.mrc as #69, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j576_run_it025_class001.mrc as #70, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j576_run_it025_class002.mrc as #71, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j576_run_it025_class003.mrc as #72, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j576_run_it025_class004.mrc as #73, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j576_run_it025_class005.mrc as #74, grid size 294,294,294, pixel
1.9, shown at level 0.0136, step 1, values float32
Opened Cl3D_j576_run_it025_class006.mrc as #75, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened cryosparc_P17_J577_class_02_00082_volume.mrc as #82, grid size
128,128,128, pixel 4.36, shown at level 1.63, step 1, values float32
Opened cryosparc_P17_J583_class_02_00082_volume.mrc as #83, grid size
128,128,128, pixel 4.36, shown at level 1.36, step 1, values float32
Opened cryosparc_P17_J610_002_volume_map.mrc as #84, grid size 294,294,294,
pixel 1.9, shown at level 0.45, step 1, values float32
Opened Cl3D_j574_run_it025_class001.mrc as #85, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j574_run_it025_class002.mrc as #86, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j574_run_it025_class003.mrc as #87, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j574_run_it025_class004.mrc as #88, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j574_run_it025_class005.mrc as #89, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j574_run_it025_class006.mrc as #90, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened cryosparc_P17_J611_002_volume_map.mrc as #91, grid size 294,294,294,
pixel 1.9, shown at level 0.45, step 1, values float32
Opened cryosparc_P17_J615_class_00_final_volume.mrc as #76, grid size
192,192,192, pixel 2.91, shown at level 0.3, step 1, values float32
Opened cryosparc_P17_J616_class_00_final_volume.mrc as #77, grid size
192,192,192, pixel 2.91, shown at level 0.416, step 1, values float32
Opened cryosparc_P17_J621_mask.mrc as #78, grid size 192,192,192, pixel 2.91,
shown at level 1, step 1, values float32
Opened cryosparc_P17_J617_class_00_final_volume.mrc as #79, grid size
192,192,192, pixel 2.91, shown at level 0.373, step 1, values float32
Opened cryosparc_P17_J620_007_volume_map.mrc as #80, grid size 294,294,294,
pixel 1.9, shown at level 0.32, step 1, values float32
Opened cryosparc_P17_J368_007_volume_map.mrc as #81, grid size 294,294,294,
pixel 1.9, shown at level 0.35, step 1, values float32
Opened cryosparc_P17_J619_class_00_final_volume.mrc as #92, grid size
192,192,192, pixel 2.91, shown at level 0.414, step 1, values float32
Opened cryosparc_P17_J623_007_volume_map.mrc as #93, grid size 294,294,294,
pixel 1.9, shown at level 0.32, step 1, values float32
Opened cryosparc_P17_J625_007_volume_map.mrc as #94, grid size 294,294,294,
pixel 1.9, shown at level 0.25, step 1, values float32
Opened cryosparc_P17_J631_class_01_00042_volume.mrc as #95, grid size
128,128,128, pixel 4.36, shown at level 1, step 1, values float32
Opened cryosparc_P17_J629_class_01_00042_volume.mrc as #96, grid size
128,128,128, pixel 4.36, shown at level 1, step 1, values float32
Opened cryosparc_P17_J628_class_01_00042_volume.mrc as #97, grid size
128,128,128, pixel 4.36, shown at level 1, step 1, values float32
Opened Cl3D_j581_run_it025_class001.mrc as #98, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j581_run_it025_class002.mrc as #99, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j581_run_it025_class003.mrc as #100, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j581_run_it025_class004.mrc as #101, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j581_run_it025_class005.mrc as #102, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j581_run_it025_class006.mrc as #103, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j581_run_it025_class007.mrc as #104, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j586_run_it025_class001.mrc as #110, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j586_run_it025_class002.mrc as #111, grid size 294,294,294, pixel
1.9, shown at level 0.0146, step 1, values float32
Opened Cl3D_j586_run_it025_class003.mrc as #112, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j586_run_it025_class004.mrc as #113, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j586_run_it025_class005.mrc as #114, grid size 294,294,294, pixel
1.9, shown at level 0.012, step 1, values float32
Opened Cl3D_j586_run_it025_class006.mrc as #115, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j586_run_it025_class007.mrc as #116, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j583_run_it025_class001.mrc as #105, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j583_run_it025_class002.mrc as #106, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j583_run_it025_class003.mrc as #107, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j583_run_it025_class004.mrc as #108, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j583_run_it025_class005.mrc as #109, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j587_run_it025_class001.mrc as #117, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j587_run_it025_class002.mrc as #118, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j587_run_it025_class003.mrc as #119, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j587_run_it025_class004.mrc as #120, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j587_run_it025_class005.mrc as #121, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j590_run_it025_class001.mrc as #122, grid size 294,294,294, pixel
1.9, shown at level 0.015, step 1, values float32
Opened Cl3D_j590_run_it025_class002.mrc as #123, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j590_run_it025_class003.mrc as #124, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j590_run_it025_class004.mrc as #125, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j590_run_it025_class005.mrc as #126, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j590_run_it025_class006.mrc as #127, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j590_run_it025_class007.mrc as #128, grid size 294,294,294, pixel
1.9, shown at level 0.014, step 1, values float32
Opened Cl3D_j591_run_it025_class001.mrc as #129, grid size 294,294,294, pixel
1.9, shown at level 0.014, step 1, values float32
Opened Cl3D_j591_run_it025_class002.mrc as #130, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j591_run_it025_class003.mrc as #131, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j591_run_it025_class004.mrc as #132, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j591_run_it025_class005.mrc as #133, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j591_run_it025_class006.mrc as #134, grid size 294,294,294, pixel
1.9, shown at level 0.013, step 1, values float32
Opened Cl3D_j591_run_it025_class007.mrc as #135, grid size 294,294,294, pixel
1.9, shown at level 0.014, step 1, values float32
Opened cryosparc_P17_J680_volume_map.mrc as #136, grid size 294,294,294, pixel
1.9, shown at level 0.314, step 1, values float32
Opened cryosparc_P17_J676_class_00_final_volume.mrc as #137, grid size
192,192,192, pixel 2.91, shown at level 0.3, step 1, values float32
Opened cryosparc_P17_J678_class_00_final_volume.mrc as #138, grid size
192,192,192, pixel 2.91, shown at level 0.3, step 1, values float32
Opened cryosparc_P17_J681_volume_map.mrc as #139, grid size 294,294,294, pixel
1.9, shown at level 0.294, step 1, values float32
Opened cryosparc_P17_J684_010_volume_map.mrc as #140, grid size 294,294,294,
pixel 1.9, shown at level 0.36, step 1, values float32
Opened cryosparc_P17_J685_007_volume_map.mrc as #141, grid size 294,294,294,
pixel 1.9, shown at level 0.36, step 1, values float32
Opened cryosparc_P17_J677_class_00_final_volume.mrc as #142, grid size
