![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 2 years ago
Last modified 2 years ago
#9926 closed defect
Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device returned engine == 0 — at Version 1
| Reported by: | Owned by: | Eric Pettersen | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Window Toolkit | Version: | |
| Keywords: | Cc: | Tom Goddard | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description (last modified by )
The following bug report has been submitted:
Platform: macOS-10.16-x86_64-i386-64bit
ChimeraX Version: 1.6.1 (2023-05-09 17:57:07 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 0x00007ff85e9b3640 (most recent call first):
File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py", line 275 in event_loop
File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py", line 892 in init
File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py", line 1043 in
File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 87 in _run_code
File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 197 in _run_module_as_main
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{
"uptime" : 190000,
"procRole" : "Background",
"version" : 2,
"userID" : 7336,
"deployVersion" : 210,
"modelCode" : "MacBookPro15,2",
"coalitionID" : 541,
"osVersion" : {
"train" : "macOS 13.4.1",
"build" : "22F770820d",
"releaseType" : "User"
},
"captureTime" : "2023-10-06 17:14:20.5717 +0200",
"incident" : "DF489EEA-C095-4597-AF51-E7967E708807",
"pid" : 44652,
"cpuType" : "X86-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2023-10-02 16:40:10.7793 +0200",
"procStartAbsTime" : 22102791547119,
"procExitAbsTime" : 191436225626022,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.6.1.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.6.1","CFBundleVersion":"1.6.1.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"1545732F-3ECF-5423-8838-9536F50DE789","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "E8834526-84A6-79EE-EAB6-12A98E7DF4C1",
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 0,
"wakeTime" : 9630,
"bridgeVersion" : {"build":"20P5060","train":"7.5"},
"sleepWakeUUID" : "77BF73BC-92E2-4749-B3A9-D50ED5A4C828",
"sip" : "enabled",
"vmRegionInfo" : "0x18 is not in any region. Bytes before following region: 140737488211944\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n shared memory 7ffffffdd000-7ffffffde000 [ 4K] r-x\/r-x SM=SHM ",
"exception" : {"codes":"0x0000000000000001, 0x0000000000000018","rawCodes":[1,24],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x0000000000000018"},
"ktriageinfo" : "VM - (arg = 0x0) Fault was interrupted\nVM - (arg = 0x0) Fault was interrupted\n",
"vmregioninfo" : "0x18 is not in any region. Bytes before following region: 140737488211944\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n shared memory 7ffffffdd000-7ffffffde000 [ 4K] r-x\/r-x SM=SHM ",
"extMods" : {"caller":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"system":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"targeted":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"warnings":0},
"faultingThread" : 0,
"threads" : 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===== Log before crash start =====
UCSF ChimeraX version: 1.6.1 (2023-05-09)
© 2016-2023 Regents of the University of California. All rights reserved.
> open
> /Users/mbell/sshfs/c0140_4_MotionCor2/Chimera_projects/Rhom_fitting/Rhom_MaskMaking/RH_TrimmedModelFitting_and_MaskSelection.cxs
Opened RHom Model.pdb map 3 as #4, grid size 51,73,158, pixel 1, shown at
level 0.115, step 1, values float32
Opened Rhom_Flagella_Map_2RingMasked.mrc as #6, grid size 200,201,275, pixel
0.94,0.94,0.94, shown at level 0.024, step 1, values float32
Log from Thu Aug 10 13:03:26 2023UCSF ChimeraX version: 1.6.1 (2023-05-09)
© 2016-2023 Regents of the University of California. All rights reserved.
> open
> /Users/mbell/sshfs/c0140_4_MotionCor2/Chimera_projects/Rhom_fitting/Rhom_MaskMaking/RH_TrimmedModelFitting_and_MaskSelection.cxs
Opened RHom Model.pdb map 3 as #4, grid size 51,73,158, pixel 1, shown at
level 0.115, step 1, values float32
Opened Rhom_Flagella_Map_2RingMasked.mrc as #6, grid size 200,201,275, pixel
0.94,0.94,0.94, shown at level 0.024, step 1, values float32
Log from Wed Aug 2 16:13:43 2023UCSF ChimeraX version: 1.6.1 (2023-05-09)
© 2016-2023 Regents of the University of California. All rights reserved.
> open "/Users/mbell/sshfs/c0140_4_MotionCor2/Chimera projects/Rhom
> fitting/Rhom_Modelangelo_Structure.cxs"
Opened Rhom_single_Map_3.1A.mrc as #3, grid size 62,90,171, pixel
0.94,0.94,0.94, shown at level 0.0155, step 1, values float32
Log from Tue Jul 4 11:16:35 2023UCSF ChimeraX version: 1.6.1 (2023-05-09)
© 2016-2023 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /Users/mbell/sshfs/c0140_4_MotionCor2/RhFlaB_Modelangelo_1/gnn_output_round_1/output.cif
Summary of feedback from opening
/Users/mbell/sshfs/c0140_4_MotionCor2/RhFlaB_Modelangelo_1/gnn_output_round_1/output.cif
---
warnings | Missing entity information. Treating each chain as a separate
entity.
Missing or incomplete entity_poly_seq table. Inferred polymer connectivity.
Chain information for output.cif #1
---
Chain | Description
0 | No description available
1 AS AZ d m | No description available
2 | No description available
3 | No description available
4 | No description available
5 | No description available
7 | No description available
8 | No description available
9 DU t | No description available
A | No description available
A0 AG Ai Au B4 BI CA Ex | No description available
A1 | No description available
A3 Ao Ax BU Dk Dp E4 Y b | No description available
A4 | No description available
A6 | No description available
A7 | No description available
A8 AE | No description available
AA | No description available
AB | No description available
AC | No description available
AD | No description available
AF | No description available
AH | No description available
AJ | No description available
AK DR | No description available
AL Aj An | No description available
AM | No description available
AN | No description available
AP | No description available
AQ | No description available
AR | No description available
AT | No description available
AU | No description available
AV DB DD | No description available
AW | No description available
Ac | No description available
Ad | No description available
Af Lf | No description available
Ag | No description available
Ah | No description available
Ak | No description available
Al | No description available
Aq | No description available
At JO | No description available
Aw | No description available
Ay | No description available
B | No description available
B0 | No description available
B3 | No description available
B8 z | No description available
B9 Cb | No description available
BA l | No description available
BE | No description available
BK Dt | No description available
BL Dy | No description available
BN | No description available
BO | No description available
BP | No description available
BY | No description available
Ba | No description available
Bb Bx CD | No description available
Bc | No description available
Bj Bl EW Ep | No description available
Bo | No description available
Bs | No description available
Bt | No description available
Bu | No description available
Bv | No description available
Bz | No description available
C | No description available
C7 | No description available
C8 | No description available
CB x | No description available
CH CS CU | No description available
CI | No description available
CJ | No description available
CV | No description available
CY | No description available
CZ | No description available
Cc | No description available
Ce | No description available
Cf Cl EI | No description available
Cg | No description available
Ci | No description available
D | No description available
D2 | No description available
D4 | No description available
DK V | No description available
DP | No description available
DV | No description available
Db | No description available
De | No description available
Dj | No description available
Dv Dz | No description available
E | No description available
EG h | No description available
EY | No description available
F | No description available
FW | No description available
FZ | No description available
G | No description available
G0 | No description available
G1 | No description available
G2 | No description available
G3 | No description available
G4 | No description available
G5 | No description available
G6 | No description available
G7 | No description available
G8 | No description available
G9 | No description available
GQ | No description available
GU | No description available
GV | No description available
GW | No description available
GX | No description available
GY | No description available
GZ | No description available
Ga | No description available
Gb | No description available
Gc | No description available
Gd | No description available
Ge | No description available
Gf | No description available
Gg | No description available
Gh | No description available
Gi | No description available
Gj | No description available
Gk | No description available
Gl | No description available
Gm | No description available
Gn | No description available
Go | No description available
Gp | No description available
Gq | No description available
Gr | No description available
Gs | No description available
Gt | No description available
Gu | No description available
Gv | No description available
Gw | No description available
Gx | No description available
Gy | No description available
Gz | No description available
H | No description available
H0 | No description available
H1 | No description available
H2 | No description available
H3 | No description available
H4 | No description available
H5 | No description available
H6 | No description available
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HA | No description available
HB | No description available
HC | No description available
HD | No description available
HE | No description available
HF | No description available
HG | No description available
HH | No description available
HI | No description available
HJ | No description available
