2 Analysis of the Data

The complete screen output for processing of all three magnifications is as below.


135k
====

selene:180DM xuchen$ finddistort -bin 2 -pat dp135k.st 135k -box 44 -ind 2

 RO image file on unit   1 : dp135k.st     Size=      16390 K

 Number of columns, rows, sections .....    1024    1024       8
 Map mode ..............................    1   (16-bit integer)           
 Start cols, rows, sects, grid x,y,z ...    0     0     0    1024   1024      8
 Pixel spacing (Angstroms)..............   21.55      21.55      21.55    
 Cell angles ...........................   90.000   90.000   90.000
 Fast, medium, slow axes ...............    X    Y    Z
 Origin on x,y,z .......................    0.000       0.000       0.000    
 Minimum density .......................   140.00                               
 Maximum density .......................   3447.0                               
 Mean density ..........................   1937.9                               
 tilt angles (original,current) ........   0.0   0.0   0.0   0.0   0.0   0.0
 Space group,# extra bytes,idtype,lens .        0     5120        0        0

     2 Titles :
SerialEM: Camera on TF30 1:Falcon 2:Orius 3:GIF         23-Dec-13  12:27:47    
    Tilt axis angle = -22.2, binning = 2  spot = 4  camera = 3                 

 pair           0           1 , deltas   481.0090       25.54300    
 pair           2           3 , deltas   272.5360       336.0100    
 pair           4           5 , deltas   15.69400       489.8680    
 pair           6           7 , deltas  -292.9820       345.9090    

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.rawxf
 Solving for          26  by          26  =         676  field positions
        4794  rows of data,       38183  entries
 condition #   633.2738       632.568716911425     
 Mean and max residual in fit:   0.474  5.471
 Mean and max change in field:    1.6305   7.4591

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.udxf
Shift changes:   1.01   0.18   0.93   1.07   0.20   1.22  -0.56   0.67
 iteration           2    mean change in shift   1.155237    
        4794  rows of data,       38483  entries
 condition #   629.0580       628.499030187937     
 Mean and max residual in fit:   0.487  5.432
 Mean and max change in field:    0.0559   0.3321

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.udxf
Shift changes:   0.00  -0.02   0.02   0.02   0.00   0.02   0.00   0.02
 iteration           3    mean change in shift  2.3922931E-02
        4794  rows of data,       38473  entries
 condition #   628.9758       628.516968133931     
 Mean and max residual in fit:   0.490  5.435
 Mean and max change in field:    0.0039   0.0219

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           4    mean change in shift  1.5768952E-03
        4794  rows of data,       38473  entries
 condition #   628.9699       628.468519227372     
 Mean and max residual in fit:   0.491  5.434
 Mean and max change in field:    0.0004   0.0017

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           5    mean change in shift  4.8828125E-04
        4794  rows of data,       38473  entries
 condition #   628.9701       628.514724833102     
 Mean and max residual in fit:   0.491  5.434
 Mean and max change in field:    0.0001   0.0004

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           6    mean change in shift  0.0000000E+00
        4794  rows of data,       38473  entries
 condition #   628.9871       628.518984597402     
 Mean and max residual in fit:   0.491  5.434
 De-stretch transformation:  0.999929 -0.000011 -0.000474  1.000104

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.patch
 Embedded transformation:  0.999972 -0.000007 -0.000007  0.999981