192,192,192, pixel 2.91, shown at level 0.3, step 1, values float32
Opened cryosparc_P17_J679_class_00_final_volume.mrc as #143, grid size
192,192,192, pixel 2.91, shown at level 0.25, step 1, values float32
Opened cryosparc_P17_J686_mask.mrc as #144, grid size 192,192,192, pixel 2.91,
shown at level 1, step 1, values float32
Opened cryosparc_P17_J688_007_volume_map.mrc as #145, grid size 294,294,294,
pixel 1.9, shown at level 0.365, step 1, values float32
Opened cryosparc_P17_J689_008_volume_map.mrc as #146, grid size 294,294,294,
pixel 1.9, shown at level 0.365, step 1, values float32
Opened cryosparc_P17_J690_006_volume_map.mrc as #147, grid size 294,294,294,
pixel 1.9, shown at level 0.36, step 1, values float32
Opened cryosparc_P17_J691_008_volume_map.mrc as #148, grid size 294,294,294,
pixel 1.9, shown at level 0.365, step 1, values float32
Opened cryosparc_P17_J692_009_volume_map.mrc as #149, grid size 294,294,294,
pixel 1.9, shown at level 0.366, step 1, values float32
Opened cryosparc_P17_J693_006_volume_map.mrc as #150, grid size 294,294,294,
pixel 1.9, shown at level 0.2, step 1, values float32
[deleted to fit within ticket limits]
> select #30/4:505-815
4436 atoms, 4465 bonds, 4 pseudobonds, 280 residues, 2 models selected
> select #30/4:505-815
4436 atoms, 4465 bonds, 4 pseudobonds, 280 residues, 2 models selected
> select #30/4:505-815
4436 atoms, 4465 bonds, 4 pseudobonds, 280 residues, 2 models selected
> select clear
> select #30/4:505-927
6089 atoms, 6118 bonds, 6 pseudobonds, 383 residues, 2 models selected
> select ~sel & ##selected
4794 atoms, 4834 bonds, 5 pseudobonds, 297 residues, 3 models selected
> delete atoms (#!30 & sel)
> delete bonds (#!30 & sel)
> rename #30 C-Mcm4_6skl
> show #!25 models
> select add #25
4793 atoms, 4834 bonds, 296 residues, 1 model selected
> select add #30
10882 atoms, 10952 bonds, 6 pseudobonds, 679 residues, 3 models selected
> ui tool show "Color Actions"
> color sel forest green
> color sel sea green
> color sel turquoise
> color sel sea green
> color sel green
> color sel forest green
> color sel sea green
[Repeated 1 time(s)]
> select subtract #30
4793 atoms, 4834 bonds, 296 residues, 1 model selected
> hide #!30 models
> select subtract #25
Nothing selected
> hide #!25 models
> show #!28 models
> save
> /Users/cvetkom/Documents/chimera_sessions/20240903_CMGC4MCT_Fpl20MN_krios_II_merged_NCP_Tof1HTH_density_comparison.cxs
> select #28/5
9722 atoms, 9789 bonds, 11 pseudobonds, 614 residues, 3 models selected
> select ~sel & ##selected
108498 atoms, 109616 bonds, 119 pseudobonds, 6707 residues, 4 models selected
> delete atoms (#!28 & sel)
> delete bonds (#!28 & sel)
> rename #28 Mcm5_6skl
> combine #28
> select add #28
9722 atoms, 9789 bonds, 11 pseudobonds, 614 residues, 3 models selected
> select add #31
19444 atoms, 19578 bonds, 22 pseudobonds, 1228 residues, 6 models selected
> ui tool show "Color Actions"
> color sel yellow
> select subtract #28
9722 atoms, 9789 bonds, 11 pseudobonds, 614 residues, 3 models selected
> select subtract #31
Nothing selected
> ui tool show "Show Sequence Viewer"
> sequence chain #28/5
Alignment identifier is 28/5
> sequence chain #31/5
Alignment identifier is 31/5
> select #28/5:342
19 atoms, 18 bonds, 1 residue, 1 model selected
> select #28/5:20-342
4172 atoms, 4202 bonds, 4 pseudobonds, 259 residues, 2 models selected
> select ~sel & ##selected
5550 atoms, 5587 bonds, 7 pseudobonds, 355 residues, 2 models selected
> delete atoms (#!28 & sel)
> delete bonds (#!28 & sel)
> hide #!31 models
> rename #28 N-Mcm5_6skl
> show #!25 models
> show #!30 models
> hide #!30 models
> hide #!25 models
> show #!31 models
> hide #!31 models
> hide #!28 models
> show #!31 models
> select #31/5:343
24 atoms, 25 bonds, 1 residue, 1 model selected
> select #31/5:343-694
5504 atoms, 5540 bonds, 352 residues, 1 model selected
> select ~sel & ##selected
4218 atoms, 4249 bonds, 11 pseudobonds, 262 residues, 3 models selected
> delete atoms (#!31 & sel)
> delete bonds (#!31 & sel)
> rename #31 C-Mcm5_6skl
> show #!28 models
> hide #!28 models
> hide #!31 models
> combine #177
> hide #!32 models
> show #!29 models
> select #29/6
10045 atoms, 10126 bonds, 9 pseudobonds, 638 residues, 3 models selected
> select #29/6
10045 atoms, 10126 bonds, 9 pseudobonds, 638 residues, 3 models selected
> select ~sel & ##selected
108175 atoms, 109279 bonds, 121 pseudobonds, 6683 residues, 4 models selected
> delete atoms (#!29 & sel)
> delete bonds (#!29 & sel)
> rename #29 Mcm6_6skl
> combine #29
> select add #29
10045 atoms, 10126 bonds, 9 pseudobonds, 638 residues, 3 models selected
> select add #33
20090 atoms, 20252 bonds, 18 pseudobonds, 1276 residues, 6 models selected
> ui tool show "Color Actions"
> color sel orange
> color sel dark orange
> color sel orange
> color sel dark orange
[Repeated 1 time(s)]
> color sel goldenrod
> color sel dark orange
> color sel sandy brown
> color sel dark orange
[Repeated 1 time(s)]
> select subtract #29
10045 atoms, 10126 bonds, 9 pseudobonds, 638 residues, 3 models selected
> select subtract #33
Nothing selected
> ui tool show "Show Sequence Viewer"
> sequence chain #29/6
Alignment identifier is 29/6
> sequence chain #33/6
Alignment identifier is 33/6
> select #29/6:463
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #29/6:459-463
72 atoms, 71 bonds, 5 residues, 1 model selected
> select
> #29/6:98-102,105-122,134-147,155-161,164-193,277-284,384-386,407-411,500-521,524-533,540-553,580-592,604-609,626-631,640-650,652-658,694-699,702-707,720-735,747-759,766-784,796-814,820-836
4489 atoms, 4500 bonds, 275 residues, 1 model selected
> select clear
[Repeated 1 time(s)]
> select #29/6:91-463
4862 atoms, 4908 bonds, 2 pseudobonds, 305 residues, 2 models selected
> select ~sel & ##selected
5183 atoms, 5218 bonds, 7 pseudobonds, 333 residues, 3 models selected
> delete atoms (#!29 & sel)
> delete bonds (#!29 & sel)
> rename #29 N-Mcm6_6skl
> hide #!29 models
> show #!29 models
> hide #!33 models
> show #!33 models
> hide #!33 models
> show #!33 models
> hide #!33 models
> show #!33 models
> hide #!33 models
> show #!33 models
> hide #!33 models
> show #!28 models
> show #!31 models
> hide #!31 models
> hide #!29 models
> hide #!28 models
> show #!28 models
> show #!31 models
> hide #!28 models
> show #!28 models
> hide #!31 models
> show #!31 models
> hide #!31 models
> show #!31 models
> hide #!31 models
> show #!31 models
> hide #!28 models
> show #!28 models
> hide #!31 models
> show #!31 models
> hide #!28 models
> show #!28 models
> hide #!31 models
> show #!31 models
> hide #!28 models
> show #!28 models
> hide #!31 models
> hide #!28 models
> show #!28 models
> hide #!28 models
> show #!28 models
> show #!31 models
> hide #!28 models
> show #!28 models
> hide #!28 models
> hide #!31 models
> show #!29 models
> show #!33 models
> show #!28 models
> hide #!28 models
> hide #!33 models
> show #!33 models
> hide #!29 models
> select clear
[Repeated 2 time(s)]
> select #33/6:497-838
5182 atoms, 5218 bonds, 2 pseudobonds, 332 residues, 2 models selected
> select ~sel & ##selected
4863 atoms, 4908 bonds, 7 pseudobonds, 306 residues, 3 models selected
> delete atoms (#!33 & sel)
> delete bonds (#!33 & sel)
> rename #33 C-Mcm6_6skl
> show #!29 models
> hide #!29 models
> hide #!33 models
> show #!32 models
> select #32/7
9981 atoms, 10055 bonds, 11 pseudobonds, 636 residues, 3 models selected
> select ~sel & ##selected
108239 atoms, 109350 bonds, 119 pseudobonds, 6685 residues, 4 models selected
> delete atoms (#!32 & sel)
> delete bonds (#!32 & sel)
> select add #32
9981 atoms, 10055 bonds, 11 pseudobonds, 636 residues, 3 models selected
> rename #32 Mcm7_6skl
> ui tool show "Color Actions"
> color sel deep sky blue
> color sel cornflower blue
