id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 8928 MemoryError saving maps in sessions chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: Windows-10-10.0.19043 ChimeraX Version: 1.5 (2022-11-24 00:03:27 UTC) Description (Describe the actions that caused this problem to occur here) Log: UCSF ChimeraX version: 1.5 (2022-11-24) © 2016-2022 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open ""C:\\\Users\\\Administrator\\\Desktop\\\To PP\\\To > PP\\\J377\\\J377-Crt8mer-0415.mrc"" Opened J377-Crt8mer-0415.mrc as #1, grid size 432,432,432, pixel 1.11, shown at level 0.0381, step 2, values float32 > open ""D:/微信下载文件/WeChat > Files/wxid_2n1dull1jbk622/FileStorage/File/2023-05/Crt-8-0501-coot-0.pdb"" Chain information for Crt-8-0501-coot-0.pdb #2 --- Chain | Description A I | No description available B J | No description available C M | No description available D N | No description available E G K O | No description available F L | No description available H P | No description available > open ""D:/微信下载文件/WeChat > Files/wxid_2n1dull1jbk622/FileStorage/File/2023-05/Crt-8-0501-coot-0.pdb"" Chain information for Crt-8-0501-coot-0.pdb #3 --- Chain | Description A I | No description available B J | No description available C M | No description available D N | No description available E G K O | No description available F L | No description available H P | No description available > close #3 > volume #1 step 1 > volume #1 level 0.1 > surface dust #1 size 11.1 > hide atoms > volume #1 level 0.3256 > close #2 > open ""D:/微信下载文件/WeChat > Files/wxid_2n1dull1jbk622/FileStorage/File/2023-05/Crt-8-0501-coot-0.pdb"" Chain information for Crt-8-0501-coot-0.pdb #2 --- Chain | Description A I | No description available B J | No description available C M | No description available D N | No description available E G K O | No description available F L | No description available H P | No description available > volume #1 level 0.1 > hide atoms > volume #1 level 0.2215 > hide #2 models > show #2 models > color #2 #3b6691ff > color bfactor 31984 atoms, 3648 residues, atom bfactor range 20 to 374 > set bgColor white > set bgColor #ffffff00 > close #2 > open ""D:/微信下载文件/WeChat > Files/wxid_2n1dull1jbk622/FileStorage/File/2023-05/Crt-8-0501-coot-0.pdb"" Chain information for Crt-8-0501-coot-0.pdb #2 --- Chain | Description A I | No description available B J | No description available C M | No description available D N | No description available E G K O | No description available F L | No description available H P | No description available > show cartoons > hide atoms > volume #1 level 0.1 > ui tool show ""Show Sequence Viewer"" > split #2 Split Crt-8-0501-coot-0.pdb (#2) into 16 models Chain information for Crt-8-0501-coot-0.pdb A #2.1 --- Chain | Description A | No description available Chain information for Crt-8-0501-coot-0.pdb B #2.2 --- Chain | Description B | No description available Chain information for Crt-8-0501-coot-0.pdb C #2.3 --- Chain | Description C | No description available Chain information for Crt-8-0501-coot-0.pdb D #2.4 --- Chain | Description D | No description available Chain information for Crt-8-0501-coot-0.pdb E #2.5 --- Chain | Description E | No description available Chain information for Crt-8-0501-coot-0.pdb F #2.6 --- Chain | Description F | No description available Chain information for Crt-8-0501-coot-0.pdb G #2.7 --- Chain | Description G | No description available Chain information for Crt-8-0501-coot-0.pdb H #2.8 --- Chain | Description H | No description available Chain information for Crt-8-0501-coot-0.pdb I #2.9 --- Chain | Description I | No description available Chain information for Crt-8-0501-coot-0.pdb J #2.10 --- Chain | Description J | No description available Chain information for Crt-8-0501-coot-0.pdb K #2.11 --- Chain | Description K | No description available Chain information for Crt-8-0501-coot-0.pdb L #2.12 --- Chain | Description L | No description available Chain information for Crt-8-0501-coot-0.pdb M #2.13 --- Chain | Description M | No description available Chain information for Crt-8-0501-coot-0.pdb N #2.14 --- Chain | Description N | No description available Chain information for Crt-8-0501-coot-0.pdb O #2.15 --- Chain | Description O | No description available Chain information for Crt-8-0501-coot-0.pdb P #2.16 --- Chain | Description P | No description available > hide #!1 models > select add #2.1 3618 atoms, 3710 bonds, 448 residues, 1 model selected > select subtract #2.1 Nothing selected > select add #2.1 3618 atoms, 3710 bonds, 448 residues, 1 model selected > select subtract #2.1 Nothing selected > select add #2.1 3618 atoms, 3710 bonds, 448 residues, 1 model selected > ui tool show ""Color Actions"" > color sel medium blue > select add #2.2 7147 atoms, 7328 bonds, 870 residues, 2 models selected > select subtract #2.2 3618 atoms, 3710 bonds, 448 residues, 1 model selected > select add #2.4 7150 atoms, 7331 bonds, 870 residues, 2 models selected > select subtract #2.4 3618 atoms, 3710 bonds, 448 residues, 1 model selected > select add #2.5 4040 atoms, 4182 bonds, 469 residues, 2 models selected > select subtract #2.5 3618 atoms, 3710 bonds, 448 residues, 1 model selected > select add #2.5 4040 atoms, 4182 bonds, 469 residues, 2 models selected > color sel yellow > undo > select subtract #2.1 422 atoms, 472 bonds, 21 residues, 1 model selected > select add #2 31984 atoms, 33114 bonds, 3648 residues, 17 models selected > select subtract #2 Nothing selected > select add #2.6 432 atoms, 485 bonds, 21 residues, 1 model selected > color sel yellow > select subtract #2.6 Nothing selected > select add #2.7 422 atoms, 472 bonds, 21 residues, 1 model selected > select subtract #2.7 Nothing selected > select add #2.7 422 atoms, 472 bonds, 21 residues, 1 model selected > color sel yellow > select subtract #2.7 Nothing selected > select add #2.8 411 atoms, 461 bonds, 20 residues, 1 model selected > color sel orange red [Repeated 1 time(s)] > select subtract #2.8 Nothing selected > select add #2.9 3618 atoms, 3710 bonds, 448 residues, 1 model selected > select subtract #2.9 Nothing selected > select add #2.9 3618 atoms, 3710 bonds, 448 residues, 1 model selected > select subtract #2.9 Nothing selected > select add #2.6 432 atoms, 485 bonds, 21 residues, 1 model selected > select add #2.7 854 atoms, 957 bonds, 42 residues, 2 models selected > select add #2.8 1265 atoms, 1418 bonds, 62 residues, 3 models selected > select add #2.5 1687 atoms, 1890 bonds, 83 residues, 4 models selected > select subtract #2.6 1255 atoms, 1405 bonds, 62 residues, 3 models selected > select subtract #2.7 833 atoms, 933 bonds, 41 residues, 2 models selected > select subtract #2.8 422 atoms, 472 bonds, 21 residues, 1 model selected > color sel orange red > select add #2.6 854 atoms, 957 bonds, 42 residues, 2 models selected > select add #2.7 1276 atoms, 1429 bonds, 63 residues, 3 models selected > select add #2.8 1687 atoms, 1890 bonds, 83 residues, 4 models selected > show sel atoms > nucleotides sel stubs > select subtract #2.8 1276 atoms, 1429 bonds, 63 residues, 3 models selected > select subtract #2.7 854 atoms, 957 bonds, 42 residues, 2 models selected > select subtract #2.6 422 atoms, 472 bonds, 21 residues, 1 model selected > select subtract #2.5 Nothing selected > select add #2.9 3618 atoms, 3710 bonds, 448 residues, 1 model selected > color sel dodger blue > select subtract #2.9 Nothing selected > select add #2.10 3529 atoms, 3618 bonds, 422 residues, 1 model selected > select subtract #2.10 Nothing selected > select add #2.10 3529 atoms, 3618 bonds, 422 residues, 1 model selected > color sel medium orchid > select subtract #2.10 Nothing selected > select add #2.11 422 atoms, 472 bonds, 21 residues, 1 model selected > select subtract #2.11 Nothing selected > select add #2.11 422 atoms, 472 bonds, 21 residues, 1 model selected > color sel yellow > color sel orange red > select subtract #2.11 Nothing selected > select add #2.12 432 atoms, 485 bonds, 21 residues, 1 model selected > color sel yellow > select subtract #2.12 Nothing selected > select add #2.13 3626 atoms, 3718 bonds, 449 residues, 1 model selected > select subtract #2.13 Nothing selected > select add #2.13 3626 atoms, 3718 bonds, 449 residues, 1 model selected > color sel medium blue > select subtract #2.13 Nothing selected > select add #2.14 3532 atoms, 3621 bonds, 422 residues, 1 model selected > color sel rebecca purple > select subtract #2.14 Nothing selected > select add #2.15 422 atoms, 472 bonds, 21 residues, 1 model selected > color sel yellow > select subtract #2.15 Nothing selected > select add #2.16 411 atoms, 461 bonds, 20 residues, 1 model selected > color sel orange red > select subtract #2.16 Nothing selected > select add #2.3 3626 atoms, 3718 bonds, 449 residues, 1 model selected > select subtract #2.3 Nothing selected > select add #2.4 3532 atoms, 3621 bonds, 422 residues, 1 model selected > ui tool show ""Color Actions"" > color sel medium orchid > select subtract #2.4 Nothing selected > select add #2.2 3529 atoms, 3618 bonds, 422 residues, 1 model selected > color sel rebecca purple > select add #2 31984 atoms, 33114 bonds, 3648 residues, 17 models selected > select subtract #2 Nothing selected > ui tool show ""Show Sequence Viewer"" > sequence chain #2.2/B #2.10/J Alignment identifier is 1 > sequence chain #2.4/D #2.14/N Alignment identifier is 2 > select #2.2/B:1-2 #2.10/J:1-2 38 atoms, 36 bonds, 4 residues, 2 models selected > select #2.2/B:1-129 #2.10/J:1-129 2100 atoms, 2140 bonds, 258 residues, 2 models selected 1 [ID: 1] region chains B,J [1-129] RMSD: 39.787 > select #2.4/D:1-2 #2.14/N:1-2 38 atoms, 36 bonds, 4 residues, 2 models selected > select #2.4/D:1-67 #2.14/N:1-67 1108 atoms, 1134 bonds, 134 residues, 2 models selected 2 [ID: 2] region chains D,N [1-67] RMSD: 43.654 > select #2.4/D:1-2 #2.14/N:1-2 38 atoms, 36 bonds, 4 residues, 2 models selected > select #2.4/D:1-90 #2.14/N:1-90 1466 atoms, 1494 bonds, 180 residues, 2 models selected 2 [ID: 2] region chains D,N [1-90] RMSD: 40.159 > ui mousemode right select > select clear > select #2.4/D:1 8 atoms, 7 bonds, 1 residue, 1 model selected > select add #2.4/D:163 17 atoms, 15 bonds, 2 residues, 1 model selected > select up 218 atoms, 221 bonds, 26 residues, 1 model selected > select clear > select #2.4/D:1 8 atoms, 7 bonds, 1 residue, 1 model selected > select up 142 atoms, 145 bonds, 17 residues, 1 model selected > select add #2.4/D:18 149 atoms, 151 bonds, 18 residues, 1 model selected > select up 226 atoms, 231 bonds, 27 residues, 1 model selected > select add #2.4/D:28 234 atoms, 238 bonds, 28 residues, 1 model selected > select up 390 atoms, 402 bonds, 46 residues, 1 model selected > select add #2.4/D:47 396 atoms, 407 bonds, 47 residues, 1 model selected > select up 466 atoms, 478 bonds, 55 residues, 1 model selected > select up 3532 atoms, 3621 bonds, 422 residues, 1 model selected > select down 466 atoms, 478 bonds, 55 residues, 1 model selected > select add #2.4/D:56 474 atoms, 485 bonds, 56 residues, 1 model selected > select up 586 atoms, 599 bonds, 71 residues, 1 model selected > select clear > select #2.4/D:1 #2.14/N:1 16 atoms, 14 bonds, 2 residues, 2 models selected > select #2.4/D:1-163 #2.14/N:1-163 2672 atoms, 2728 bonds, 326 residues, 2 models selected 2 [ID: 2] region chains D,N [1-163] RMSD: 46.050 > color sel forest green > select #2.2/B:163 #2.10/J:163 18 atoms, 16 bonds, 2 residues, 2 models selected > select #2.2/B:1-163 #2.10/J:1-163 2670 atoms, 2726 bonds, 326 residues, 2 models selected 1 [ID: 1] region chains B,J [1-163] RMSD: 47.192 > ui tool show ""Color Actions"" > color sel dark green [Repeated 1 time(s)] > select clear > select #2.14/N:1 8 atoms, 7 bonds, 1 residue, 1 model selected > select up 131 atoms, 133 bonds, 16 residues, 1 model selected > select add #2.14/N:17 142 atoms, 144 bonds, 17 residues, 1 model selected > select up 226 atoms, 231 bonds, 27 residues, 1 model selected > select add #2.14/N:28 234 atoms, 238 bonds, 28 residues, 1 model selected > select up 390 atoms, 402 bonds, 46 residues, 1 model selected > select add #2.14/N:47 396 atoms, 407 bonds, 47 residues, 1 model selected > select up 