HK | No description available
HL | No description available
HM | No description available
HN | No description available
HO | No description available
HP | No description available
HQ | No description available
HR | No description available
HS | No description available
HT | No description available
HU | No description available
HV | No description available
HW | No description available
HX | No description available
HY | No description available
HZ | No description available
Ha | No description available
Hb | No description available
Hc | No description available
Hd | No description available
He | No description available
Hf | No description available
Hg | No description available
Hh | No description available
Hi | No description available
Hj | No description available
Hk | No description available
Hl | No description available
Hm | No description available
Hn | No description available
Ho | No description available
Hp | No description available
Hq | No description available
Hr | No description available
Hs | No description available
Ht | No description available
Hu | No description available
Hv | No description available
Hw | No description available
Hx | No description available
Hy | No description available
Hz | No description available
I | No description available
I0 | No description available
I1 | No description available
I2 | No description available
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I4 | No description available
I5 | No description available
I6 | No description available
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IA | No description available
IB | No description available
IC | No description available
ID | No description available
IE | No description available
IF | No description available
IG | No description available
IH | No description available
II | No description available
IJ | No description available
IK | No description available
IL | No description available
IM | No description available
IN | No description available
IO | No description available
IP | No description available
IQ | No description available
IR | No description available
IS | No description available
IT | No description available
IU | No description available
IV | No description available
IW | No description available
IX | No description available
IY | No description available
IZ | No description available
Ia | No description available
Ib | No description available
Ic | No description available
Id | No description available
Ie | No description available
If | No description available
Ig | No description available
Ih | No description available
Ii | No description available
Ij | No description available
Ik | No description available
Il | No description available
Im | No description available
In | No description available
Io | No description available
Ip | No description available
Iq | No description available
Ir | No description available
Is | No description available
It | No description available
Iu | No description available
Iv | No description available
Iw | No description available
Ix | No description available
Iy | No description available
Iz | No description available
J | No description available
J0 | No description available
J1 | No description available
J2 | No description available
J3 | No description available
J4 | No description available
J5 | No description available
J6 | No description available
J7 | No description available
J8 | No description available
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JA | No description available
JB | No description available
JC | No description available
JD | No description available
JE | No description available
JF | No description available
JG | No description available
JH | No description available
JI | No description available
JJ | No description available
JK | No description available
JL | No description available
JM | No description available
JN | No description available
JP | No description available
JQ | No description available
JR | No description available
JS | No description available
JT | No description available
JU | No description available
JV | No description available
JW | No description available
JX | No description available
JY | No description available
JZ | No description available
Ja | No description available
Jb | No description available
Jc | No description available
Jd | No description available
Je | No description available
Jf | No description available
Jg | No description available
Jh | No description available
Ji | No description available
Jj | No description available
Jk | No description available
Jl | No description available
Jm | No description available
Jn | No description available
Jo | No description available
Jp | No description available
Jq | No description available
Jr | No description available
Js | No description available
Jt | No description available
Ju | No description available
Jv | No description available
Jw | No description available
Jx | No description available
Jy | No description available
Jz | No description available
K | No description available
K0 | No description available
K1 | No description available
K2 | No description available
K3 | No description available
K4 | No description available
K5 | No description available
K6 | No description available
K7 | No description available
K8 | No description available
K9 | No description available
KA | No description available
KB | No description available
KC | No description available
KD | No description available
KE | No description available
KF | No description available
KG | No description available
KH | No description available
KI | No description available
KJ | No description available
KK | No description available
KL | No description available
KM | No description available
KN | No description available
KO | No description available
KP | No description available
KQ | No description available
KR | No description available
KS | No description available
KT | No description available
KU | No description available
KV | No description available
KW | No description available
KX | No description available
KY | No description available
KZ | No description available
Ka | No description available
Kb | No description available
Kc | No description available
Kd | No description available
Ke | No description available
Kf | No description available
Kg | No description available
Kh | No description available
Ki | No description available
Kj | No description available
Kk | No description available
Kl | No description available
Km | No description available
Kn | No description available
Ko | No description available
Kp | No description available
Kq | No description available
Kr | No description available
Ks | No description available
Kt | No description available
Ku | No description available
Kv | No description available
Kw | No description available
Kx | No description available
Ky | No description available
Kz | No description available
L | No description available
L0 | No description available
L1 | No description available
L2 | No description available
L3 | No description available
L4 | No description available
L5 | No description available
L6 | No description available
L7 | No description available
L8 | No description available
L9 | No description available
LA | No description available
LB | No description available
LC | No description available
LD | No description available
LE | No description available
LF | No description available
LG | No description available
LH | No description available
LI | No description available
LJ | No description available
LK | No description available
LL | No description available
LM | No description available
LN | No description available
LO | No description available
LP | No description available
LQ | No description available
LR | No description available
LS | No description available
LT | No description available
LU | No description available
LV | No description available
LW | No description available
LX | No description available
LY | No description available
LZ | No description available
La | No description available
Lb | No description available
Lc | No description available
Ld | No description available
Le | No description available
Lg | No description available
Lh | No description available
Li | No description available
Lj | No description available
Lk | No description available
Ll | No description available
Lm | No description available
Ln | No description available
Lo | No description available
Lp | No description available
Lq | No description available
Lr | No description available
Ls | No description available
Lt | No description available
Lu | No description available
Lv | No description available
Lw | No description available
Lx | No description available
Ly | No description available
Lz | No description available
M | No description available
MA | No description available
MB | No description available
MC | No description available
MD | No description available
ME | No description available
MF | No description available
MG | No description available
MH | No description available
MI | No description available
N | No description available
P | No description available
Q | No description available
R | No description available
S | No description available
T | No description available
U | No description available
W | No description available
X | No description available
Z | No description available
a | No description available
c | No description available
e | No description available
g | No description available
i | No description available
j | No description available
k | No description available
n | No description available
o | No description available
p | No description available
q | No description available
r | No description available
s | No description available
u | No description available
v | No description available
y | No description available
> open
> /Users/mbell/sshfs/c0140_4_MotionCor2/RhFlaB_Modelangelo_SingleParticle_1/gnn_output_round_1/output.cif
Summary of feedback from opening
/Users/mbell/sshfs/c0140_4_MotionCor2/RhFlaB_Modelangelo_SingleParticle_1/gnn_output_round_1/output.cif
---
warnings | Missing entity information. Treating each chain as a separate
entity.
Missing or incomplete entity_poly_seq table. Inferred polymer connectivity.