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.idf

selene:180DM xuchen$ matchrotpairs -d 135k.nosidf -b 2 135kts1.st 135kts2.st rp-135k.xf
Finding the best matched pair of views in the two series:
              (Type Ctrl-C to end search)
A 10  B 10  rotation -90  difference 415818 *
A 10  B 10  rotation +90  difference 858299 
A 11  B 10  rotation -90  difference 413591 *
A 11  B 10  rotation +90  difference 859948 
A 9  B 10  rotation -90  difference 418596 
A 9  B 10  rotation +90  difference 856247 
A 12  B 10  rotation -90  difference 412260 *
A 12  B 10  rotation +90  difference 853185 
A 8  B 10  rotation -90  difference 420434 
A 13  B 10  rotation -90  difference 416602 
A 7  B 10  rotation -90  difference 422404 
A 14  B 10  rotation -90  difference 419146 
A 6  B 10  rotation -90  difference 425296 
A 15  B 10  rotation -90  difference 420841 
A 5  B 10  rotation -90  difference 429276 
A 16  B 10  rotation -90  difference 422595 
A 4  B 10  rotation -90  difference 432343 
A 17  B 10  rotation -90  difference 424390 
A 3  B 10  rotation -90  difference 433838 
A 18  B 10  rotation -90  difference 427531 
A 2  B 10  rotation -90  difference 434710 
A 19  B 10  rotation -90  difference 428575 
A 1  B 10  rotation -90  difference 434346 
A 10  B 11  rotation -90  difference 414100 
A 11  B 11  rotation -90  difference 411418 *
A 9  B 11  rotation -90  difference 416519 
A 12  B 11  rotation -90  difference 410927 *
A 8  B 11  rotation -90  difference 420792 
A 13  B 11  rotation -90  difference 413957 
A 7  B 11  rotation -90  difference 423578 
A 14  B 11  rotation -90  difference 418187 
A 6  B 11  rotation -90  difference 425260 
A 15  B 11  rotation -90  difference 420004 
A 5  B 11  rotation -90  difference 429949 
A 16  B 11  rotation -90  difference 422861 
A 4  B 11  rotation -90  difference 431342 
A 17  B 11  rotation -90  difference 424321 
A 3  B 11  rotation -90  difference 432783 
A 18  B 11  rotation -90  difference 427271 
A 2  B 11  rotation -90  difference 434376 
A 19  B 11  rotation -90  difference 428139 
A 1  B 11  rotation -90  difference 434353 
A 10  B 9  rotation -90  difference 418436 
A 11  B 9  rotation -90  difference 417392 
A 9  B 9  rotation -90  difference 420139 
A 12  B 9  rotation -90  difference 415215 
A 8  B 9  rotation -90  difference 421812 
A 13  B 9  rotation -90  difference 418360 
A 7  B 9  rotation -90  difference 423817 
A 14  B 9  rotation -90  difference 419685 
A 6  B 9  rotation -90  difference 425472 
A 15  B 9  rotation -90  difference 421440 
A 5  B 9  rotation -90  difference 429602 
A 16  B 9  rotation -90  difference 423196 
A 4  B 9  rotation -90  difference 431884 
A 17  B 9  rotation -90  difference 424097 
A 3  B 9  rotation -90  difference 433585 
A 18  B 9  rotation -90  difference 426675 
A 2  B 9  rotation -90  difference 435039 
A 19  B 9  rotation -90  difference 428342 
A 1  B 9  rotation -90  difference 434567 
A 10  B 12  rotation -90  difference 413677 
A 11  B 12  rotation -90  difference 410360 *
A 9  B 12  rotation -90  difference 416279 
A 12  B 12  rotation -90  difference 409926 *
A 8  B 12  rotation -90  difference 421677 
A 13  B 12  rotation -90  difference 413421 
A 7  B 12  rotation -90  difference 423948 
A 14  B 12  rotation -90  difference 418000 
A 6  B 12  rotation -90  difference 426182 
A 15  B 12  rotation -90  difference 420012 
A 5  B 12  rotation -90  difference 429891 
A 16  B 12  rotation -90  difference 422732 
A 4  B 12  rotation -90  difference 432528 
A 17  B 12  rotation -90  difference 425146 
A 3  B 12  rotation -90  difference 433674 
A 18  B 12  rotation -90  difference 426841 
A 2  B 12  rotation -90  difference 433505 
A 19  B 12  rotation -90  difference 429119 
A 1  B 12  rotation -90  difference 434933 
A 10  B 8  rotation -90  difference 420916 
A 11  B 8  rotation -90  difference 419600 
A 9  B 8  rotation -90  difference 422222 
A 12  B 8  rotation -90  difference 418570 
A 8  B 8  rotation -90  difference 423898 
A 13  B 8  rotation -90  difference 420158 
A 7  B 8  rotation -90  difference 426372 
A 14  B 8  rotation -90  difference 421418 
A 6  B 8  rotation -90  difference 427306 