> color sel dodger blue
> select subtract #32
Nothing selected
> combine #32
> ui tool show "Show Sequence Viewer"
> sequence chain #32/7
Alignment identifier is 32/7
> sequence chain #34/7
Alignment identifier is 34/7
> ui tool show "Show Sequence Viewer"
> sequence chain #32/7
Destroying pre-existing alignment with identifier 32/7
Alignment identifier is 32/7
> sequence chain #34/7
Destroying pre-existing alignment with identifier 34/7
Alignment identifier is 34/7
> select #32/7:385
22 atoms, 21 bonds, 1 residue, 1 model selected
> select #32/7:4-385
4942 atoms, 4986 bonds, 3 pseudobonds, 317 residues, 2 models selected
> select ~sel & ##selected
5039 atoms, 5069 bonds, 8 pseudobonds, 319 residues, 3 models selected
> delete atoms (#!32 & sel)
> delete bonds (#!32 & sel)
> rename #32 N-Mcm7_6skl
> select clear
> select #34/7:396-729
5038 atoms, 5069 bonds, 3 pseudobonds, 318 residues, 2 models selected
> select ~sel & ##selected
4943 atoms, 4986 bonds, 8 pseudobonds, 318 residues, 3 models selected
> delete atoms (#!34 & sel)
> delete bonds (#!34 & sel)
> rename #34 C-Mcm7_6skl
> hide #!34 models
> hide #!32 models
> show #!32 models
> hide #!32 models
> show #!34 models
> hide #!34 models
> save
> /Users/cvetkom/Documents/chimera_sessions/20240903_CMGC4MCT_Fpl20MN_krios_II_merged_NCP_Tof1HTH_density_comparison.cxs
> combine #177
[Repeated 3 time(s)]
> hide #!36 models
> hide #!37 models
> hide #!38 models
> hide #!35 models
> show #!23 models
> show #!24 models
> show #!25 models
> show #!26 models
> show #!27 models
> show #!28 models
> show #!29 models
> show #!30 models
> show #!31 models
> show #!32 models
> show #!33 models
> show #!34 models
> hide #!34 models
> hide #!33 models
> hide #!32 models
> hide #!31 models
> hide #!30 models
> hide #!29 models
> hide #!28 models
> hide #!27 models
> hide #!26 models
> hide #!25 models
> hide #!24 models
> hide #!23 models
> show #!35 models
> select #35/E
9129 atoms, 9213 bonds, 4 pseudobonds, 564 residues, 2 models selected
> select ~sel & ##selected
109091 atoms, 110192 bonds, 126 pseudobonds, 6757 residues, 4 models selected
> delete atoms (#!35 & sel)
> delete bonds (#!35 & sel)
> rename #35 Cdc45_6skl
> select add #35
9129 atoms, 9213 bonds, 4 pseudobonds, 564 residues, 2 models selected
> ui tool show "Color Actions"
> color sel light cyan
[Repeated 1 time(s)]
> color sel powder blue
> color sel light blue
[Repeated 1 time(s)]
> color sel light cyan
> select subtract #35
Nothing selected
> lighting soft
[Repeated 1 time(s)]
> lighting full
> hide #!35 models
> show #!36 models
> lighting simple
> select #36/A,B,C,D
13385 atoms, 13508 bonds, 6 pseudobonds, 810 residues, 2 models selected
> select ~sel & ##selected
104835 atoms, 105897 bonds, 124 pseudobonds, 6511 residues, 4 models selected
> delete atoms (#!36 & sel)
> delete bonds (#!36 & sel)
> select add #36
13385 atoms, 13508 bonds, 6 pseudobonds, 810 residues, 2 models selected
> rename #36 GINS_6skl
> ui tool show "Color Actions"
> color sel silver
> color sel gray
> select clear
> hide #!36 models
> show #!37 models
> select #37/F,G,H
20221 atoms, 20476 bonds, 6 pseudobonds, 1271 residues, 2 models selected
> select ~sel & ##selected
97999 atoms, 98929 bonds, 124 pseudobonds, 6050 residues, 4 models selected
> delete atoms (#!37 & sel)
> delete bonds (#!37 & sel)
> select add #37
20221 atoms, 20476 bonds, 6 pseudobonds, 1271 residues, 2 models selected
> ui tool show "Color Actions"
> color sel slate blue
> color sel medium slate blue
[Repeated 3 time(s)]
> color sel royal blue
> color sel dodger blue
> color sel royal blue
[Repeated 1 time(s)]
> color sel dodger blue
> color sel royal blue
> select subtract #37
Nothing selected
> show #!32 models
> hide #!32 models
> hide #!37 models
> show #!37 models
> hide #!37 models
> rename #37 Ctf4_6skl
> combine #177
> hide #!39 models
> show #!38 models
> select #38/X
10990 atoms, 11092 bonds, 7 pseudobonds, 665 residues, 2 models selected
> select ~sel & ##selected
107230 atoms, 108313 bonds, 123 pseudobonds, 6656 residues, 4 models selected
> delete atoms (#!38 & sel)
> delete bonds (#!38 & sel)
> rename #38 Tof1_6skl
> select add #38
10990 atoms, 11092 bonds, 7 pseudobonds, 665 residues, 2 models selected
> ui tool show "Color Actions"
> color sel slate blue
> color sel medium slate blue
> color sel royal blue
> color sel medium slate blue
[Repeated 7 time(s)]
> color sel dark slate blue
> color sel medium slate blue
> select subtract #38
Nothing selected
> hide #!38 models
> show #!38 models
> show #!39 models
> hide #!38 models
> select #39/Y
1616 atoms, 1632 bonds, 94 residues, 1 model selected
> select ~sel & ##selected
116604 atoms, 117773 bonds, 130 pseudobonds, 7227 residues, 4 models selected
> delete atoms (#!39 & sel)
> delete bonds (#!39 & sel)
> rename #39 Csm3_6skl
> select add #39
1616 atoms, 1632 bonds, 94 residues, 1 model selected
> hide #!39 models
> select subtract #39
Nothing selected
> show #!39 models
> show #!38 models
> show #!37 models
> show #!36 models
> show #!35 models
> show #!34 models
> show #!33 models
> show #!32 models
> show #!31 models
> show #!30 models
> show #!29 models
> show #!28 models
> show #!27 models
> show #!26 models
> show #!25 models
> show #!24 models
> show #!23 models
> select add #39
1616 atoms, 1632 bonds, 94 residues, 1 model selected
> ui tool show "Color Actions"
> color sel orchid
> color sel blue violet
> color sel deep pink
> color sel magenta
> color sel dark magenta
> color sel purple
[Repeated 1 time(s)]
> color sel dark magenta
> color sel purple
[Repeated 1 time(s)]
> color sel medium purple
> color sel purple
[Repeated 1 time(s)]
> select subtract #39
Nothing selected
> combine #177
> hide #!39 models
> hide #!38 models
> hide #!37 models
> hide #!36 models
> hide #!35 models
> hide #!34 models
> show #!35 models
> hide #!35 models
> show #!35 models
> hide #!35 models
> show #!34 models
> hide #!33 models
> hide #!40 models
> show #!35 models
> hide #!35 models
> hide #!34 models
> hide #!32 models
> hide #!31 models
> hide #!30 models
> hide #!29 models
> hide #!28 models
> hide #!27 models
> hide #!26 models
> hide #!25 models
> hide #!24 models
> hide #!23 models
> show #!40 models
> select #40/I,J
1878 atoms, 2015 bonds, 50 pseudobonds, 59 residues, 2 models selected
> select ~sel & ##selected
116342 atoms, 117390 bonds, 80 pseudobonds, 7262 residues, 3 models selected
> delete atoms (#!40 & sel)
> delete bonds (#!40 & sel)
> rename #40 DNA_6skl
> select #40/I
1192 atoms, 1279 bonds, 37 residues, 1 model selected
> color sel black
> select #40/J
686 atoms, 736 bonds, 22 residues, 1 model selected
> color sel dim gray
> select clear
> hide #!40 models
> show #!19 models
> show #!23 models
> hide #!23 models
> show #!23 models
> hide #!19 models
> show #!24 models
> show #!25 models
> hide #!25 models
> hide #!24 models
> hide #!23 models
> show #!23 models
> show #!19 models
> fitmap #23 inMap #19
Fit molecule N-Mcm2_6skl (#23) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 4631 atoms
average map value = 0.4542, steps = 52
shifted from previous position = 1.09
rotated from previous position = 3.28 degrees
atoms outside contour = 1773, contour level = 0.3
Position of N-Mcm2_6skl (#23) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.48619287 -0.07981194 -0.87019915 544.75612919
0.53368692 0.76140981 -0.36801274 98.39251819
0.69194998 -0.64333907 -0.32759742 329.31388927
Axis -0.16188679 -0.91851479 0.36072599
Axis point 157.28465121 0.00000000 346.27079505
Rotation angle (degrees) 121.74840423
Shift along axis -59.77172713
> fitmap #23 inMap #19
Fit molecule N-Mcm2_6skl (#23) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 4631 atoms
average map value = 0.4542, steps = 36
shifted from previous position = 0.0153