Chain information for output.cif #2
---
Chain | Description
E | No description available
[deleted to fit within ticket limits]
> view matrix models
> #24,-0.8641,0.49333,0.099801,217.28,-0.47285,-0.86361,0.17491,391.07,0.17248,0.10395,0.97951,-92.661
> fitmap #23 inMap #6
Fit molecule copy of copy of copy of copy of copy of Rhom_Model_Trimmed.pdb
(#23) to map Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.01533, steps = 28
shifted from previous position = 0.0129
rotated from previous position = 0.0325 degrees
atoms outside contour = 1404, contour level = 0.023968
Position of copy of copy of copy of copy of copy of Rhom_Model_Trimmed.pdb
(#23) relative to Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
-0.14280944 0.98974751 0.00231057 27.01004015
-0.98974999 -0.14281056 0.00032599 384.66630155
0.00065262 -0.00224033 0.99999728 -31.14805554
Axis -0.00129645 0.00083756 -0.99999881
Axis point 180.08718705 180.60620775 0.00000000
Rotation angle (degrees) 98.21056054
Shift along axis 31.43518161
> fitmap #23 inMap #6
Fit molecule copy of copy of copy of copy of copy of Rhom_Model_Trimmed.pdb
(#23) to map Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.01533, steps = 36
shifted from previous position = 0.0091
rotated from previous position = 0.0387 degrees
atoms outside contour = 1404, contour level = 0.023968
Position of copy of copy of copy of copy of copy of Rhom_Model_Trimmed.pdb
(#23) relative to Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
-0.14216106 0.98984088 0.00229308 26.89566604
-0.98984342 -0.14216180 0.00016459 384.62673223
0.00048891 -0.00224640 0.99999736 -31.11908119
Axis -0.00121786 0.00091134 -0.99999884
Axis point 180.12091039 180.62815995 0.00000000
Rotation angle (degrees) 98.17301470
Shift along axis 31.43681665
> fitmap #24 inMap #6
Fit molecule copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#24) to map Rhom_Flagella_Map_2RingMasked.mrc (#6)
using 2086 atoms
average map value = 0.009696, steps = 284
shifted from previous position = 7.23
rotated from previous position = 15.8 degrees
atoms outside contour = 1683, contour level = 0.023968
Position of copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#24) relative to Rhom_Flagella_Map_2RingMasked.mrc
(#6) coordinates:
Matrix rotation and translation
-0.74511047 0.66627611 0.02977453 184.39464653
-0.66577636 -0.74570489 0.02580784 428.69480834
0.03939816 -0.00059348 0.99922342 -60.41169213
Axis -0.01981562 -0.00722306 -0.99977756
Axis point 174.68050316 179.17355950 0.00000000
Rotation angle (degrees) 138.22751284
Shift along axis 53.64787269
> view matrix models
> #24,-0.6941,0.71984,-0.0080316,176.46,-0.71984,-0.69413,-0.0028391,435.73,-0.0076187,0.0038109,0.99996,-53.779
> ui mousemode right "translate selected models"
> view matrix models
> #24,-0.6941,0.71984,-0.0080316,175.95,-0.71984,-0.69413,-0.0028391,435.69,-0.0076187,0.0038109,0.99996,-59.294
> fitmap #24 inMap #6
Fit molecule copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#24) to map Rhom_Flagella_Map_2RingMasked.mrc (#6)
using 2086 atoms
average map value = 0.01512, steps = 56
shifted from previous position = 0.856
rotated from previous position = 3.01 degrees
atoms outside contour = 1417, contour level = 0.023968
Position of copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#24) relative to Rhom_Flagella_Map_2RingMasked.mrc
(#6) coordinates:
Matrix rotation and translation
-0.65619907 0.75458425 0.00232109 161.86554090
-0.75458613 -0.65620100 0.00009757 435.00235504
0.00159673 -0.00168744 0.99999730 -59.55655411
Axis -0.00118277 0.00047998 -0.99999919
Axis point 180.05778136 180.59683287 0.00000000
Rotation angle (degrees) 131.01080821
Shift along axis 59.57384653
> view matrix models
> #24,-0.6562,0.75458,0.0023211,164.45,-0.75459,-0.6562,9.7566e-05,431.75,0.0015967,-0.0016874,1,-54.315
> view matrix models
> #24,-0.6562,0.75458,0.0023211,163.14,-0.75459,-0.6562,9.7566e-05,435.42,0.0015967,-0.0016874,1,-59.591
> fitmap #24 inMap #6
Fit molecule copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#24) to map Rhom_Flagella_Map_2RingMasked.mrc (#6)
using 2086 atoms
average map value = 0.01512, steps = 48
shifted from previous position = 1.33
rotated from previous position = 0.16 degrees
atoms outside contour = 1410, contour level = 0.023968
Position of copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#24) relative to Rhom_Flagella_Map_2RingMasked.mrc
(#6) coordinates:
Matrix rotation and translation
-0.65423983 0.75628565 0.00150570 161.48783907
-0.75628690 -0.65423992 -0.00050312 435.09898571
0.00060458 -0.00146790 0.99999874 -59.42573024
Axis -0.00063784 0.00059575 -0.99999962
Axis point 180.21418966 180.60854145 0.00000000
Rotation angle (degrees) 130.86208586
Shift along axis 59.58191477
> select clear
> fitmap #24 inMap #6
Fit molecule copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#24) to map Rhom_Flagella_Map_2RingMasked.mrc (#6)
using 2086 atoms
average map value = 0.01512, steps = 36
shifted from previous position = 0.00402
rotated from previous position = 0.0261 degrees
atoms outside contour = 1413, contour level = 0.023968
Position of copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#24) relative to Rhom_Flagella_Map_2RingMasked.mrc
(#6) coordinates:
Matrix rotation and translation
-0.65450283 0.75605747 0.00177723 161.50503784
-0.75605906 -0.65450329 -0.00038929 435.07979840
0.00086888 -0.00159848 0.99999835 -59.44407111
Axis -0.00079967 0.00060071 -0.99999950
Axis point 180.17736710 180.60966239 0.00000000
Rotation angle (degrees) 130.88204248
Shift along axis 59.57624915
> combine #23 #25
> color #25 #6000cbff
> select add #25
2086 atoms, 2098 bonds, 1 pseudobond, 273 residues, 2 models selected
> view matrix models
> #25,-0.14216,0.98984,0.0022931,31.018,-0.98984,-0.14216,0.00016459,383,0.00048891,-0.0022464,1,-34.483
> view matrix models
> #25,-0.14216,0.98984,0.0022931,29.516,-0.98984,-0.14216,0.00016459,386.78,0.00048891,-0.0022464,1,-10.405
> view matrix models
> #25,-0.14216,0.98984,0.0022931,35.605,-0.98984,-0.14216,0.00016459,390.49,0.00048891,-0.0022464,1,-11.887
> fitmap #25 inMap #6
Fit molecule copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#25) to map Rhom_Flagella_Map_2RingMasked.mrc (#6)
using 2086 atoms
average map value = 0.006252, steps = 168
shifted from previous position = 4.09
rotated from previous position = 3.57 degrees
atoms outside contour = 1879, contour level = 0.023968
Position of copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#25) relative to Rhom_Flagella_Map_2RingMasked.mrc
(#6) coordinates:
Matrix rotation and translation
-0.19807400 0.98017507 -0.00484908 51.27967405
-0.97987378 -0.19813334 -0.02430144 401.39819748
-0.02478043 -0.00006200 0.99969292 -8.60662837
Axis 0.01236517 0.01016750 -0.99987185
Axis point 189.72003980 179.74716109 0.00000000
Rotation angle (degrees) 101.43506389
Shift along axis 13.32082319
> view matrix models
> #25,-0.19807,0.98018,-0.0048491,51.973,-0.97987,-0.19813,-0.024301,400.34,-0.02478,-6.1996e-05,0.99969,-0.0019831
> fitmap #25 inMap #6
Fit molecule copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#25) to map Rhom_Flagella_Map_2RingMasked.mrc (#6)
using 2086 atoms
average map value = 0.01538, steps = 576
shifted from previous position = 9.94