A 15  B 8  rotation -90  difference 423452 
A 5  B 8  rotation -90  difference 431279 
A 16  B 8  rotation -90  difference 424184 
A 4  B 8  rotation -90  difference 432555 
A 17  B 8  rotation -90  difference 425058 
A 3  B 8  rotation -90  difference 434153 
A 18  B 8  rotation -90  difference 426322 
A 2  B 8  rotation -90  difference 433987 
A 19  B 8  rotation -90  difference 429244 
A 1  B 8  rotation -90  difference 434700 
A 10  B 13  rotation -90  difference 416218 
A 11  B 13  rotation -90  difference 413826 
A 9  B 13  rotation -90  difference 419760 
A 12  B 13  rotation -90  difference 412510 
A 8  B 13  rotation -90  difference 422148 
A 13  B 13  rotation -90  difference 416506 
A 7  B 13  rotation -90  difference 424978 
A 14  B 13  rotation -90  difference 419802 
A 6  B 13  rotation -90  difference 426171 
A 15  B 13  rotation -90  difference 422609 
A 5  B 13  rotation -90  difference 430595 
A 16  B 13  rotation -90  difference 423632 
A 4  B 13  rotation -90  difference 433730 
A 17  B 13  rotation -90  difference 425267 
A 3  B 13  rotation -90  difference 434366 
A 18  B 13  rotation -90  difference 427618 
A 2  B 13  rotation -90  difference 434389 
A 19  B 13  rotation -90  difference 428874 
A 1  B 13  rotation -90  difference 434998 
A 10  B 7  rotation -90  difference 423616 
A 11  B 7  rotation -90  difference 422096 
A 9  B 7  rotation -90  difference 424015 
A 12  B 7  rotation -90  difference 421089 
A 8  B 7  rotation -90  difference 426170 
A 13  B 7  rotation -90  difference 422676 
A 7  B 7  rotation -90  difference 426602 
A 14  B 7  rotation -90  difference 423431 
A 6  B 7  rotation -90  difference 426785 
A 15  B 7  rotation -90  difference 423516 
A 5  B 7  rotation -90  difference 431192 
A 16  B 7  rotation -90  difference 425434 
A 4  B 7  rotation -90  difference 432075 
A 17  B 7  rotation -90  difference 425221 
A 3  B 7  rotation -90  difference 433918 
A 18  B 7  rotation -90  difference 426902 
A 2  B 7  rotation -90  difference 433692 
A 19  B 7  rotation -90  difference 428424 
A 1  B 7  rotation -90  difference 433732 
A 10  B 14  rotation -90  difference 418760 
A 11  B 14  rotation -90  difference 416465 
A 9  B 14  rotation -90  difference 421630 
A 12  B 14  rotation -90  difference 415594 
A 8  B 14  rotation -90  difference 424518 
A 13  B 14  rotation -90  difference 418002 
A 7  B 14  rotation -90  difference 425555 
A 14  B 14  rotation -90  difference 420583 
A 6  B 14  rotation -90  difference 426305 
A 15  B 14  rotation -90  difference 422849 
A 5  B 14  rotation -90  difference 431303 
A 16  B 14  rotation -90  difference 423944 
A 4  B 14  rotation -90  difference 434435 
A 17  B 14  rotation -90  difference 424501 
A 3  B 14  rotation -90  difference 435899 
A 18  B 14  rotation -90  difference 426833 
A 2  B 14  rotation -90  difference 434438 
A 19  B 14  rotation -90  difference 429811 
A 1  B 14  rotation -90  difference 436149 
A 10  B 6  rotation -90  difference 424897 
A 11  B 6  rotation -90  difference 425055 
A 9  B 6  rotation -90  difference 425929 
A 12  B 6  rotation -90  difference 422818 
A 8  B 6  rotation -90  difference 426564 
A 13  B 6  rotation -90  difference 424047 
A 7  B 6  rotation -90  difference 428824 
A 14  B 6  rotation -90  difference 424550 
A 6  B 6  rotation -90  difference 427702 
A 15  B 6  rotation -90  difference 424959 
A 5  B 6  rotation -90  difference 432618 
A 16  B 6  rotation -90  difference 426161 
A 4  B 6  rotation -90  difference 433948 
A 17  B 6  rotation -90  difference 425693 
A 3  B 6  rotation -90  difference 434991 
A 18  B 6  rotation -90  difference 427668 
A 2  B 6  rotation -90  difference 433731 
A 19  B 6  rotation -90  difference 429062 
A 1  B 6  rotation -90  difference 433568 
A 10  B 15  rotation -90  difference 421804 
A 11  B 15  rotation -90  difference 420439 
A 9  B 15  rotation -90  difference 423365 
A 12  B 15  rotation -90  difference 418998 
A 8  B 15  rotation -90  difference 424279 
A 13  B 15  rotation -90  difference 421320 
A 7  B 15  rotation -90  difference 425494 
A 14  B 15  rotation -90  difference 423174 
A 6  B 15  rotation -90  difference 427263 
A 15  B 15  rotation -90  difference 423228 