rotated from previous position = 0.0153 degrees
atoms outside contour = 1772, contour level = 0.3
Position of N-Mcm2_6skl (#23) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.48612668 -0.08005636 -0.87021368 544.79200838
0.53355946 0.76145094 -0.36811244 98.44034714
0.69209476 -0.64326002 -0.32744679 329.22783276
Axis -0.16176651 -0.91852227 0.36076090
Axis point 157.31175798 0.00000000 346.27934228
Rotation angle (degrees) 121.73971426
Shift along axis -59.77622153
> hide #!23 models
> show #!23 models
> hide #!23 models
> show #!24 models
> fitmap #24 inMap #19
Fit molecule N-Mcm3_6skl (#24) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 4424 atoms
average map value = 0.4899, steps = 72
shifted from previous position = 1.7
rotated from previous position = 1.03 degrees
atoms outside contour = 1496, contour level = 0.3
Position of N-Mcm3_6skl (#24) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.51684057 -0.09904554 -0.85033277 552.53192555
0.53049272 0.74253315 -0.40892786 109.84096466
0.67190275 -0.66244585 -0.33122832 337.40029650
Axis -0.15211044 -0.91333918 0.37772207
Axis point 161.67410853 0.00000000 351.20284420
Rotation angle (degrees) 123.55710836
Shift along axis -56.92439016
> hide #!24 models
> show #!25 models
> fitmap #25 inMap #19
Fit molecule N-Mcm4_6skl (#25) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 4793 atoms
average map value = 0.4529, steps = 52
shifted from previous position = 2.33
rotated from previous position = 1.94 degrees
atoms outside contour = 1614, contour level = 0.3
Position of N-Mcm4_6skl (#25) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.51485483 -0.08657680 -0.85289447 549.29032703
0.51292450 0.76605243 -0.38739145 104.77742894
0.68690099 -0.63692082 -0.34999843 331.94917409
Axis -0.14931878 -0.92141613 0.35874256
Axis point 162.77097442 0.00000000 344.51466083
Rotation angle (degrees) 123.32588851
Shift along axis -59.47868024
> hide #!25 models
> show #!28 models
> fitmap #28 inMap #19
Fit molecule N-Mcm5_6skl (#28) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 4172 atoms
average map value = 0.5001, steps = 48
shifted from previous position = 0.477
rotated from previous position = 0.518 degrees
atoms outside contour = 1491, contour level = 0.3
Position of N-Mcm5_6skl (#28) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.52208241 -0.10009271 -0.84700143 552.10007852
0.52281543 0.74707399 -0.41054169 110.98680483
0.67386497 -0.65716201 -0.33770418 337.87117097
Axis -0.14839770 -0.91514390 0.37481963
Axis point 162.27606171 0.00000000 350.25308806
Rotation angle (degrees) 123.80418376
Shift along axis -56.85853328
> hide #!28 models
> show #!29 models
> fitmap #29 inMap #19
Fit molecule N-Mcm6_6skl (#29) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 4862 atoms
average map value = 0.4386, steps = 64
shifted from previous position = 1.82
rotated from previous position = 1.81 degrees
atoms outside contour = 1794, contour level = 0.3
Position of N-Mcm6_6skl (#29) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.50972104 -0.08434926 -0.85619488 547.63107126
0.52443527 0.75845239 -0.38693363 104.75971281
0.68202061 -0.64624700 -0.34236341 333.92722557
Axis -0.15485966 -0.91860876 0.36356077
Axis point 160.21705818 0.00000000 346.31455571
Rotation angle (degrees) 123.14885220
Shift along axis -59.63631555
> hide #!29 models
> show #!32 models
> fitmap #32 inMap #19
Fit molecule N-Mcm7_6skl (#32) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 4942 atoms
average map value = 0.4432, steps = 72
shifted from previous position = 2.55
rotated from previous position = 2 degrees
atoms outside contour = 1716, contour level = 0.3
Position of N-Mcm7_6skl (#32) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.50209844 -0.09646270 -0.85941382 551.56164113
0.52217420 0.75834411 -0.39019012 105.12547600
0.68937019 -0.64467757 -0.33039306 330.21496061
Axis -0.15084576 -0.91803150 0.36669294
Axis point 162.01873803 0.00000000 348.31963616
Rotation angle (degrees) 122.48465413
Shift along axis -58.62173799
> hide #!32 models
> show #!26 models
> hide #!26 models
> show #!27 models
> fitmap #27 inMap #19
Fit molecule C-Mcm3_6skl (#27) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 5283 atoms
average map value = 0.2453, steps = 68
shifted from previous position = 2.23
rotated from previous position = 2.57 degrees
atoms outside contour = 3746, contour level = 0.3
Position of C-Mcm3_6skl (#27) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.49125191 -0.10951013 -0.86410596 552.71575277
0.52980778 0.74986873 -0.39623302 105.24621685
0.69135757 -0.65246028 -0.31035512 328.13372850
Axis -0.15062172 -0.91437023 0.37581934
Axis point 161.23471230 0.00000000 351.59387631
Rotation angle (degrees) 121.72677225
Shift along axis -56.16600219
> hide #!27 models
> show #!26 models
> save
> /Users/cvetkom/Documents/chimera_sessions/20240903_CMGC4MCT_Fpl20MN_krios_II_merged_NCP_Tof1HTH_density_comparison.cxs
> fitmap #26 inMap #19
Fit molecule C-Mcm2_6skl (#26) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 5941 atoms
average map value = 0.2499, steps = 120
shifted from previous position = 7.11
rotated from previous position = 16.9 degrees
atoms outside contour = 4089, contour level = 0.3
Position of C-Mcm2_6skl (#26) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.72499338 -0.17926092 -0.66501889 564.61757623
0.30570305 0.78146839 -0.54392354 172.58562424
0.61719547 -0.59763926 -0.51175880 374.68531048
Axis -0.03915385 -0.93461689 0.35349433
Axis point 195.27960459 0.00000000 339.48855257
Rotation angle (degrees) 136.68906839
Shift along axis -50.95925582
> hide #!26 models
> show #!27 models
> hide #!27 models
> show #!30 models
> hide #!30 models
> show #!31 models
> fitmap #31 inMap #19
Fit molecule C-Mcm5_6skl (#31) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 5504 atoms
average map value = 0.2192, steps = 72
shifted from previous position = 1.38
rotated from previous position = 0.644 degrees
atoms outside contour = 4241, contour level = 0.3
Position of C-Mcm5_6skl (#31) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.52798995 -0.11167009 -0.84187672 553.62723896
0.51297984 0.74809912 -0.42095058 113.66344352
0.67681482 -0.65412346 -0.33770431 336.54923223
Axis -0.14058346 -0.91564213 0.37661090
Axis point 164.28052383 0.00000000 350.23415639
Rotation angle (degrees) 123.97268209
Shift along axis -55.15775830
> hide #!31 models
> show #!32 models
> hide #!32 models
> show #!33 models
> save
> /Users/cvetkom/Documents/chimera_sessions/20240903_CMGC4MCT_Fpl20MN_krios_II_merged_NCP_Tof1HTH_density_comparison.cxs
> fitmap #33 inMap #19
Fit molecule C-Mcm6_6skl (#33) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 5182 atoms
average map value = 0.2506, steps = 100
shifted from previous position = 2.49
rotated from previous position = 3.08 degrees
atoms outside contour = 3615, contour level = 0.3
Position of C-Mcm6_6skl (#33) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.56822296 -0.11833571 -0.81432140 555.66185955
0.48213507 0.75407081 -0.44600784 124.85237619
0.66683465 -0.64604479 -0.37142655 342.86696321
Axis -0.12419139 -0.91956426 0.37279763
Axis point 169.39701035 0.00000000 347.59627562
Rotation angle (degrees) 126.35519939
Shift along axis -55.99821082
> hide #!33 models
> show #!34 models
> fitmap #34 inMap #19
Fit molecule C-Mcm7_6skl (#34) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 5038 atoms
average map value = 0.2488, steps = 84
shifted from previous position = 3.58
rotated from previous position = 6.44 degrees
atoms outside contour = 3687, contour level = 0.3
Position of C-Mcm7_6skl (#34) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.60810284 -0.04397762 -0.79263921 541.80870758
0.49024443 0.76452307 -0.41852703 112.51289532