rotated from previous position = 29.7 degrees
atoms outside contour = 1415, contour level = 0.023968
Position of copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#25) relative to Rhom_Flagella_Map_2RingMasked.mrc
(#6) coordinates:
Matrix rotation and translation
-0.65713960 0.75376743 0.00148529 162.52255446
-0.75376884 -0.65713905 -0.00089866 435.27146784
0.00029867 -0.00171011 0.99999849 -7.68736589
Axis -0.00053826 0.00078713 -0.99999955
Axis point 180.25598777 180.66912945 0.00000000
Rotation angle (degrees) 131.08212199
Shift along axis 7.94249717
> fitmap #25 inMap #6
Fit molecule copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#25) to map Rhom_Flagella_Map_2RingMasked.mrc (#6)
using 2086 atoms
average map value = 0.01539, steps = 36
shifted from previous position = 0.0182
rotated from previous position = 0.147 degrees
atoms outside contour = 1413, contour level = 0.023968
Position of copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#25) relative to Rhom_Flagella_Map_2RingMasked.mrc
(#6) coordinates:
Matrix rotation and translation
-0.65897332 0.75216327 0.00213916 162.90542091
-0.75216553 -0.65897408 -0.00042719 435.18747632
0.00108834 -0.00189051 0.99999762 -7.79995849
Axis -0.00097274 0.00069853 -0.99999928
Axis point 180.11044523 180.65927726 0.00000000
Rotation angle (degrees) 131.22173875
Shift along axis 7.94548106
> select subtract #25
Nothing selected
> fitmap #1 inMap #6
Fit molecule copy of Rhom_Model_Trimmed.pdb (#1) to map
Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.0154, steps = 40
shifted from previous position = 0.0136
rotated from previous position = 0.0126 degrees
atoms outside contour = 1391, contour level = 0.023968
Position of copy of Rhom_Model_Trimmed.pdb (#1) relative to
Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
0.84103335 0.54098236 0.00099363 -69.10116854
-0.54098326 0.84103143 0.00180284 125.78058227
0.00013963 -0.00205379 0.99999788 -26.40532164
Axis -0.00356445 0.00078930 -0.99999334
Axis point 179.48397901 180.29753030 0.00000000
Rotation angle (degrees) 32.75081362
Shift along axis 26.75073115
> select add #2
4172 atoms, 4196 bonds, 2 pseudobonds, 546 residues, 2 models selected
> select subtract #2
Nothing selected
> select add #3
6258 atoms, 6294 bonds, 3 pseudobonds, 819 residues, 2 models selected
> select subtract #3
Nothing selected
> fitmap #2 inMap #6
Fit molecule combination (#2) to map Rhom_Flagella_Map_2RingMasked.mrc (#6)
using 4172 atoms
average map value = 0.0152, steps = 40
shifted from previous position = 0.00709
rotated from previous position = 0.0482 degrees
atoms outside contour = 2882, contour level = 0.023968
Position of combination (#2) relative to Rhom_Flagella_Map_2RingMasked.mrc
(#6) coordinates:
Matrix rotation and translation
0.99999862 0.00003204 -0.00166022 0.52627021
-0.00002985 0.99999912 0.00132259 -0.44175560
0.00166026 -0.00132254 0.99999775 -50.21532302
Axis -0.62301104 -0.78207719 -0.01457791
Axis point 30239.67506594 0.00000000 573.18936827
Rotation angle (degrees) 0.12163086
Shift along axis 0.74964919
> fitmap #3 inMap #6
Fit molecule combination (#3) to map Rhom_Flagella_Map_2RingMasked.mrc (#6)
using 6258 atoms
average map value = 0.01535, steps = 40
shifted from previous position = 0.0136
rotated from previous position = 0.0207 degrees
atoms outside contour = 4208, contour level = 0.023968
Position of combination (#3) relative to Rhom_Flagella_Map_2RingMasked.mrc
(#6) coordinates:
Matrix rotation and translation
0.84172143 -0.53991002 -0.00148768 126.48019137
0.53991195 0.84171988 0.00165251 -69.22746988
0.00036000 -0.00219417 0.99999753 -21.70049777
Axis -0.00356230 -0.00171109 0.99999219
Axis point 181.33851729 180.95552944 0.00000000
Rotation angle (degrees) 32.67786629
Shift along axis -22.03243458
> select add #4
2 models selected
> select subtract #4
Nothing selected
> select add #5
2086 atoms, 2098 bonds, 1 pseudobond, 273 residues, 2 models selected
> select subtract #5
Nothing selected
> fitmap #5 inMap #6
Fit molecule Rhom_Model_Trimmed.pdb (#5) to map
Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.0153, steps = 40
shifted from previous position = 0.0223
rotated from previous position = 0.00798 degrees
atoms outside contour = 1414, contour level = 0.023968
Position of Rhom_Model_Trimmed.pdb (#5) relative to
Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
0.99999197 0.00398259 -0.00044920 -0.45751742
-0.00398170 0.99999012 0.00197720 0.16247208
0.00045707 -0.00197540 0.99999794 1.71149665
Axis -0.44226160 -0.10140280 -0.89113531
Axis point 6.04202678 263.61988561 0.00000000
Rotation angle (degrees) 0.25603385
Shift along axis -1.33930783
> select add #6
2 models selected
> select subtract #6
Nothing selected
> fitmap #8 inMap #6
Fit molecule copy of Rhom_Model_Trimmed.pdb (#8) to map
Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.01505, steps = 28
shifted from previous position = 0.017
rotated from previous position = 0.00902 degrees
atoms outside contour = 1436, contour level = 0.023968
Position of copy of Rhom_Model_Trimmed.pdb (#8) relative to
Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
0.83915204 -0.54389400 -0.00178156 127.72048235
0.54389608 0.83915199 0.00099395 -69.37353706
0.00095439 -0.00180306 0.99999792 -73.52381512
Axis -0.00257126 -0.00251513 0.99999353
Axis point 181.37040904 180.84034524 0.00000000
Rotation angle (degrees) 32.94942693
Shift along axis -73.67725868
> fitmap #9 inMap #6
Fit molecule copy of copy of Rhom_Model_Trimmed.pdb (#9) to map
Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.01453, steps = 36
shifted from previous position = 0.0114
rotated from previous position = 0.0187 degrees
atoms outside contour = 1498, contour level = 0.023968
Position of copy of copy of Rhom_Model_Trimmed.pdb (#9) relative to
Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
0.41413910 -0.91020970 -0.00266769 270.92657813
0.91021120 0.41414297 -0.00108711 -58.18555016
0.00209430 -0.00197794 0.99999585 -97.17358447
Axis -0.00048935 -0.00261586 0.99999646
Axis point 180.83662047 181.20432112 0.00000000
Rotation angle (degrees) 65.53489573
Shift along axis -97.15361418
> fitmap #10 inMap #6
Fit molecule copy of copy of Rhom_Model_Trimmed.pdb (#10) to map
Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.01551, steps = 28
shifted from previous position = 0.00622
rotated from previous position = 0.035 degrees
atoms outside contour = 1383, contour level = 0.023968
Position of copy of copy of Rhom_Model_Trimmed.pdb (#10) relative to
Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
-0.13983960 -0.99017326 -0.00134170 384.80401362
0.99017347 -0.13983776 -0.00137490 27.49001070
0.00117377 -0.00152078 0.99999815 -17.26195379
Axis -0.00007366 -0.00127022 0.99999919
Axis point 180.47068802 180.87248773 0.00000000
Rotation angle (degrees) 98.03856492
Shift along axis -17.32520360
> fitmap #11 inMap #6
Fit molecule copy of copy of Rhom_Model_Trimmed.pdb (#11) to map
Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.0153, steps = 40
shifted from previous position = 0.00833
rotated from previous position = 0.0519 degrees
atoms outside contour = 1418, contour level = 0.023968
Position of copy of copy of Rhom_Model_Trimmed.pdb (#11) relative to
Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