466 atoms, 478 bonds, 55 residues, 1 model selected > select add #2.14/N:56 474 atoms, 485 bonds, 56 residues, 1 model selected > select up 586 atoms, 599 bonds, 71 residues, 1 model selected > select add #2.14/N:72 595 atoms, 607 bonds, 72 residues, 1 model selected > select up 716 atoms, 730 bonds, 88 residues, 1 model selected > select add #2.14/N:89 725 atoms, 738 bonds, 89 residues, 1 model selected > select up 887 atoms, 904 bonds, 109 residues, 1 model selected > select add #2.14/N:110 895 atoms, 911 bonds, 110 residues, 1 model selected > select up 912 atoms, 929 bonds, 112 residues, 1 model selected > select add #2.14/N:115 920 atoms, 936 bonds, 113 residues, 1 model selected > select subtract #2.14/N:105 908 atoms, 922 bonds, 112 residues, 1 model selected > select add #2.14/N:113 915 atoms, 928 bonds, 113 residues, 1 model selected > select add #2.14/N:114 926 atoms, 938 bonds, 114 residues, 1 model selected > select add #2.14/N:105 938 atoms, 950 bonds, 115 residues, 1 model selected > select add #2.14/N:116 946 atoms, 957 bonds, 116 residues, 1 model selected > select up 1002 atoms, 1020 bonds, 123 residues, 1 model selected > select add #2.14/N:124 1016 atoms, 1035 bonds, 124 residues, 1 model selected > select up 1117 atoms, 1138 bonds, 137 residues, 1 model selected > select add #2.14/N:138 1126 atoms, 1146 bonds, 138 residues, 1 model selected > select up 1188 atoms, 1212 bonds, 146 residues, 1 model selected > select add #2.14/N:147 1198 atoms, 1222 bonds, 147 residues, 1 model selected > select up 1281 atoms, 1307 bonds, 157 residues, 1 model selected > select add #2.14/N:158 1292 atoms, 1318 bonds, 158 residues, 1 model selected > select up 1376 atoms, 1404 bonds, 168 residues, 1 model selected > select add #2.14/N:369 1390 atoms, 1419 bonds, 169 residues, 1 model selected > select subtract #2.14/N:369 1376 atoms, 1404 bonds, 168 residues, 1 model selected > select subtract #2.14/N:168 1367 atoms, 1395 bonds, 167 residues, 1 model selected > select subtract #2.14/N:167 1358 atoms, 1386 bonds, 166 residues, 1 model selected > select subtract #2.14/N:166 1349 atoms, 1377 bonds, 165 residues, 1 model selected > select subtract #2.14/N:165 1341 atoms, 1369 bonds, 164 residues, 1 model selected > select subtract #2.14/N:164 1336 atoms, 1364 bonds, 163 residues, 1 model selected > ui tool show ""Color Actions"" > color sel dark green > select clear > select #2.10/J:1 8 atoms, 7 bonds, 1 residue, 1 model selected > select up 123 atoms, 125 bonds, 15 residues, 1 model selected > select add #2.10/J:16 131 atoms, 132 bonds, 16 residues, 1 model selected > select up 233 atoms, 238 bonds, 28 residues, 1 model selected > select add #2.10/J:29 237 atoms, 241 bonds, 29 residues, 1 model selected > select up 309 atoms, 317 bonds, 37 residues, 1 model selected > select add #2.10/J:38 320 atoms, 328 bonds, 38 residues, 1 model selected > select up 336 atoms, 345 bonds, 40 residues, 1 model selected > select add #2.10/J:41 345 atoms, 353 bonds, 41 residues, 1 model selected > select up 364 atoms, 373 bonds, 44 residues, 1 model selected > select add #2.10/J:45 375 atoms, 384 bonds, 45 residues, 1 model selected > select up 465 atoms, 477 bonds, 55 residues, 1 model selected > select add #2.10/J:56 473 atoms, 484 bonds, 56 residues, 1 model selected > select up 548 atoms, 561 bonds, 66 residues, 1 model selected > select add #2.10/J:67 553 atoms, 565 bonds, 67 residues, 1 model selected > select up 574 atoms, 587 bonds, 70 residues, 1 model selected > select add #2.10/J:71 585 atoms, 597 bonds, 71 residues, 1 model selected > select up 3529 atoms, 3618 bonds, 422 residues, 1 model selected > select down 585 atoms, 597 bonds, 71 residues, 1 model selected > select add #2.10/J:72 594 atoms, 605 bonds, 72 residues, 1 model selected > select up 715 atoms, 729 bonds, 88 residues, 1 model selected > select add #2.10/J:89 724 atoms, 737 bonds, 89 residues, 1 model selected > select up 842 atoms, 858 bonds, 104 residues, 1 model selected > select add #2.10/J:105 854 atoms, 870 bonds, 105 residues, 1 model selected > select up 870 atoms, 887 bonds, 107 residues, 1 model selected > select add #2.10/J:108 878 atoms, 894 bonds, 108 residues, 1 model selected > select up 1015 atoms, 1035 bonds, 124 residues, 1 model selected > select add #2.10/J:125 1020 atoms, 1039 bonds, 125 residues, 1 model selected > select up 1125 atoms, 1146 bonds, 138 residues, 1 model selected > select add #2.10/J:139 1133 atoms, 1153 bonds, 139 residues, 1 model selected > select up 1218 atoms, 1243 bonds, 150 residues, 1 model selected > select #2.10/J:151 8 atoms, 7 bonds, 1 residue, 1 model selected > select clear Drag select of 135 residues Drag select of 39 residues Drag select of 9 residues Drag select of 2 residues Drag select of 3 residues > select add #2.10/J:43 1256 atoms, 6 bonds, 153 residues, 3 models selected > select #2.10/J:10 5 atoms, 4 bonds, 1 residue, 1 model selected Drag select of 104 residues Drag select of 64 residues Drag select of 6 residues > select subtract #2.2/B:108 1246 atoms, 4 bonds, 152 residues, 2 models selected > select add #2.10/J:68 1250 atoms, 7 bonds, 153 residues, 2 models selected > select add #2.10/J:103 1258 atoms, 14 bonds, 154 residues, 2 models selected > select add #2.10/J:118 1266 atoms, 21 bonds, 155 residues, 2 models selected > select add #2.10/J:137 1275 atoms, 29 bonds, 156 residues, 2 models selected > select add #2.10/J:10 1280 atoms, 29 bonds, 157 residues, 2 models selected > select subtract #2.14/N:117 1275 atoms, 29 bonds, 156 residues, 2 models selected > select subtract #2.14/N:118 1267 atoms, 29 bonds, 155 residues, 1 model selected > select add #2.10/J:52 1276 atoms, 37 bonds, 156 residues, 1 model selected > select add #2.10/J:148 1282 atoms, 42 bonds, 157 residues, 1 model selected > select add #2.10/J:155 1291 atoms, 50 bonds, 158 residues, 1 model selected > select add #2.10/J:159 1299 atoms, 57 bonds, 159 residues, 1 model selected > select add #2.10/J:160 1309 atoms, 67 bonds, 160 residues, 1 model selected > select add #2.10/J:161 1317 atoms, 74 bonds, 161 residues, 1 model selected > select add #2.10/J:162 1326 atoms, 82 bonds, 162 residues, 1 model selected > select add #2.10/J:163 1335 atoms, 90 bonds, 163 residues, 1 model selected > color sel forest green > select clear > ui tool show ""Color Zone"" > color zone #1 near #2.1 distance 2 > volume splitbyzone #1 Opened J377-Crt8mer-0415.mrc 0 as #3.1, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 1 as #3.2, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 QWindowsWindow::setGeometry: Unable to set geometry 1920x1193+0+35 (frame: 1942x1249-11-10) on QWidgetWindow/""MainWindowClassWindow"" on ""\\\\.