0.62439678 -0.64309443 -0.44334887 361.42999934
Axis -0.14668479 -0.92559125 0.34894756
Axis point 166.00281620 0.00000000 336.12434083
Rotation angle (degrees) 130.05063287
Shift along axis -57.49592849
> hide #!34 models
> show #!26 models
> fitmap #26 inMap #19
Fit molecule C-Mcm2_6skl (#26) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 5941 atoms
average map value = 0.2499, steps = 40
shifted from previous position = 0.00827
rotated from previous position = 0.0158 degrees
atoms outside contour = 4089, contour level = 0.3
Position of C-Mcm2_6skl (#26) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.72508101 -0.17912737 -0.66495934 564.59530186
0.30560205 0.78160601 -0.54378253 172.54320727
0.61714254 -0.59749932 -0.51198599 374.71726789
Axis -0.03915999 -0.93466297 0.35337179
Axis point 195.28291115 0.00000000 339.45035239
Rotation angle (degrees) 136.69646920
Shift along axis -50.96478166
> hide #!26 models
> show #!27 models
> fitmap #27 inMap #19
Fit molecule C-Mcm3_6skl (#27) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 5283 atoms
average map value = 0.2453, steps = 48
shifted from previous position = 0.00561
rotated from previous position = 0.0144 degrees
atoms outside contour = 3745, contour level = 0.3
Position of C-Mcm3_6skl (#27) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.49119447 -0.10962931 -0.86412349 552.72708725
0.52963562 0.75000136 -0.39621215 105.24134461
0.69153026 -0.65228780 -0.31033293 328.08057761
Axis -0.15052098 -0.91441153 0.37575921
Axis point 161.25504150 0.00000000 351.58454506
Rotation angle (degrees) 121.71962364
Shift along axis -56.15162171
> fitmap #27 inMap #19
Fit molecule C-Mcm3_6skl (#27) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 5283 atoms
average map value = 0.2453, steps = 44
shifted from previous position = 0.00644
rotated from previous position = 0.00323 degrees
atoms outside contour = 3747, contour level = 0.3
Position of C-Mcm3_6skl (#27) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.49121423 -0.10960226 -0.86411569 552.72290598
0.52966978 0.74997300 -0.39622018 105.24674287
0.69149006 -0.65232495 -0.31034441 328.08956470
Axis -0.15054136 -0.91440312 0.37577152
Axis point 161.25087455 0.00000000 351.58379235
Rotation angle (degrees) 121.72163061
Shift along axis -56.15889268
> hide #!27 models
> show #!33 models
> hide #!33 models
> show #!34 models
> fitmap #34 inMap #19
Fit molecule C-Mcm7_6skl (#34) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 5038 atoms
average map value = 0.2488, steps = 40
shifted from previous position = 0.021
rotated from previous position = 0.0237 degrees
atoms outside contour = 3683, contour level = 0.3
Position of C-Mcm7_6skl (#34) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.60807905 -0.04366734 -0.79267461 541.74998075
0.49057375 0.76436052 -0.41843804 112.46427092
0.62416126 -0.64330876 -0.44336957 361.50164606
Axis -0.14689577 -0.92554158 0.34899056
Axis point 165.95199356 0.00000000 336.12532515
Rotation angle (degrees) 130.05660056
Shift along axis -57.51048000
> hide #!34 models
> show #!35 models
> fitmap #35 inMap #19
Fit molecule Cdc45_6skl (#35) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 9129 atoms
average map value = 0.4936, steps = 32
shifted from previous position = 0.989
rotated from previous position = 0.293 degrees
atoms outside contour = 3011, contour level = 0.3
Position of Cdc45_6skl (#35) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.53238330 -0.10222439 -0.84030840 552.34452064
0.51398389 0.74970935 -0.41684104 113.43549525
0.67259838 -0.65382418 -0.34659105 340.11300103
Axis -0.14356656 -0.91653277 0.37330461
Axis point 163.36596759 0.00000000 349.77928908
Rotation angle (degrees) 124.37677529
Shift along axis -56.29979678
> hide #!35 models
> show #!36 models
> fitmap #36 inMap #19
Fit molecule GINS_6skl (#36) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 13385 atoms
average map value = 0.5009, steps = 64
shifted from previous position = 1.25
rotated from previous position = 0.693 degrees
atoms outside contour = 4520, contour level = 0.3
Position of GINS_6skl (#36) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.53440728 -0.10575367 -0.83858514 554.21323619
0.51997798 0.74104668 -0.42482082 114.22988038
0.66635709 -0.66307314 -0.34103116 341.67599231
Axis -0.14464380 -0.91365555 0.37988381
Axis point 163.82286606 0.00000000 351.69409164
Rotation angle (degrees) 124.55491640
Shift along axis -54.73309110
> hide #!36 models
> show #!37 models
> fitmap #37 inMap #19
Fit molecule Ctf4_6skl (#37) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 20221 atoms
average map value = 0.3967, steps = 68
shifted from previous position = 1.75
rotated from previous position = 0.685 degrees
atoms outside contour = 7725, contour level = 0.3
Position of Ctf4_6skl (#37) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.53679956 -0.10566869 -0.83706653 554.09013415
0.51701361 0.74282869 -0.42532631 116.11912844
0.66674070 -0.66108976 -0.34411796 343.05037030
Axis -0.14335492 -0.91438332 0.37861921
Axis point 163.58631600 0.00000000 352.06583111
Rotation angle (degrees) 124.68361653
Shift along axis -55.72348034
> hide #!37 models
> show #!38 models
> fitmap #38 inMap #19
Fit molecule Tof1_6skl (#38) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 10990 atoms
average map value = 0.3486, steps = 52
shifted from previous position = 2.71
rotated from previous position = 2.1 degrees
atoms outside contour = 4840, contour level = 0.3
Position of Tof1_6skl (#38) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.50884095 -0.07790103 -0.85732860 546.87430545
0.52700003 0.75928729 -0.38177714 104.30156172
0.68069954 -0.64607604 -0.34530262 334.50800166
Axis -0.15791244 -0.91893600 0.36141430
Axis point 159.52485154 0.00000000 345.83620169
Rotation angle (degrees) 123.19075103
Shift along axis -61.30873983
> hide #!38 models
> show #!39 models
> fitmap #39 inMap #19
Fit molecule Csm3_6skl (#39) to map
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) using 1616 atoms
average map value = 0.3779, steps = 60
shifted from previous position = 2.5
rotated from previous position = 1.9 degrees
atoms outside contour = 645, contour level = 0.3
Position of Csm3_6skl (#39) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.51530602 -0.07349129 -0.85384937 547.02376900
0.53880358 0.74699785 -0.38946748 106.53379719
0.66644611 -0.66075203 -0.34533512 340.04339220
Axis -0.16330007 -0.91514372 0.36857164
Axis point 158.27460801 0.00000000 348.00938205
Rotation angle (degrees) 123.83627701
Shift along axis -61.49240111
> hide #!39 models
> show #!40 models
> fitmap #40 inMap #19
Fit molecule DNA_6skl (#40) to map cryosparc_P17_J842_005_volume_map_sharp.mrc
(#19) using 1878 atoms
average map value = 0.3403, steps = 80
shifted from previous position = 1.35
rotated from previous position = 3.78 degrees
atoms outside contour = 831, contour level = 0.3
Position of DNA_6skl (#40) relative to
cryosparc_P17_J842_005_volume_map_sharp.mrc (#19) coordinates:
Matrix rotation and translation
-0.47993510 -0.10126507 -0.87144001 550.20291579
0.51412450 0.77241029 -0.37290528 101.33591686
0.71087151 -0.62699899 -0.31864396 321.37532285
Axis -0.14801492 -0.92172967 0.35847734
Axis point 161.49135847 0.00000000 346.98780116
Rotation angle (degrees) 120.86949809
Shift along axis -59.63678931
> hide #!40 models
> show #!40 models
> hide #!40 models
> save
> /Users/cvetkom/Documents/chimera_sessions/20240903_CMGC4MCT_Fpl20MN_krios_II_merged_NCP_Tof1HTH_density_comparison.cxs
> combine #23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40
Remapping chain ID '2' in C-Mcm2_6skl #26 to '5'
Remapping chain ID '3' in C-Mcm3_6skl #27 to '6'
Remapping chain ID '5' in N-Mcm5_6skl #28 to '7'
Remapping chain ID '6' in N-Mcm6_6skl #29 to '8'