0.41742880 -0.90870795 -0.00175169 269.81930859
0.90870684 0.41743152 -0.00167635 -58.37229426
0.00225453 -0.00089201 0.99999706 -45.68706120
Axis 0.00043157 -0.00220434 0.99999748
Axis point 180.52305269 181.21486497 0.00000000
Rotation angle (degrees) 65.32764408
Shift along axis -45.44182786
> fitmap #12 inMap #6
Fit molecule copy of copy of copy of Rhom_Model_Trimmed.pdb (#12) to map
Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.0152, steps = 28
shifted from previous position = 0.0183
rotated from previous position = 0.038 degrees
atoms outside contour = 1416, contour level = 0.023968
Position of copy of copy of copy of Rhom_Model_Trimmed.pdb (#12) relative to
Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
-0.14420560 -0.98954703 -0.00119417 385.46259200
0.98954694 -0.14420383 -0.00145528 28.43552833
0.00126786 -0.00139154 0.99999823 -68.95440132
Axis 0.00003220 -0.00124402 0.99999923
Axis point 180.47349817 180.85651389 0.00000000
Rotation angle (degrees) 98.29128017
Shift along axis -68.97730905
> fitmap #13 inMap #6
Fit molecule copy of copy of copy of Rhom_Model_Trimmed.pdb (#13) to map
Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.01543, steps = 28
shifted from previous position = 0.0113
rotated from previous position = 0.00522 degrees
atoms outside contour = 1426, contour level = 0.023968
Position of copy of copy of copy of Rhom_Model_Trimmed.pdb (#13) relative to
Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
-0.65377827 -0.75668616 0.00015289 434.98650437
0.75668355 -0.65377653 -0.00250094 162.70234225
0.00199238 -0.00151937 0.99999686 -40.87032994
Axis 0.00064860 -0.00121549 0.99999905
Axis point 180.29563300 180.84638586 0.00000000
Rotation angle (degrees) 130.82712958
Shift along axis -40.78592358
> fitmap #14 inMap #6
Fit molecule copy of copy of copy of copy of Rhom_Model_Trimmed.pdb (#14) to
map Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.01479, steps = 40
shifted from previous position = 0.00803
rotated from previous position = 0.0181 degrees
atoms outside contour = 1465, contour level = 0.023968
Position of copy of copy of copy of copy of Rhom_Model_Trimmed.pdb (#14)
relative to Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
-0.65470287 -0.75588630 0.00022386 435.00375875
0.75588192 -0.65470003 -0.00322228 163.32252658
0.00258224 -0.00194042 0.99999478 -92.56773102
Axis 0.00084792 -0.00156001 0.99999842
Axis point 180.27032934 180.96414755 0.00000000
Rotation angle (degrees) 130.89721416
Shift along axis -92.45352270
> fitmap #15 inMap #6
Fit molecule copy of copy of copy of copy of copy of Rhom_Model_Trimmed.pdb
(#15) to map Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.01541, steps = 28
shifted from previous position = 0.00169
rotated from previous position = 0.0556 degrees
atoms outside contour = 1411, contour level = 0.023968
Position of copy of copy of copy of copy of copy of Rhom_Model_Trimmed.pdb
(#15) relative to Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
-0.95819392 -0.28611740 0.00111108 404.65508980
0.28611551 -0.95819380 -0.00159970 302.34297634
0.00152233 -0.00121492 0.99999810 -12.64928371
Axis 0.00067241 -0.00071868 0.99999952
Axis point 180.24441520 180.73014442 0.00000000
Rotation angle (degrees) 163.37439554
Shift along axis -12.59447051
> fitmap #16 inMap #6
Fit molecule copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#16) to map Rhom_Flagella_Map_2RingMasked.mrc (#6)
using 2086 atoms
average map value = 0.0152, steps = 24
shifted from previous position = 0.00202
rotated from previous position = 0.0708 degrees
atoms outside contour = 1420, contour level = 0.023968
Position of copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#16) relative to Rhom_Flagella_Map_2RingMasked.mrc
(#6) coordinates:
Matrix rotation and translation
-0.95955628 -0.28151231 0.00159846 403.94390438
0.28151002 -0.95955709 -0.00151592 303.40558781
0.00196057 -0.00100462 0.99999757 -64.40554858
Axis 0.00090812 -0.00064314 0.99999938
Axis point 180.21042969 180.70171087 0.00000000
Rotation angle (degrees) 163.64957295
Shift along axis -64.23381110
> fitmap #17 inMap #6
Fit molecule copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#17) to map Rhom_Flagella_Map_2RingMasked.mrc (#6)
using 2086 atoms
average map value = 0.01537, steps = 28
shifted from previous position = 0.0209
rotated from previous position = 0.0247 degrees
atoms outside contour = 1421, contour level = 0.023968
Position of copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#17) relative to Rhom_Flagella_Map_2RingMasked.mrc
(#6) coordinates:
Matrix rotation and translation
-0.95986796 0.28044688 0.00174608 302.52418206
-0.28044920 -0.95986803 -0.00126688 404.68907168
0.00132071 -0.00170572 0.99999767 -36.01547225
Axis -0.00078240 0.00075837 -0.99999941
Axis point 180.22880599 180.68394135 0.00000000
Rotation angle (degrees) 163.71304315
Shift along axis 36.08565975
> fitmap #18 inMap #6
Fit molecule copy of copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#18) to map Rhom_Flagella_Map_2RingMasked.mrc (#6)
using 2086 atoms
average map value = 0.01498, steps = 28
shifted from previous position = 0.00864
rotated from previous position = 0.0164 degrees
atoms outside contour = 1453, contour level = 0.023968
Position of copy of copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#18) relative to Rhom_Flagella_Map_2RingMasked.mrc
(#6) coordinates:
Matrix rotation and translation
-0.95957585 0.28144002 0.00238970 302.00023716
-0.28144333 -0.95957712 -0.00118285 404.85440494
0.00196020 -0.00180760 0.99999645 -87.79431407
Axis -0.00110991 0.00076304 -0.99999909
Axis point 180.11740640 180.69949255 0.00000000
Rotation angle (degrees) 163.65371753
Shift along axis 87.76796138
> fitmap #19 inMap #6
Fit molecule copy of copy of Rhom_Model_Trimmed.pdb (#19) to map
Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.01493, steps = 28
shifted from previous position = 0.0115
rotated from previous position = 0.0419 degrees
atoms outside contour = 1444, contour level = 0.023968
Position of copy of copy of Rhom_Model_Trimmed.pdb (#19) relative to
Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
0.84254165 0.53863119 0.00004860 -68.71619613
-0.53863008 0.84253972 0.00211011 124.94312568
0.00109562 -0.00180403 0.99999777 -78.26153068
Axis -0.00363339 -0.00097193 -0.99999293
Axis point 179.61617395 179.55410829 0.00000000
Rotation angle (degrees) 32.59072804
Shift along axis 78.38921439
> fitmap #20 inMap #6
Fit molecule copy of copy of copy of Rhom_Model_Trimmed.pdb (#20) to map
Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.01534, steps = 28
shifted from previous position = 0.0159
rotated from previous position = 0.0654 degrees
atoms outside contour = 1412, contour level = 0.023968
Position of copy of copy of copy of Rhom_Model_Trimmed.pdb (#20) relative to
Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
0.41160538 0.91136090 0.00152611 -58.64798270
-0.91136177 0.41160304 0.00163385 270.10105124
0.00086087 -0.00206334 0.99999750 -3.03033913
Axis -0.00202838 0.00036497 -0.99999788
Axis point 179.85724021 180.46465256 0.00000000
Rotation angle (degrees) 65.69443003
Shift along axis 3.24787095
> fitmap #21 inMap #6
Fit molecule copy of copy of copy of copy of Rhom_Model_Trimmed.pdb (#21) to
map Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.01522, steps = 24
shifted from previous position = 0.00152
rotated from previous position = 0.0182 degrees
atoms outside contour = 1408, contour level = 0.023968
Position of copy of copy of copy of copy of Rhom_Model_Trimmed.pdb (#21)
relative to Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
0.41365576 0.91043332 0.00028374 -58.60331930
-0.91043041 0.41365360 0.00267859 269.23227676
0.00232130 -0.00136634 0.99999637 -55.02009813
Axis -0.00222142 -0.00111900 -0.99999691
Axis point 179.82932268 180.04982971 0.00000000
Rotation angle (degrees) 65.56549039
Shift along axis 54.84883867
> fitmap #21 inMap #6
Fit molecule copy of copy of copy of copy of Rhom_Model_Trimmed.pdb (#21) to
map Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.01522, steps = 28
shifted from previous position = 0.0177
rotated from previous position = 0.0393 degrees
atoms outside contour = 1407, contour level = 0.023968
Position of copy of copy of copy of copy of Rhom_Model_Trimmed.pdb (#21)
relative to Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
0.41423889 0.91016813 0.00034710 -58.66743246
-0.91016582 0.41423691 0.00244018 269.14666199
0.00207719 -0.00132673 0.99999696 -55.00380759
Axis -0.00206935 -0.00095042 -0.99999741
Axis point 179.86655133 180.09059491 0.00000000
Rotation angle (degrees) 65.52876294
Shift along axis 54.86926551
> fitmap #22 inMap #6
Fit molecule copy of copy of copy of copy of copy of Rhom_Model_Trimmed.pdb
(#22) to map Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.0149, steps = 36
shifted from previous position = 0.00498
rotated from previous position = 0.0426 degrees
atoms outside contour = 1452, contour level = 0.023968
Position of copy of copy of copy of copy of copy of Rhom_Model_Trimmed.pdb
(#22) relative to Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
-0.14031145 0.99010493 0.00221808 26.42117415
-0.99010655 -0.14031393 0.00100864 384.10203892
0.00130989 -0.00205462 0.99999703 -82.94561679
Axis -0.00154693 0.00045864 -0.99999870
Axis point 180.01164114 180.50575691 0.00000000
Rotation angle (degrees) 98.06602657
Shift along axis 83.08080032
> fitmap #23 inMap #6
Fit molecule copy of copy of copy of copy of copy of Rhom_Model_Trimmed.pdb
(#23) to map Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.01533, steps = 40
shifted from previous position = 0.0144
rotated from previous position = 0.0298 degrees
atoms outside contour = 1404, contour level = 0.023968
Position of copy of copy of copy of copy of copy of Rhom_Model_Trimmed.pdb
(#23) relative to Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
-0.14267480 0.98976690 0.00232231 26.98430751
-0.98976949 -0.14267561 0.00018775 384.67375794
0.00051717 -0.00227176 0.99999729 -31.12496109
Axis -0.00124247 0.00091190 -0.99999881
Axis point 180.09860100 180.61905247 0.00000000
Rotation angle (degrees) 98.20275706
Shift along axis 31.44218063
> fitmap #23 inMap #6
Fit molecule copy of copy of copy of copy of copy of Rhom_Model_Trimmed.pdb
(#23) to map Rhom_Flagella_Map_2RingMasked.mrc (#6) using 2086 atoms
average map value = 0.01533, steps = 40
shifted from previous position = 0.015
rotated from previous position = 0.011 degrees
atoms outside contour = 1407, contour level = 0.023968
Position of copy of copy of copy of copy of copy of Rhom_Model_Trimmed.pdb
(#23) relative to Rhom_Flagella_Map_2RingMasked.mrc (#6) coordinates:
Matrix rotation and translation
-0.14249516 0.98979264 0.00237762 26.94258213
-0.98979537 -0.14249594 0.00016303 384.66380948
0.00050016 -0.00233013 0.99999716 -31.10078363
Axis -0.00125943 0.00094841 -0.99999876
Axis point 180.10373553 180.62922421 0.00000000
Rotation angle (degrees) 98.19236090
Shift along axis 31.43163084
> fitmap #24 inMap #6
Fit molecule copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#24) to map Rhom_Flagella_Map_2RingMasked.mrc (#6)
using 2086 atoms
average map value = 0.01512, steps = 24
shifted from previous position = 0.00214
rotated from previous position = 0.0688 degrees
atoms outside contour = 1415, contour level = 0.023968
Position of copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#24) relative to Rhom_Flagella_Map_2RingMasked.mrc
(#6) coordinates:
Matrix rotation and translation
-0.65536139 0.75531260 0.00207820 161.68803112
-0.75531443 -0.65536256 -0.00014930 435.03834750
0.00124921 -0.00166754 0.99999783 -59.49277285
Axis -0.00100504 0.00054877 -0.99999934
Axis point 180.11681860 180.60141746 0.00000000
Rotation angle (degrees) 130.94718500
Shift along axis 59.56896879
> fitmap #25 inMap #6
Fit molecule copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#25) to map Rhom_Flagella_Map_2RingMasked.mrc (#6)
using 2086 atoms
average map value = 0.01539, steps = 40
shifted from previous position = 0.00313
rotated from previous position = 0.0105 degrees
atoms outside contour = 1410, contour level = 0.023968
Position of copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb (#25) relative to Rhom_Flagella_Map_2RingMasked.mrc
(#6) coordinates:
Matrix rotation and translation
-0.65895236 0.75218212 0.00195902 162.94011377
-0.75218405 -0.65895293 -0.00043265 435.18790108
0.00096547 -0.00175865 0.99999799 -7.80153019
Axis -0.00088143 0.00066045 -0.99999939
Axis point 180.13129350 180.65055489 0.00000000
Rotation angle (degrees) 131.22012104
Shift along axis 7.94532386
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> combine #1-3,5,8-25 name 2Ring_Trimmed
Remapping chain ID 'A' in combination #2 to 'C'
Remapping chain ID 'A' in combination #3 to 'D'
Remapping chain ID 'B' in combination #3 to 'E'
Remapping chain ID 'C' in combination #3 to 'F'
Remapping chain ID 'A' in Rhom_Model_Trimmed.pdb #5 to 'G'
Remapping chain ID 'A' in copy of Rhom_Model_Trimmed.pdb #8 to 'H'
Remapping chain ID 'A' in copy of copy of Rhom_Model_Trimmed.pdb #9 to 'I'
Remapping chain ID 'A' in copy of copy of Rhom_Model_Trimmed.pdb #10 to 'J'
Remapping chain ID 'A' in copy of copy of Rhom_Model_Trimmed.pdb #11 to 'K'
Remapping chain ID 'A' in copy of copy of copy of Rhom_Model_Trimmed.pdb #12
to 'L'
Remapping chain ID 'A' in copy of copy of copy of Rhom_Model_Trimmed.pdb #13
to 'M'
Remapping chain ID 'A' in copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb #14 to 'N'
Remapping chain ID 'A' in copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb #15 to 'O'
Remapping chain ID 'A' in copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb #16 to 'P'
Remapping chain ID 'A' in copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb #17 to 'Q'
Remapping chain ID 'A' in copy of copy of copy of copy of copy of copy of copy
of Rhom_Model_Trimmed.pdb #18 to 'R'
Remapping chain ID 'A' in copy of copy of Rhom_Model_Trimmed.pdb #19 to 'S'
Remapping chain ID 'A' in copy of copy of copy of Rhom_Model_Trimmed.pdb #20
to 'T'
Remapping chain ID 'A' in copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb #21 to 'U'
Remapping chain ID 'A' in copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb #22 to 'V'
Remapping chain ID 'A' in copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb #23 to 'W'
Remapping chain ID 'A' in copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb #24 to 'X'
Remapping chain ID 'A' in copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb #25 to 'Y'
> hide #!26 models