\DISPLAY1"". Resulting geometry: 1920x1046+0+34 (frame: 1942x1102-11-11) margins: 11, 45, 11, 11 minimum size: 506x795 MINMAXINFO(maxSize=POINT(x=0, y=0), maxpos=POINT(x=0, y=0), maxtrack=POINT(x=0, y=0), mintrack=POINT(x=781, y=1249))) > color zone #1 near #2.2 distance 2 > volume splitbyzone #1 Opened J377-Crt8mer-0415.mrc 0 as #4.1, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 1 as #4.2, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 2 as #4.3, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 > color zone #1 near #2.3 distance 2 > volume splitbyzone #1 Opened J377-Crt8mer-0415.mrc 0 as #5.1, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 1 as #5.2, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 > color zone #1 near #2.4 distance 2 > volume splitbyzone #1 Opened J377-Crt8mer-0415.mrc 0 as #6.1, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 1 as #6.2, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 2 as #6.3, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 > color zone #1 near #2.5 distance 2 > volume splitbyzone #1 Opened J377-Crt8mer-0415.mrc 0 as #7.1, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 1 as #7.2, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 > color zone #1 near #2.6 distance 2 > volume splitbyzone #1 Opened J377-Crt8mer-0415.mrc 0 as #8.1, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 1 as #8.2, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 > color zone #1 near #2.7 distance 2 > volume splitbyzone #1 Opened J377-Crt8mer-0415.mrc 0 as #9.1, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 1 as #9.2, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 > color zone #1 near #2.8 distance 2 > volume splitbyzone #1 Opened J377-Crt8mer-0415.mrc 0 as #10.1, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 1 as #10.2, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 > hide #2.2 models > show #2.2 models > hide #!4.1 models > hide #!5 models > hide #!6 models > show #!6 models > show #!5 models > show #!4.1 models > hide #!3.1 models > hide #!4.1 models > hide #!5.1 models > hide #!6.1 models > hide #!7.1 models > hide #!8 models > show #!8 models > hide #!8 models > hide #!9.1 models > show #!8 models > hide #!8.1 models > hide #!10.1 models > color zone #1 near #2.9 distance 2 > volume splitbyzone #1 Opened J377-Crt8mer-0415.mrc 0 as #11.1, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 1 as #11.2, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 > color zone #1 near #2.10 distance 2 > volume splitbyzone #1 Opened J377-Crt8mer-0415.mrc 0 as #12.1, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 1 as #12.2, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 2 as #12.3, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 > color zone #1 near #2.11 distance 2 > volume splitbyzone #1 Opened J377-Crt8mer-0415.mrc 0 as #13.1, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 1 as #13.2, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 > color zone #1 near #2.13 distance 2 > volume splitbyzone #1 Opened J377-Crt8mer-0415.mrc 0 as #14.1, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 1 as #14.2, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 > color zone #1 near #2.14 distance 2 > volume splitbyzone #1 Opened J377-Crt8mer-0415.mrc 0 as #15.1, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 1 as #15.2, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 2 as #15.3, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 > color zone #1 near #2.15 distance 2 > volume splitbyzone #1 Opened J377-Crt8mer-0415.mrc 0 as #16.1, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 1 as #16.2, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 > color zone #1 near #2.16 distance 2 > volume splitbyzone #1 Opened J377-Crt8mer-0415.mrc 0 as #17.1, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 1 as #17.2, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 > hide #!17.1 models > hide #!16.1 models > hide #!15.1 models > hide #!14.1 models > hide #!13.1 models > hide #!12.1 models > hide #!11.1 models > color #3.2 #5fa2e9ff models > color #3.2 #3b6691ff models > color #3.2 #5fa2e9ff models > color #4.2 #7e99b8ff models > color #4.2 #65905bff models > color #4.3 #b05aadff models > color #4.3 #785cabff models > color #5.2 #5fa2e9ff models > color #5.2 #7e99b8ff models > color #6.2 #65905bff models > color #6.2 darkseagreen models > color #6.3 #b05aadff models > color #6.3 #774879ff models > color #6.3 #b05aadff models > color #11.2 #3b6691ff models > color #11.2 #7e99b8ff models > color #12.2 #65905bff models > color #12.2 darkseagreen models > color #12.3 #65905bff models > color #12.3 #785cabff models > color #12.3 #b05aadff models [Repeated 1 time(s)] > color #14.2 #5fa2e9ff models > color #15.2 #65905bff models > color #15.2 #774879ff models > color #15.2 #36600eff models > color #15.2 #65905bff models > color #15.2 #36600eff models > lighting soft > lighting shadows true intensity 0.5 > select #2.12/L:21 20 atoms, 21 bonds, 1 residue, 1 model selected > select up 432 atoms, 485 bonds, 21 residues, 1 model selected > select up 31984 atoms, 33114 bonds, 3648 residues, 16 models selected > select down 432 atoms, 485 bonds, 21 residues, 1 model selected > ui tool show ""Color Zone"" > color zone #1 near #2.12 distance 2 > volume splitbyzone #1 Opened J377-Crt8mer-0415.mrc 0 as #18.1, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 Opened J377-Crt8mer-0415.mrc 1 as #18.2, grid size 432,432,432, pixel 