Remapping chain ID '4' in C-Mcm4_6skl #30 to '9'
Remapping chain ID '5' in C-Mcm5_6skl #31 to '0'
Remapping chain ID '7' in N-Mcm7_6skl #32 to 'AA'
Remapping chain ID '6' in C-Mcm6_6skl #33 to 'AB'
Remapping chain ID '7' in C-Mcm7_6skl #34 to 'AC'
> hide #!19 models
> select add #41
118080 atoms, 119265 bonds, 97 pseudobonds, 7310 residues, 3 models selected
> cartoon style (#!41 & sel) xsection oval modeHelix default
> cartoon style (#!41 & sel) xsection rectangle modeHelix default
> cartoon style (#!41 & sel & coil) xsection oval
> cartoon style (#!41 & sel) xsection barbell modeHelix default
> cartoon style (#!41 & sel) xsection oval modeHelix default
> cartoon hide (#!41 & sel)
> show (#!41 & sel) target ab
> ui tool show "Color Zone"
> select subtract #41
Nothing selected
> hide #!41 models
> show #!19 models
> color #19 #b2b2ffff models
> volume copy #19
Opened cryosparc_P17_J842_005_volume_map_sharp.mrc copy as #42, grid size
588,588,588, pixel 0.95, shown at step 1, values float32
> hide #!42 models
> show #!42 models
> show #!41 models
> hide #!41 models
> ui tool show "Hide Dust"
> surface dust #42 size 5.7
> surface dust #42 size 5.67
> surface dust #42 size 6.93
> surface dust #42 size 7.1
> surface dust #42 size 5.86
> surface dust #42 size 5.91
> surface dust #42 size 6.71
> show #!41 models
> color zone #42 near #41 distance 5.7
> hide #!41 models
> lighting soft
> lighting simple
> graphics silhouettes true
> color zone #42 near #41 distance 5.8
> color zone #42 near #41 distance 5.9
> show #!41 models
> color zone #42 near #41 distance 5.9
> color zone #42 near #41 distance 6.2
> color zone #42 near #41 distance 7.58
> color zone #42 near #41 distance 6.79
> color zone #42 near #41 distance 10.77
> color zone #42 near #41 distance 11.05
> color zone #42 near #41 distance 8.88
> color zone #42 near #41 distance 10.95
> color zone #42 near #41 distance 9.58
> hide #!42 models
> show #!42 models
> color zone #42 near #41 distance 9.68
> color zone #42 near #41 distance 9.6
> color zone #42 near #41 distance 9
> color zone #42 near #41 distance 9.9
> color zone #42 near #41 distance 9.99
> color zone #42 near #41 distance 10.42
> color zone #42 near #41 distance 11.42
> hide #!42 models
> show #!42 models
> lighting soft
> hide #!41 models
> hide #!42 models
> show #!42 models
> lighting simple
> save
> /Users/cvetkom/Documents/chimera_sessions/20240903_CMGC4MCT_Fpl20MN_krios_II_merged_NCP_Tof1HTH_density_comparison.cxs
[Repeated 1 time(s)]
——— End of log from Wed Sep 4 05:32:36 2024 ———
opened ChimeraX session
> show #!3 models
> show #!8 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> show #!8 models
> hide #!42 models
> show #!42 models
> hide #!42 models
> show #!42 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> show #!8 models
> lighting full
> lighting soft
> lighting simple
> show #2 models
> hide #2 models
> show #2 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!22 models
> hide #!22 models
> show #!1 models
> ui tool show Matchmaker
> matchmaker #1/I to #38/X pairing ss
Parameters
---
Chain pairing | ss
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 Tof1_6skl, chain X (#38) with 8xgc, chain I (#1), sequence
alignment score = 5308.2
RMSD between 645 pruned atom pairs is 0.608 angstroms; (across all 665 pairs:
0.839)
> hide #!3 models
> show #!3 models
> combine #1
> hide #!1 models
> show #!22 models
> hide #!22 models
> rename #22 8xgc_with_polE
> hide #!43 models
> show #!43 models
> hide #!43 models
> show #!43 models
> select #43/L,M,P,Q,N,R,O,S
9396 atoms, 9480 bonds, 10 pseudobonds, 1379 residues, 2 models selected
> hide (#!43 & sel) target a
> cartoon hide (#!43 & sel)
> hide #2 models
> show #2 models
> hide #2 models
> cartoon (#!43 & sel)
> delete atoms (#!43 & sel)
> delete bonds (#!43 & sel)
> hide #!43 models
> show #!43 models
> select #43/2,I
12246 atoms, 12460 bonds, 7 pseudobonds, 1525 residues, 3 models selected
> select ~sel & ##selected
49582 atoms, 50669 bonds, 146 pseudobonds, 6085 residues, 4 models selected
> select #43/2,I,X,Y
14083 atoms, 14513 bonds, 93 pseudobonds, 1615 residues, 4 models selected
> select ~sel & ##selected
47745 atoms, 48616 bonds, 60 pseudobonds, 5995 residues, 3 models selected
> delete atoms (#!43 & sel)
> delete bonds (#!43 & sel)
> hide #!43 models
> show #!43 models
> rename #43 Tof1_Mcm2_DNA_8xgc
> save
> /Users/cvetkom/Documents/chimera_sessions/20240903_CMGC4MCT_Fpl20MN_krios_II_merged_NCP_Tof1HTH_density_comparison.cxs
> hide #!43 models
> show #!43 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> show #!8 models
> ui tool show "Fit in Map"
> hide #!3 models
> show #!3 models
> hide #!8 models
> show #!8 models
> show #!9 models
> hide #!9 models
> show #!9 models
> hide #!9 models
> show #!9 models
> hide #!9 models
> show #!9 models
> hide #!9 models
> show #!9 models
> hide #!9 models
> show #!9 models
> hide #!9 models
> fitmap #3 inMap #8
Fit map cryosparc_P17_J1206_003_volume_map_sharp_zflip.mrc in map
cryosparc_P17_J1163_006_volume_map.mrc using 193604 points
correlation = 0.9192, correlation about mean = 0.0445, overlap = 1.418e+04
steps = 72, shift = 2.72, angle = 2.42 degrees
Position of cryosparc_P17_J1206_003_volume_map_sharp_zflip.mrc (#3) relative
to cryosparc_P17_J1163_006_volume_map.mrc (#8) coordinates:
Matrix rotation and translation
0.59052855 0.53373057 -0.60531621 170.37442141
-0.50876033 -0.33602858 -0.79262080 554.64399601
-0.62644949 0.77602608 0.07310647 351.56427577
Axis 0.83279921 0.01121972 -0.55346146
Axis point 0.00000000 138.28597245 467.32476580
Rotation angle (degrees) 109.64532984
Shift along axis -46.46664408
> hide #!8 models
> show #!232 models
> hide #!232 models
> show #!234 models
> show #!232 models
> hide #!232 models
> show #!232 models
> hide #!232 models
> show #!232 models
> hide #!232 models
> hide #!234 models
> show #!234 models
> hide #!3 models
> show #!3 models
> fitmap #234 inMap #3
Fit molecule copy of 1id3 (#234) to map
cryosparc_P17_J1206_003_volume_map_sharp_zflip.mrc (#3) using 6114 atoms
average map value = 0.2545, steps = 96
shifted from previous position = 4.78
rotated from previous position = 8.84 degrees
atoms outside contour = 2956, contour level = 0.25
Position of copy of 1id3 (#234) relative to
cryosparc_P17_J1206_003_volume_map_sharp_zflip.mrc (#3) coordinates:
Matrix rotation and translation
-0.05320350 -0.99827136 0.02497348 191.32301696
-0.66299192 0.05401395 0.74667544 251.48569117
-0.74673362 0.02316853 -0.66471958 182.33677195
Axis -0.65199157 0.69542739 0.30213861
Axis point 246.33178982 0.00000000 -20.06616176
Rotation angle (degrees) 146.30004573
Shift along axis 105.24002362
> show #!232 models
> hide #!232 models
> show #!232 models
> hide #!232 models
> show #!232 models
> hide #!232 models
> hide #!234 models
> show #!177 models
> hide #!177 models
> show #!232 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> select #43/x
1041 atoms, 1159 bonds, 51 residues, 1 model selected
> color sel black
> select #43/y
796 atoms, 894 bonds, 39 residues, 1 model selected
> color sel gray
> select clear
> select #232/J
3004 atoms, 3354 bonds, 6 pseudobonds, 160 residues, 2 models selected
> color (#!232 & sel) black
> select #232/I
3006 atoms, 3354 bonds, 3 pseudobonds, 162 residues, 2 models selected
> color (#!232 & sel) gray
> select clear
> select #232/A#232/E#234/A#234/E
3230 atoms, 3252 bonds, 410 residues, 2 models selected
> ui tool show "Color Actions"
> color sel khaki
[Repeated 4 time(s)]
> color sel peach puff
> color sel moccasin
[Repeated 1 time(s)]
> color sel khaki
[Repeated 4 time(s)]
> select #232/B#232/F#234/B#234/F
2640 atoms, 2652 bonds, 346 residues, 2 models selected
> color sel khaki
[Repeated 1 time(s)]
> select #232/C#232/G#234/C#234/G