> show #!26 models
> hide #!26 models
> show #!26 models
> hide #!25 models
> hide #!24 models
> hide #!23 models
> hide #!22 models
> hide #!21 models
> hide #!20 models
> hide #!19 models
> hide #!18 models
> hide #!17 models
> hide #!16 models
> hide #!15 models
> hide #!14 models
> hide #!13 models
> hide #!26 models
> hide #!12 models
> hide #!11 models
> hide #!10 models
> hide #!9 models
> hide #!8 models
> hide #!6 models
> hide #!5 models
> show #!6 models
> hide #!3 models
> hide #!2 models
> hide #!1 models
> show #!26 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> hide #!26 models
> show #!26 models
> show #!14 models
> hide #!14 models
> hide #!26 models
> show #!6 models
> show #!20 models
> show #!21 models
> show #!22 models
> show #!23 models
> show #!25 models
> show #!24 models
> show #!19 models
> show #!18 models
> show #!17 models
> show #!16 models
> show #!15 models
> show #!14 models
> hide #!19 models
> show #!19 models
> hide #!20 models
> hide #!19 models
> show #!19 models
> hide #!19 models
> show #!19 models
> hide #!19 models
> hide #!21 models
> hide #!23 models
> hide #!14 models
> hide #!22 models
> hide #!6 models
> show #!6 models
> combine #15-18,24-25 name 6Flagellin_Representative
Remapping chain ID 'A' in copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb #16 to 'B'
Remapping chain ID 'A' in copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb #17 to 'C'
Remapping chain ID 'A' in copy of copy of copy of copy of copy of copy of copy
of Rhom_Model_Trimmed.pdb #18 to 'D'
Remapping chain ID 'A' in copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb #24 to 'E'
Remapping chain ID 'A' in copy of copy of copy of copy of copy of copy of
Rhom_Model_Trimmed.pdb #25 to 'F'
> hide #!15 models
> hide #!16 models
> hide #!17 models
> hide #!18 models
> hide #!24 models
> hide #!25 models
> hide #!27 models
> show #!27 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> molmap #27 radius 3
Missing or invalid "resolution" argument: Expected a number
> molmap #27 resolution 3
Missing or invalid "resolution" argument: Expected a number
> molmap #27 resolution 5
Missing or invalid "resolution" argument: Expected a number
> molmap #27 resolution 2
Missing or invalid "resolution" argument: Expected a number
> molmap #27 resolution 2
Missing or invalid "resolution" argument: Expected a number
> molmap #27
Missing or invalid "resolution" argument: Expected a number
> molmap #27 resolution5
Missing or invalid "resolution" argument: Expected a number
> molmap #27 resolution 5
Missing or invalid "resolution" argument: Expected a number
> molmap #27 resolution 2
Missing or invalid "resolution" argument: Expected a number
> hide #!27 models
> show #!27 models
> select add #27
12516 atoms, 12588 bonds, 6 pseudobonds, 1638 residues, 2 models selected
> select subtract #27
Nothing selected
> molmap #27 resolution 5
Missing or invalid "resolution" argument: Expected a number
> save "/Users/mbell/sshfs/c0140_4_MotionCor2/Chimera projects/Rhom
> fitting/Rhom_2Ring_Trimmed.pdb" models #26
> save "/Users/mbell/sshfs/c0140_4_MotionCor2/Chimera projects/Rhom
> fitting/Rhom_MaskMaking/6_Flagellin_Selection_ForMask.pdb" models #27
> save "/Users/mbell/sshfs/c0140_4_MotionCor2/Chimera projects/Rhom
> fitting/Rhom_MaskMaking/RH_TrimmedModelFitting_and_MaskSelection.cxs"
——— End of log from Wed Aug 2 16:13:43 2023 ———
opened ChimeraX session
> hide #!27 models
> show #!27 models
> save
> /Users/mbell/sshfs/c0140_4_MotionCor2/Chimera_projects/Rhom_fitting/Rhom_MaskMaking/RH_TrimmedModelFitting_and_MaskSelection.cxs
——— End of log from Thu Aug 10 13:03:26 2023 ———
opened ChimeraX session
> show #!26 models
> hide #!27 models
> show #!27 models
> hide #!27 models
> show #!1 models
> hide #!1 models
> show #!4 models
> hide #!4 models
> show #!6 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> show #7 models
> hide #7 models
> lighting soft
> lighting full
> lighting soft
> lighting full
> set bgColor white
> hide #!6 models
> show #!6 models
> color #6 #e1ffe478 models
> color #6 #fffefa78 models
> color #6 #b3b3b078 models
> color #6 #a7adb378 models
> color #6 #a9b3af78 models
> color #6 #f0fff978 models
> color #6 #7af4ff78 models
> save /Users/mbell/Desktop/image1.png supersample 3
> ui tool show "Side View"
> view
> select add #26
52150 atoms, 52450 bonds, 25 pseudobonds, 6825 residues, 2 models selected
> view orient
> ui tool show "Side View"
> view sel
> ui tool show "Side View"
> select clear
> save /Users/mbell/Desktop/image2.png supersample 3
> open
> /Users/mbell/sshfs/R_inulinivorans/InitialModel/job010/initial_model.mrc
Opened initial_model.mrc as #28, grid size 384,384,384, pixel 0.94, shown at
level 0.0168, step 2, values float32
> close #28
> save
> /Users/mbell/sshfs/c0140_4_MotionCor2/Chimera_projects/Rhom_ISOLDE/Current.cxs
> hide #!26 models
> show #!26 models
> show #!27 models
> hide #!26 models
> show #!26 models
> close session
> open
> /Users/mbell/sshfs/R_inulinivorans/InitialModel/job010/initial_model.mrc
> format mrc
Opened initial_model.mrc as #1, grid size 384,384,384, pixel 0.94, shown at
level 0.0168, step 2, values float32
> open
> /Users/mbell/sshfs/c0140_4_MotionCor2/Chimera_projects/Rhom_ISOLDE/Current.cxs
> format session
No such file/path:
/Users/mbell/sshfs/c0140_4_MotionCor2/Chimera_projects/Rhom_ISOLDE/Current.cxs
> open
> /Users/mbell/sshfs/c0140_4_MotionCor2/Chimera_projects/Rhom_fitting/Rhom_MaskMaking/RH_TrimmedModelFitting_and_MaskSelection.cxs
> format session
No such file/path:
/Users/mbell/sshfs/c0140_4_MotionCor2/Chimera_projects/Rhom_fitting/Rhom_MaskMaking/RH_TrimmedModelFitting_and_MaskSelection.cxs
> open
> /Users/mbell/sshfs/c0140_4_MotionCor2/Chimera_projects/Rhom_fitting/Rhom_MaskMaking/RH_TrimmedModelFitting_and_MaskSelection.cxs
> format session
Opened RHom Model.pdb map 3 as #4, grid size 51,73,158, pixel 1, shown at
level 0.115, step 1, values float32
Opened Rhom_Flagella_Map_2RingMasked.mrc as #6, grid size 200,201,275, pixel
0.94,0.94,0.94, shown at level 0.024, step 1, values float32
opened ChimeraX session
> hide #!27 models
> show #!26 models
> open
> /Users/mbell/sshfs/c0140_4_MotionCor2/Chimera_projects/Rhom_ISOLDE/Current.cxs
> format session
Opened RHom Model.pdb map 3 as #4, grid size 51,73,158, pixel 1, shown at
level 0.115, step 1, values float32
Opened Rhom_Flagella_Map_2RingMasked.mrc as #6, grid size 200,201,275, pixel
0.94,0.94,0.94, shown at level 0.024, step 1, values float32
opened ChimeraX session
> set bgColor black
> close session
> open
> /Users/mbell/sshfs/R_inulinivorans/InitialModel/job011/initial_model.mrc
Opened initial_model.mrc as #1, grid size 384,384,384, pixel 0.94, shown at
level 0.016, step 2, values float32
> open
> /Users/mbell/sshfs/R_inulinivorans/InitialModel/job010/initial_model.mrc
Opened initial_model.mrc as #2, grid size 384,384,384, pixel 0.94, shown at
level 0.0168, step 2, values float32
Unsupported scale factor (0.000000) detected on Display0
QPainter::begin: Paint device returned engine == 0, type: 3
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.6.1 (2023-05-09)
© 2016-2023 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 INTEL-20.6.1
OpenGL renderer: Intel(R) Iris(TM) Plus Graphics 655
OpenGL vendor: Intel Inc.