1.11, shown at level 0.1, step 1, values float32 > hide #!18.1 models > save ""C:/Users/Administrator/Desktop/To PP/To PP/J377/J377.cxs"" includeMaps > true Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 285, in process data = sm.take_snapshot(obj, session, self.state_flags) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\session.py"", line 200, in take_snapshot data = state_from_grid_data(self.grid_data, session_path = session.session_file_path, File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\session.py"", line 310, in state_from_grid_data bytes = dt.matrix().tobytes() MemoryError The above exception was the direct cause of the following exception: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 262, in discovery self.processed[key] = self.process(obj, parents) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 290, in process raise RuntimeError(msg) from e RuntimeError: Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 0' -> During handling of the above exception, another exception occurred: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 899, in save session.save(output, version=version, include_maps=include_maps) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 625, in save mgr.discovery(self._state_containers) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 266, in discovery raise ValueError(""error processing: %s: %s"" % (_obj_stack(parents, obj), e)) ValueError: error processing: 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 0' -> : Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 0' -> ValueError: error processing: 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 0' -> : Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 0' -> File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 266, in discovery raise ValueError(""error processing: %s: %s"" % (_obj_stack(parents, obj), e)) See log for complete Python traceback. Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 285, in process data = sm.take_snapshot(obj, session, self.state_flags) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\session.py"", line 200, in take_snapshot data = state_from_grid_data(self.grid_data, session_path = session.session_file_path, File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\session.py"", line 310, in state_from_grid_data bytes = dt.matrix().tobytes() MemoryError The above exception was the direct cause of the following exception: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 262, in discovery self.processed[key] = self.process(obj, parents) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 290, in process raise RuntimeError(msg) from e RuntimeError: Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 0' -> During handling of the above exception, another exception occurred: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 116, in lambda *args, ses=session: show_save_file_dialog(ses), tool_tip=""Save output file"", File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 127, in show_save_file_dialog _dlg.display(session, **kw) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 51, in display run(session, cmd) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\commands\run.py"", line 38, in run results = command.run(text, log=log, return_json=return_json) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2897, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\cmd.py"", line 75, in cmd_save Command(session, registry=registry).run(provider_cmd_text, log=log) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2897, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\cmd.py"", line 90, in provider_save saver_info.save(session, path, **provider_kw) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core_formats\\__init__.py"", line 84, in save return cxs_save(session, path, **kw) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 899, in save session.save(output, version=version, include_maps=include_maps) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 625, in save mgr.discovery(self._state_containers) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 266, in discovery raise ValueError(""error processing: %s: %s"" % (_obj_stack(parents, obj), e)) ValueError: error processing: 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 0' -> : Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 0' -> ValueError: error processing: 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 0' -> : Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 0' -> File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 266, in discovery raise ValueError(""error processing: %s: %s"" % (_obj_stack(parents, obj), e)) See log for complete Python traceback. > color #15.2 #65905bff models > color #4.2 #36600eff models > color #4.2 #65905bff models > select add #2 31984 atoms, 33114 bonds, 3648 residues, 17 models selected > select subtract #2 Nothing selected > select add #2 31984 atoms, 33114 bonds, 3648 residues, 17 models selected > select subtract #2 Nothing selected > select add #1 2 models selected > select subtract #1 Nothing selected > select add #1 2 models selected > select subtract #1 Nothing selected > save ""C:/Users/Administrator/Desktop/To PP/To PP/J377/J377.cxs"" includeMaps > true Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 285, in process data = sm.take_snapshot(obj, session, self.state_flags) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\session.py"", line 200, in take_snapshot data = state_from_grid_data(self.grid_data, session_path = session.session_file_path, File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\session.py"", line 310, in state_from_grid_data bytes = dt.matrix().tobytes() MemoryError The above exception was the direct cause of the following exception: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 262, in discovery self.processed[key] = self.process(obj, parents) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 290, in process raise RuntimeError(msg) from e RuntimeError: Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> During handling of the above exception, another exception occurred: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 899, in save session.save(output, version=version, include_maps=include_maps) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 625, in save mgr.discovery(self._state_containers) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 266, in discovery raise ValueError(""error processing: %s: %s"" % (_obj_stack(parents, obj), e)) ValueError: error processing: 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> : Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> ValueError: error processing: 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> : Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 266, in discovery raise ValueError(""error processing: %s: %s"" % (_obj_stack(parents, obj), e)) See log for complete Python traceback. Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 285, in process data = sm.take_snapshot(obj, session, self.state_flags) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\session.py"", line 200, in take_snapshot data = state_from_grid_data(self.grid_data, session_path = session.session_file_path, File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\session.py"", line 310, in state_from_grid_data bytes = dt.matrix().tobytes() MemoryError The above exception was the direct cause of the following exception: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 262, in discovery self.processed[key] = self.process(obj, parents) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 290, in process raise RuntimeError(msg) from e RuntimeError: Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> During handling of the above exception, another exception occurred: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 116, in lambda *args, ses=session: show_save_file_dialog(ses), tool_tip=""Save output file"", File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 127, in show_save_file_dialog _dlg.display(session, **kw) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 51, in display run(session, cmd) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\commands\run.py"", line 38, in run results = command.run(text, log=log, return_json=return_json) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2897, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\cmd.py"", line 75, in cmd_save Command(session, registry=registry).run(provider_cmd_text, log=log) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2897, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\cmd.py"", line 90, in provider_save saver_info.save(session, path, **provider_kw) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core_formats\\__init__.py"", line 84, in save return cxs_save(session, path, **kw) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 899, in save session.save(output, version=version, include_maps=include_maps) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 625, in save mgr.discovery(self._state_containers) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 266, in discovery raise ValueError(""error processing: %s: %s"" % (_obj_stack(parents, obj), e)) ValueError: error processing: 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> : Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> ValueError: error processing: 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> : Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 266, in discovery raise ValueError(""error processing: %s: %s"" % (_obj_stack(parents, obj), e)) See log for complete Python traceback. > hide #!2 models > show #!2 models > hide #!2 models > show #!2 models > hide #!2 models > show #!2 models > hide #!2 models > hide #2.1 models > hide #2.2 models > hide #2.3 models > hide #2.4 models > hide #2.5 models > hide #2.6 models > hide #2.7 models > hide #2.8 models > hide #2.9 models > hide #2.10 models > hide #2.11 models > hide #2.12 models > hide #2.13 models > hide #2.14 models > hide #2.15 models > hide #2.16 models > save ""C:/Users/Administrator/Desktop/To PP/To PP/J377/J377.cxs"" includeMaps > true Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 285, in process data = sm.take_snapshot(obj, session, self.state_flags) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\session.py"", line 200, in take_snapshot data = state_from_grid_data(self.grid_data, session_path = session.session_file_path, File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\session.py"", line 310, in state_from_grid_data bytes = dt.matrix().tobytes() MemoryError The above exception was the direct cause of the following exception: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 262, in discovery self.processed[key] = self.process(obj, parents) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 290, in process raise RuntimeError(msg) from e RuntimeError: Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> During handling of the above exception, another exception occurred: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 899, in save session.save(output, version=version, include_maps=include_maps) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 625, in save mgr.discovery(self._state_containers) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 266, in discovery raise ValueError(""error processing: %s: %s"" % (_obj_stack(parents, obj), e)) ValueError: error processing: 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> : Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> ValueError: error processing: 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> : Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 266, in discovery raise ValueError(""error processing: %s: %s"" % (_obj_stack(parents, obj), e)) See log for complete Python traceback. Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 285, in process data = sm.take_snapshot(obj, session, self.state_flags) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\session.py"", line 200, in take_snapshot data = state_from_grid_data(self.grid_data, session_path = session.session_file_path, File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\session.py"", line 310, in state_from_grid_data bytes = dt.matrix().tobytes() MemoryError The above exception was the direct cause of the following exception: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 262, in discovery self.processed[key] = self.process(obj, parents) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 290, in process raise RuntimeError(msg) from e RuntimeError: Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> During handling of the above exception, another exception occurred: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 116, in lambda *args, ses=session: show_save_file_dialog(ses), tool_tip=""Save output file"", File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 127, in show_save_file_dialog _dlg.display(session, **kw) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 51, in display run(session, cmd) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\commands\run.py"", line 38, in run results = command.run(text, log=log, return_json=return_json) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2897, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\cmd.py"", line 75, in cmd_save Command(session, registry=registry).run(provider_cmd_text, log=log) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2897, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\cmd.py"", line 90, in provider_save saver_info.save(session, path, **provider_kw) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core_formats\\__init__.py"", line 84, in save return cxs_save(session, path, **kw) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 899, in save session.save(output, version=version, include_maps=include_maps) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 625, in save mgr.discovery(self._state_containers) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 266, in discovery raise ValueError(""error processing: %s: %s"" % (_obj_stack(parents, obj), e)) ValueError: error processing: 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> : Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> ValueError: error processing: 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> : Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 266, in discovery raise ValueError(""error processing: %s: %s"" % (_obj_stack(parents, obj), e)) See log for complete Python traceback. > save ""C:/Users/Administrator/Desktop/To PP/To PP/J377/1.cxs"" includeMaps > true Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 285, in process data = sm.take_snapshot(obj, session, self.state_flags) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\session.py"", line 200, in take_snapshot data = state_from_grid_data(self.grid_data, session_path = session.session_file_path, File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\session.py"", line 310, in state_from_grid_data bytes = dt.matrix().tobytes() MemoryError The above exception was the direct cause of the following exception: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 262, in discovery self.processed[key] = self.process(obj, parents) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 290, in process raise RuntimeError(msg) from e RuntimeError: Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> During handling of the above exception, another exception occurred: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 899, in save session.save(output, version=version, include_maps=include_maps) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 625, in save mgr.discovery(self._state_containers) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 266, in discovery raise ValueError(""error processing: %s: %s"" % (_obj_stack(parents, obj), e)) ValueError: error processing: 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> : Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> ValueError: error processing: 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> : Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 266, in discovery raise ValueError(""error processing: %s: %s"" % (_obj_stack(parents, obj), e)) See log for complete Python traceback. Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 285, in process data = sm.take_snapshot(obj, session, self.state_flags) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\session.py"", line 200, in take_snapshot data = state_from_grid_data(self.grid_data, session_path = session.session_file_path, File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\session.py"", line 310, in state_from_grid_data bytes = dt.matrix().tobytes() MemoryError The above exception was the direct cause of the following exception: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 262, in discovery self.processed[key] = self.process(obj, parents) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 290, in process raise RuntimeError(msg) from e RuntimeError: Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> During handling of the above exception, another exception occurred: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 116, in lambda *args, ses=session: show_save_file_dialog(ses), tool_tip=""Save output file"", File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 127, in show_save_file_dialog _dlg.display(session, **kw) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\dialog.py"", line 51, in display run(session, cmd) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\commands\run.py"", line 38, in run results = command.run(text, log=log, return_json=return_json) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2897, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\cmd.py"", line 75, in cmd_save Command(session, registry=registry).run(provider_cmd_text, log=log) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2897, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\save_command\cmd.py"", line 90, in provider_save saver_info.save(session, path, **provider_kw) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core_formats\\__init__.py"", line 84, in save return cxs_save(session, path, **kw) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 899, in