3382 atoms, 3400 bonds, 4 pseudobonds, 462 residues, 4 models selected
> color sel plum
[Repeated 2 time(s)]
> select #232/D#232/H#234/D#234/H
2976 atoms, 2988 bonds, 2 pseudobonds, 406 residues, 4 models selected
> color sel plum
> select clear
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> volume copy #3
Opened cryosparc_P17_J1206_003_volume_map_sharp_zflip.mrc copy as #44, grid
size 440,440,440, pixel 0.95, shown at step 1, values float32
> hide #!44 models
> show #!44 models
> hide #!44 models
> show #!44 models
> hide #!44 models
> show #!44 models
> hide #!44 models
> show #!44 models
> hide #!44 models
> show #!44 models
> hide #!44 models
> show #!44 models
> hide #!43 models
> hide #!42 models
> hide #!44 models
> show #!44 models
> hide #!232 models
> show #!232 models
> ui tool show "Color Zone"
> hide #!44 models
> show #!44 models
> color zone #44 near #232 distance 5.7
> hide #!232 models
> lighting soft
> show #!42 models
> lighting soft
> lighting full
> save
> /Users/cvetkom/Documents/chimera_sessions/20240903_CMGC4MCT_Fpl20MN_krios_II_merged_NCP_Tof1HTH_density_comparison.cxs
> show #!232 models
> hide #!232 models
> show #!232 models
> hide #!232 models
> show #!232 models
> hide #!232 models
> show #!43 models
> hide #!42 models
> show #!42 models
> hide #!42 models
> show #!42 models
> hide #!42 models
> show #!42 models
> select #43/2
6189 atoms, 6289 bonds, 5 pseudobonds, 780 residues, 3 models selected
> color sel hot pink
> select clear
> ui tool show "Show Sequence Viewer"
> sequence chain #43/I
Alignment identifier is 43/I
> select #43/2
6189 atoms, 6289 bonds, 5 pseudobonds, 780 residues, 3 models selected
> cartoon hide (#!43 & sel)
> lighting simple
> lighting soft
> show #!8 models
> color #8 #d6d6d6ff models
> color #8 #ebebebff models
> color #8 #ebebeb80 models
> color #8 silver models
[Repeated 1 time(s)]
> color #8 #c0c0c080 models
> color #8 #c0c0c08b models
> color #8 #c0c0c09e models
> color #8 #c0c0c0f5 models
> color #8 #c0c0c0f1 models
> color #8 #c0c0c0ad models
> color #8 #c0c0c0a1 models
> color #8 #c0c0c0ab models
> color #8 #c0c0c0ad models
> color #8 #c0c0c0b4 models
> color #8 #c0c0c0b6 models
> color #8 #c0c0c0b9 models
> color #8 #c0c0c0bd models
> color #8 #c0c0c0c1 models
> color #8 #c0c0c0bf models
> hide #!8 models
> show #!8 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> select #43/I:641
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #43/I:641-642
19 atoms, 18 bonds, 2 residues, 1 model selected
> select #43/I:649
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #43/I:649-650
13 atoms, 12 bonds, 2 residues, 1 model selected
> select #43/I:630
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #43/I:630-631
15 atoms, 14 bonds, 2 residues, 1 model selected
> select #43/I:618
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #43/I:618-619
22 atoms, 21 bonds, 2 residues, 1 model selected
> select #43/I:621
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #43/I:621-622
18 atoms, 17 bonds, 2 residues, 1 model selected
> select #43/I:616
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #43/I:616
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #43/I
6057 atoms, 6171 bonds, 2 pseudobonds, 745 residues, 2 models selected
> color sel slate blue
[Repeated 1 time(s)]
> color sel medium slate blue
> color sel slate blue
[Repeated 6 time(s)]
> color sel medium slate blue
> color sel medium orchid
> color sel dark orchid
> color sel magenta
> color sel dark slate blue
> color sel slate blue
> color sel violet
> color sel slate blue
> color sel medium slate blue
[Repeated 1 time(s)]
> select clear
> select #43/I:613
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #43/I:613-657
362 atoms, 362 bonds, 45 residues, 1 model selected
> color sel light coral
> show #!8 models
> hide #!8 models
> select clear
> select #43/I:613-657
362 atoms, 362 bonds, 45 residues, 1 model selected
> select #43/I:616
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #43/I:616
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #43/I:618
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #43/I:618-619
22 atoms, 21 bonds, 2 residues, 1 model selected
> select #43/I:616
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #43/I:616
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #43/I:616,618-619
31 atoms, 29 bonds, 3 residues, 1 model selected
> select #43/I:616,618-619,621-622
49 atoms, 46 bonds, 5 residues, 1 model selected
> show sel target ab
> style sel ball
Changed 49 atom styles
> color sel dodger blue
> color sel royal blue
> color sel deep sky blue
> style sel ball
Changed 49 atom styles
> style sel sphere
Changed 49 atom styles
> style sel stick
Changed 49 atom styles
> style sel ball
Changed 49 atom styles
> select clear
> select #43/I:616,618-619,621-622,629
57 atoms, 53 bonds, 6 residues, 1 model selected
> select #43/I:616,618-619,621-622,629
57 atoms, 53 bonds, 6 residues, 1 model selected
> select
> #43/I:12-31,51-65,72-80,82-109,117-136,146-170,173-188,195-215,244-271,278-295,298-303,330-353,379-395,407-412,430-461,468-493,497-523,526-550,556-565,568-576,584-606,626-638,640-653,658-680,686-702,712-724,733-756,758-763,773-780
4271 atoms, 4319 bonds, 523 residues, 1 model selected
> select clear
> select
> #43/I:12-31,51-65,72-80,82-109,117-136,146-170,173-188,195-215,244-271,278-295,298-303,330-353,379-395,407-412,430-461,468-493,497-523,526-550,556-565,568-576,584-606,626-638,640-653,658-680,686-702,712-724,733-756,758-763,773-780
4271 atoms, 4319 bonds, 523 residues, 1 model selected
> select clear
> select #43/I:629
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #43/I:629
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #43/I:629,635-637
35 atoms, 33 bonds, 4 residues, 1 model selected
> select #43/I:629,635-637,640
43 atoms, 40 bonds, 5 residues, 1 model selected
> select #43/I:629,635-637,640,642-643
60 atoms, 56 bonds, 7 residues, 1 model selected
> select #43/I:629,635-637,640,642-643,646
68 atoms, 63 bonds, 8 residues, 1 model selected
> show sel target ab
> color sel crimson
> style sel ball
Changed 68 atom styles
> select clear
> save
> /Users/cvetkom/Documents/chimera_sessions/20240903_CMGC4MCT_Fpl20MN_krios_II_merged_NCP_Tof1HTH_density_comparison.cxs
> show #!8 models
> hide #!8 models
> show #!8 models
> color #8 #00fdffff models
> color #8 #73fdffff models
> color #8 #009193ff models
> color #8 #00fdffff models
> color #8 #76d6ffff models
> color #8 #00fdffff models
> color #8 #76d6ffff models
> color #8 #76d6ffd2 models
> color #8 #76d6ff85 models
> color #8 #76d6ff86 models
> color #8 #76d6ffa6 models
> color #8 #76d6ff80 models
> lighting full
> hide #!8 models
> show #!8 models
> hide #!8 models
> lighting soft
> lighting full
> lighting soft
> save
> /Users/cvetkom/Documents/Replication_meeting_Cambridge_2024/CMGC4MCT_NCP_extended_compos_side.png
> supersample 6 width 2000 transparentBackground true
> lighting full
> save
> /Users/cvetkom/Documents/Replication_meeting_Cambridge_2024/CMGC4MCT_NCP_extended_compos_side2.png
> supersample 6 width 2000 transparentBackground true
> hide #!43 models
> save
> /Users/cvetkom/Documents/Replication_meeting_Cambridge_2024/CMGC4MCT_NCP_extended_compos_side2.png
> supersample 6 width 2000 transparentBackground true
> lighting soft
> lighting simple
> lighting soft
> lighting simple
> lighting soft
> save
> /Users/cvetkom/Documents/Replication_meeting_Cambridge_2024/CMGC4MCT_NCP_extended_compos_side.png
> supersample 6 width 2000 transparentBackground true
> hide #!42 models
> hide #!44 models
> show #!8 models
> color #8 #76d6ffff models
> lighting soft
> lighting full
> save
> /Users/cvetkom/Documents/Replication_meeting_Cambridge_2024/CMGC4MCT_NCP_extended_compos_side_single_map.png