Python: 3.9.11
Locale: UTF-8
Qt version: PyQt6 6.4.2, Qt 6.4.2
Qt runtime version: 6.4.3
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: MacBookPro15,2
Processor Name: Quad-Core Intel Core i5
Processor Speed: 2.4 GHz
Number of Processors: 1
Total Number of Cores: 4
L2 Cache (per Core): 256 KB
L3 Cache: 6 MB
Hyper-Threading Technology: Enabled
Memory: 8 GB
System Firmware Version: 1968.120.12.0.0 (iBridge: 20.16.5060.0.0,0)
OS Loader Version: 577~170
Software:
System Software Overview:
System Version: macOS 13.4.1 (c) (22F770820d)
Kernel Version: Darwin 22.5.0
Time since boot: 5 days, 22 hours, 11 minutes
Graphics/Displays:
Intel Iris Plus Graphics 655:
Chipset Model: Intel Iris Plus Graphics 655
Type: GPU
Bus: Built-In
VRAM (Dynamic, Max): 1536 MB
Vendor: Intel
Device ID: 0x3ea5
Revision ID: 0x0001
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-In Retina LCD
Resolution: 2560 x 1600 Retina
Framebuffer Depth: 30-Bit Color (ARGB2101010)
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: 7MT0197I2H9S
Mirror: Off
Online: Yes
Rotation: Supported
Installed Packages:
alabaster: 0.7.13
appdirs: 1.4.4
appnope: 0.1.3
asttokens: 2.2.1
Babel: 2.12.1
backcall: 0.2.0
beautifulsoup4: 4.11.2
blockdiag: 3.0.0
build: 0.10.0
certifi: 2021.10.8
cftime: 1.6.2
charset-normalizer: 3.1.0
ChimeraX-AddCharge: 1.5.9.1
ChimeraX-AddH: 2.2.5
ChimeraX-AlignmentAlgorithms: 2.0.1
ChimeraX-AlignmentHdrs: 3.3.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.9.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.3
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.43.10
ChimeraX-AtomicLibrary: 10.0.6
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.3.2
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.1.2
ChimeraX-BondRot: 2.0.1
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.8
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.2.2
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.3.2
ChimeraX-ChangeChains: 1.0.2
ChimeraX-CheckWaters: 1.3.1
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.2.4
ChimeraX-Clipper: 0.21.0
ChimeraX-ColorActions: 1.0.3
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.3
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.6.1
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.4.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2
ChimeraX-DistMonitor: 1.4
ChimeraX-DockPrep: 1.1.1
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: 1.2.1
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ISOLDE: 1.6.0
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-Label: 1.1.7
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.5
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.2
ChimeraX-Map: 1.1.4
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: 2.0.12
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.2
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.12
ChimeraX-MMTF: 2.2
ChimeraX-Modeller: 1.5.9
ChimeraX-ModelPanel: 1.3.7
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.0
ChimeraX-NRRD: 1.0
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.10.1
ChimeraX-PDB: 2.7.2
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.1
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 3.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.1
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.8.3
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.1.1
ChimeraX-ShowSequences: 1.0.1
ChimeraX-SideView: 1.0.1
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.10.3
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.1.2
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.2.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1.2
ChimeraX-ToolshedUtils: 1.2.1
ChimeraX-Topography: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.28.4
ChimeraX-uniprot: 2.2.2
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.2
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.1
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.1.3
contourpy: 1.0.7
cxservices: 1.2.2
cycler: 0.11.0
Cython: 0.29.33
debugpy: 1.6.7
decorator: 5.1.1
docutils: 0.19
executing: 1.2.0
filelock: 3.9.0
fonttools: 4.39.3
funcparserlib: 1.0.1
grako: 3.16.5
h5py: 3.8.0
html2text: 2020.1.16
idna: 3.4
ihm: 0.35
imagecodecs: 2022.9.26
imagesize: 1.4.1
importlib-metadata: 6.6.0
ipykernel: 6.21.1
ipython: 8.10.0
ipython-genutils: 0.2.0
ipywidgets: 8.0.6
jedi: 0.18.2
Jinja2: 3.1.2
jupyter-client: 8.0.2
jupyter-core: 5.3.0
jupyterlab-widgets: 3.0.7
kiwisolver: 1.4.4
line-profiler: 4.0.2
lxml: 4.9.2
lz4: 4.3.2
MarkupSafe: 2.1.2
matplotlib: 3.6.3
matplotlib-inline: 0.1.6
msgpack: 1.0.4
nest-asyncio: 1.5.6
netCDF4: 1.6.2
networkx: 2.8.8
nibabel: 5.0.1
nptyping: 2.5.0
numexpr: 2.8.4
numpy: 1.23.5
openvr: 1.23.701
packaging: 21.3
ParmEd: 3.4.3
parso: 0.8.3
pep517: 0.13.0
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 9.3.0
pip: 23.0
pkginfo: 1.9.6
platformdirs: 3.5.0
prompt-toolkit: 3.0.38
psutil: 5.9.4
ptyprocess: 0.7.0
pure-eval: 0.2.2
pycollada: 0.7.2
pydicom: 2.3.0
Pygments: 2.14.0
pynrrd: 1.0.0
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 3.0.9
pyproject-hooks: 1.0.0
PyQt6-commercial: 6.4.2
PyQt6-Qt6: 6.4.3
PyQt6-sip: 13.4.1
PyQt6-WebEngine-commercial: 6.4.0
PyQt6-WebEngine-Qt6: 6.4.3
python-dateutil: 2.8.2
pytz: 2023.3
pyzmq: 25.0.2
qtconsole: 5.4.0
QtPy: 2.3.1
RandomWords: 0.4.0
requests: 2.28.2
scipy: 1.9.3
setuptools: 67.4.0
setuptools-scm: 7.0.5
sfftk-rw: 0.7.3
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.4.1
sphinx: 6.1.3
sphinx-autodoc-typehints: 1.22
sphinxcontrib-applehelp: 1.0.4
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.1
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
stack-data: 0.6.2
tables: 3.7.0
tcia-utils: 1.2.0
tifffile: 2022.10.10
tinyarray: 1.2.4
tomli: 2.0.1
tornado: 6.3.1
traitlets: 5.9.0
typing-extensions: 4.5.0
tzdata: 2023.3
urllib3: 1.26.15
wcwidth: 0.2.6
webcolors: 1.12
wheel: 0.38.4
wheel-filename: 1.4.1
widgetsnbextension: 4.0.7
zipp: 3.15.0
Change History (1)
comment:1 by , 2 years ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Window Toolkit |
| Description: | modified (diff) |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device returned engine == 0 |
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