save session.save(output, version=version, include_maps=include_maps) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 625, in save mgr.discovery(self._state_containers) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 266, in discovery raise ValueError(""error processing: %s: %s"" % (_obj_stack(parents, obj), e)) ValueError: error processing: 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> : Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> ValueError: error processing: 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> : Error while saving session data for 'models' -> -> 'surface' -> 'J377-Crt8mer-0415.mrc 1' -> File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\session.py"", line 266, in discovery raise ValueError(""error processing: %s: %s"" % (_obj_stack(parents, obj), e)) See log for complete Python traceback. OpenGL version: 3.3.14802 Core Profile Forward-Compatible Context 21.12.1 30.0.14011.3017 OpenGL renderer: AMD Radeon(TM) Graphics OpenGL vendor: ATI Technologies Inc. Python: 3.9.11 Locale: zh_CN.cp936 Qt version: PyQt6 6.3.1, Qt 6.3.1 Qt runtime version: 6.3.2 Qt platform: windows Manufacturer: Dell Inc. Model: Inspiron 5415 OS: Microsoft Windows 10 专业版 (Build 19043) Memory: 16,483,872,768 MaxProcessMemory: 137,438,953,344 CPU: 12 AMD Ryzen 5 5500U with Radeon Graphics OSLanguage: zh-CN Installed Packages: alabaster: 0.7.12 appdirs: 1.4.4 asttokens: 2.1.0 Babel: 2.11.0 backcall: 0.2.0 blockdiag: 3.0.0 build: 0.8.0 certifi: 2022.9.24 cftime: 1.6.2 charset-normalizer: 2.1.1 ChimeraX-AddCharge: 1.4 ChimeraX-AddH: 2.2.1 ChimeraX-AlignmentAlgorithms: 2.0 ChimeraX-AlignmentHdrs: 3.2.1 ChimeraX-AlignmentMatrices: 2.0 ChimeraX-Alignments: 2.6 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.0.3 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.0 ChimeraX-Atomic: 1.41.5 ChimeraX-AtomicLibrary: 8.0.3 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.3 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: 2.7.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.3.1 ChimeraX-ChangeChains: 1.0.2 ChimeraX-CheckWaters: 1.3 ChimeraX-ChemGroup: 2.0 ChimeraX-Clashes: 2.2.4 ChimeraX-ColorActions: 1.0.3 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.2 ChimeraX-CommandLine: 1.2.4 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.5 ChimeraX-CoreFormats: 1.1 ChimeraX-coulombic: 1.3.2 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.2 ChimeraX-Dicom: 1.1 ChimeraX-DistMonitor: 1.3 ChimeraX-DockPrep: 1.0 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ExperimentalCommands: 1.0 ChimeraX-FileHistory: 1.0.1 ChimeraX-FunctionKey: 1.0.1 ChimeraX-Geometry: 1.2 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 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-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: 1.1.2 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0.1 ChimeraX-MapFilter: 2.0 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.1.1 ChimeraX-Markers: 1.0.1 ChimeraX-Mask: 1.0.1 ChimeraX-MatchMaker: 2.0.9 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.2 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1 ChimeraX-mmCIF: 2.8 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.6 ChimeraX-ModelPanel: 1.3.6 ChimeraX-ModelSeries: 1.0.1 ChimeraX-Mol2: 2.0 ChimeraX-Mole: 1.0 ChimeraX-Morph: 1.0.1 ChimeraX-MouseModes: 1.1.1 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.9.1 ChimeraX-PDB: 2.6.8 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-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 2.0.1 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 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.7.2 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 ChimeraX-STL: 1.0 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.1 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0 ChimeraX-SwapAA: 2.0.1 ChimeraX-SwapRes: 2.1.3 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.2 ChimeraX-ToolshedUtils: 1.2.1 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.24.3 ChimeraX-uniprot: 2.2.1 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.1.4 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0.1 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0.1 ChimeraX-WebServices: 1.1.0 ChimeraX-Zone: 1.0.1 colorama: 0.4.5 comtypes: 1.1.10 cxservices: 1.2 cycler: 0.11.0 Cython: 0.29.32 debugpy: 1.6.4 decorator: 5.1.1 docutils: 0.19 entrypoints: 0.4 executing: 1.2.0 filelock: 3.7.1 fonttools: 4.38.0 funcparserlib: 1.0.1 grako: 3.16.5 h5py: 3.7.0 html2text: 2020.1.16 idna: 3.4 ihm: 0.33 imagecodecs: 2022.7.31 imagesize: 1.4.1 importlib-metadata: 5.1.0 ipykernel: 6.15.3 ipython: 8.4.0 ipython-genutils: 0.2.0 jedi: 0.18.1 Jinja2: 3.1.2 jupyter-client: 7.3.4 jupyter-core: 5.1.0 kiwisolver: 1.4.4 line-profiler: 3.5.1 lxml: 4.9.1 lz4: 4.0.2 MarkupSafe: 2.1.1 matplotlib: 3.5.2 matplotlib-inline: 0.1.6 msgpack: 1.0.4 nest-asyncio: 1.5.6 netCDF4: 1.6.0 networkx: 2.8.5 numexpr: 2.8.4 numpy: 1.23.1 openvr: 1.23.701 packaging: 21.3 ParmEd: 3.4.3 parso: 0.8.3 pep517: 0.13.0 pickleshare: 0.7.5 Pillow: 9.2.0 pip: 22.2.2 pkginfo: 1.8.3 platformdirs: 2.5.4 prompt-toolkit: 3.0.33 psutil: 5.9.1 pure-eval: 0.2.2 pycollada: 0.7.2 pydicom: 2.3.0 Pygments: 2.12.0 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 3.0.9 PyQt6-commercial: 6.3.1 PyQt6-Qt6: 6.3.2 PyQt6-sip: 13.4.0 PyQt6-WebEngine-commercial: 6.3.1 PyQt6-WebEngine-Qt6: 6.3.2 python-dateutil: 2.8.2 pytz: 2022.6 pywin32: 303 pyzmq: 24.0.1 qtconsole: 5.3.1 QtPy: 2.3.0 RandomWords: 0.4.0 requests: 2.28.1 scipy: 1.9.0 setuptools: 65.1.1 sfftk-rw: 0.7.2 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 Sphinx: 5.1.1 sphinx-autodoc-typehints: 1.19.1 sphinxcontrib-applehelp: 1.0.2 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 2.0.0 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.5 stack-data: 0.6.2 tables: 3.7.0 tifffile: 2022.7.31 tinyarray: 1.2.4 tomli: 2.0.1 tornado: 6.2 traitlets: 5.3.0 urllib3: 1.26.13 wcwidth: 0.2.5 webcolors: 1.12 wheel: 0.37.1 wheel-filename: 1.4.1 WMI: 1.5.1 zipp: 3.11.0 }}} " defect closed normal Sessions limitation all ChimeraX