> supersample 6 width 2000 transparentBackground true
> ui tool show "Hide Dust"
> surface dust #8 size 5.7
> surface dust #8 size 5.94
> surface dust #8 size 8.07
> save
> /Users/cvetkom/Documents/Replication_meeting_Cambridge_2024/CMGC4MCT_NCP_extended_compos_side_single_map.png
> supersample 6 width 2000 transparentBackground true
> open
> /Users/cvetkom/Documents/cryoSPARC/cryosparc_P17_J544_007_volume_map_EMReady_zflip.mrc
Opened cryosparc_P17_J544_007_volume_map_EMReady_zflip.mrc as #45, grid size
588,588,588, pixel 0.95, shown at level 0.957, step 4, values float32
> hide #!8 models
> volume #45 step 1
> show #!8 models
> lighting simple
> select add #8
2 models selected
> view sel
> select subtract #8
Nothing selected
> hide #!8 models
> show #!42 models
> show #!44 models
> show #!43 models
> lighting soft
> lighting full
> lighting soft
> lighting full
> hide #!44 models
> hide #!43 models
> hide #!42 models
> show #!45 models
> hide #!45 models
> show #!8 models
> save
> /Users/cvetkom/Documents/Replication_meeting_Cambridge_2024/CMGC4MCT_NCP_extended_compos_bottom-
> up_single_map.png supersample 6 width 2000 transparentBackground true
> hide #!8 models
> show #!42 models
> show #!44 models
> show #!45 models
> hide #!45 models
> show #!43 models
> save
> /Users/cvetkom/Documents/Replication_meeting_Cambridge_2024/CMGC4MCT_NCP_extended_compos_bottom-
> up_composite_map.png supersample 6 width 2000 transparentBackground true
> hide #!44 models
> hide #!43 models
> hide #!42 models
> show #!44 models
> show #!232 models
> hide #!232 models
> show #!232 models
> select add #232
12124 atoms, 12854 bonds, 220 pseudobonds, 1134 residues, 3 models selected
> ui mousemode right "rotate selected models"
> select subtract #232
Nothing selected
> select add #232
12124 atoms, 12854 bonds, 220 pseudobonds, 1134 residues, 3 models selected
> view matrix models
> #232,-0.029351,-0.99871,0.041463,192.22,-0.84724,0.046867,0.52914,242.8,-0.5304,-0.019599,-0.84752,167.58
> view matrix models
> #232,-0.020898,-0.996,0.086876,194.54,-0.84044,0.064565,0.53805,243.54,-0.54151,-0.06177,-0.83842,167.34
> view matrix models
> #232,-0.042506,-0.99356,0.10504,195.69,-0.86935,0.088592,0.48619,241.57,-0.49236,-0.070649,-0.86752,165.27
> view matrix models
> #232,-0.053907,-0.99204,0.11378,196.27,-0.88276,0.1006,0.45894,240.51,-0.46673,-0.0757,-0.88115,164.26
> ui mousemode right "translate selected models"
> view matrix models
> #232,-0.053907,-0.99204,0.11378,197.1,-0.88276,0.1006,0.45894,241.87,-0.46673,-0.0757,-0.88115,162.33
> view matrix models
> #232,-0.053907,-0.99204,0.11378,197.14,-0.88276,0.1006,0.45894,241.9,-0.46673,-0.0757,-0.88115,162.25
> select subtract #232
Nothing selected
> hide #!44 models
> show #!44 models
> fitmap #232 inMap #44
Fit molecule 1id3 (#232) to map
cryosparc_P17_J1206_003_volume_map_sharp_zflip.mrc copy (#44) using 12124
atoms
average map value = 0.2847, steps = 68
shifted from previous position = 3.51
rotated from previous position = 4.37 degrees
atoms outside contour = 5383, contour level = 0.25
Position of 1id3 (#232) relative to
cryosparc_P17_J1206_003_volume_map_sharp_zflip.mrc copy (#44) coordinates:
Matrix rotation and translation
-0.03410625 -0.99613821 0.08090390 194.35377785
-0.72343655 0.08045913 0.68568644 250.18361614
-0.68954791 -0.03514264 -0.72338695 177.33095720
Axis -0.66146232 0.70699818 0.25024222
Axis point 246.51764404 0.00000000 -9.19791182
Rotation angle (degrees) 146.98385179
Shift along axis 92.69735224
> hide #!232 models
> show #!232 models
> hide #!232 models
> show #!177 models
> hide #!177 models
> show #!232 models
> hide #!44 models
> show #!44 models
> hide #!44 models
> show #!44 models
> hide #!44 models
> show #!44 models
> save
> /Users/cvetkom/Documents/chimera_sessions/20240903_CMGC4MCT_Fpl20MN_krios_II_merged_NCP_Tof1HTH_density_comparison.cxs
——— End of log from Wed Sep 4 08:32:44 2024 ———
opened ChimeraX session
OpenGL version: 4.1 ATI-5.5.17
OpenGL renderer: AMD Radeon Pro 5500M OpenGL Engine
OpenGL vendor: ATI Technologies Inc.
Python: 3.11.4
Locale: 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 Pro
Model Identifier: MacBookPro16,1
Processor Name: 8-Core Intel Core i9
Processor Speed: 2.3 GHz
Number of Processors: 1
Total Number of Cores: 8
L2 Cache (per Core): 256 KB
L3 Cache: 16 MB
Hyper-Threading Technology: Enabled
Memory: 16 GB
System Firmware Version: 2022.140.5.0.0 (iBridge: 21.16.6074.0.0,0)
OS Loader Version: 580.140.1~8
Software:
System Software Overview:
System Version: macOS 14.6.1 (23G93)
Kernel Version: Darwin 23.6.0
Time since boot: 18 hours, 55 minutes
Graphics/Displays:
Intel UHD Graphics 630:
Chipset Model: Intel UHD Graphics 630
Type: GPU
Bus: Built-In
VRAM (Dynamic, Max): 1536 MB
Vendor: Intel
Device ID: 0x3e9b
Revision ID: 0x0002
Automatic Graphics Switching: Supported
gMux Version: 5.0.0
Metal Support: Metal 3
AMD Radeon Pro 5500M:
Chipset Model: AMD Radeon Pro 5500M
Type: GPU
Bus: PCIe
PCIe Lane Width: x16
VRAM (Total): 8 GB
Vendor: AMD (0x1002)
Device ID: 0x7340
Revision ID: 0x0040
ROM Revision: 113-D3220E-190
VBIOS Version: 113-D32206U1-019
Option ROM Version: 113-D32206U1-019
EFI Driver Version: 01.A1.190
Automatic Graphics Switching: Supported
gMux Version: 5.0.0
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-In Retina LCD
Resolution: 3072 x 1920 Retina
Framebuffer Depth: 24-Bit Color (ARGB8888)
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
DELL U2415:
Resolution: 1920 x 1200 (WUXGA - Widescreen Ultra eXtended Graphics Array)
UI Looks like: 1920 x 1200 @ 60.00Hz
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Display Serial Number: 7MT016923MAL
Mirror: Off
Online: Yes
Rotation: Supported
Adapter Type: DVI or HDMI
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: 1.6.4
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: 2.12.7
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.1.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.57.1
ChimeraX-AtomicLibrary: 14.0.6
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: 1.2.7
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: 1.0.5
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: 1.8
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: 1.2.4
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: 1.1.10
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: 2.7.1
ChimeraX-MedicalToolbar: 1.0.3
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.14.1
ChimeraX-MMTF: 2.2
ChimeraX-Modeller: 1.5.17
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: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.13.5
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: 3.0.15
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: 1.16.5
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: 1.39.1
ChimeraX-uniprot: 2.3
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.4.3
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: 4.53.0
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: 8.1.3
jedi: 0.19.1
jinja2: 3.1.4
jupyter-client: 8.6.0
jupyter-core: 5.7.2
jupyterlab-widgets: 3.0.11
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: 4.2.2
prompt-toolkit: 3.0.47
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: 6.4.1
traitlets: 5.14.2
typing-extensions: 4.12.2
tzdata: 2024.1
urllib3: 2.2.1
wcwidth: 0.2.13
webcolors: 1.13
wheel: 0.43.0
wheel-filename: 1.4.1
widgetsnbextension: 4.0.11
Change History (2)
comment:1 by , 14 months ago
| Component: | Unassigned → Window Toolkit |
|---|---|
| Description: | modified (diff) |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Crash on Mac waking from sleep |
comment:2 by , 14 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
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Mac Qt 6.6 crash configuring displays in displayConfigFinalizedProc.