A 5  B 15  rotation -90  difference 431097 
A 16  B 15  rotation -90  difference 424749 
A 4  B 15  rotation -90  difference 433789 
A 17  B 15  rotation -90  difference 426000 
A 3  B 15  rotation -90  difference 435762 
A 18  B 15  rotation -90  difference 429277 
A 2  B 15  rotation -90  difference 435656 
A 19  B 15  rotation -90  difference 429673 
A 1  B 15  rotation -90  difference 436162 
A 10  B 5  rotation -90  difference 426740 
A 11  B 5  rotation -90  difference 424453 
A 9  B 5  rotation -90  difference 426203 
A 12  B 5  rotation -90  difference 422930 
A 8  B 5  rotation -90  difference 427282 
A 13  B 5  rotation -90  difference 424625 
A 7  B 5  rotation -90  difference 428066 
A 14  B 5  rotation -90  difference 425409 
A 6  B 5  rotation -90  difference 427528 
A 15  B 5  rotation -90  difference 424834 
A 5  B 5  rotation -90  difference 431392 
A 16  B 5  rotation -90  difference 425994 
A 4  B 5  rotation -90  difference 433311 
A 17  B 5  rotation -90  difference 426246 
A 3  B 5  rotation -90  difference 433944 
A 18  B 5  rotation -90  difference 427224 
A 2  B 5  rotation -90  difference 432871 
A 19  B 5  rotation -90  difference 428960 
A 1  B 5  rotation -90  difference 434544 
A 10  B 16  rotation -90  difference 424071 
A 11  B 16  rotation -90  difference 422575 
A 9  B 16  rotation -90  difference 425688 
A 12  B 16  rotation -90  difference 421070 
A 8  B 16  rotation -90  difference 426297 
A 13  B 16  rotation -90  difference 423752 
A 7  B 16  rotation -90  difference 427407 
A 14  B 16  rotation -90  difference 424270 
A 6  B 16  rotation -90  difference 427215 
A 15  B 16  rotation -90  difference 424579 
A 5  B 16  rotation -90  difference 432337 
A 16  B 16  rotation -90  difference 424916 
A 4  B 16  rotation -90  difference 433999 
A 17  B 16  rotation -90  difference 426835 
A 3  B 16  rotation -90  difference 435709 
A 18  B 16  rotation -90  difference 427759 
A 2  B 16  rotation -90  difference 436077 
A 19  B 16  rotation -90  difference 429388 
A 1  B 16  rotation -90  difference 436376 
A 10  B 4  rotation -90  difference 427678 
A 11  B 4  rotation -90  difference 427244 
A 9  B 4  rotation -90  difference 428861 
A 12  B 4  rotation -90  difference 424921 
A 8  B 4  rotation -90  difference 427790 
A 13  B 4  rotation -90  difference 425959 
A 7  B 4  rotation -90  difference 429761 
A 14  B 4  rotation -90  difference 426699 
A 6  B 4  rotation -90  difference 430102 
A 15  B 4  rotation -90  difference 426124 
A 5  B 4  rotation -90  difference 433540 
A 16  B 4  rotation -90  difference 426881 
A 4  B 4  rotation -90  difference 434230 
A 17  B 4  rotation -90  difference 426768 
A 3  B 4  rotation -90  difference 435131 
A 18  B 4  rotation -90  difference 428829 
A 2  B 4  rotation -90  difference 435181 
A 19  B 4  rotation -90  difference 430863 
A 1  B 4  rotation -90  difference 435989 
A 10  B 17  rotation -90  difference 426774 
A 11  B 17  rotation -90  difference 424515 
A 9  B 17  rotation -90  difference 427048 
A 12  B 17  rotation -90  difference 423480 
A 8  B 17  rotation -90  difference 427617 
A 13  B 17  rotation -90  difference 425076 
A 7  B 17  rotation -90  difference 428204 
A 14  B 17  rotation -90  difference 426257 
A 6  B 17  rotation -90  difference 428191 
A 15  B 17  rotation -90  difference 424779 
A 5  B 17  rotation -90  difference 432967 
A 16  B 17  rotation -90  difference 425754 
A 4  B 17  rotation -90  difference 434245 
A 17  B 17  rotation -90  difference 426706 
A 3  B 17  rotation -90  difference 436060 
A 18  B 17  rotation -90  difference 429464 
A 2  B 17  rotation -90  difference 435365 
A 19  B 17  rotation -90  difference 429270 
A 1  B 17  rotation -90  difference 436689 
A 10  B 3  rotation -90  difference 428027 
A 11  B 3  rotation -90  difference 427225 
A 9  B 3  rotation -90  difference 428890 
A 12  B 3  rotation -90  difference 425040 
A 8  B 3  rotation -90  difference 428493 
A 13  B 3  rotation -90  difference 426503 
A 7  B 3  rotation -90  difference 430063 
A 14  B 3  rotation -90  difference 426518 
A 6  B 3  rotation -90  difference 429593 
A 15  B 3  rotation -90  difference 427008 
A 5  B 3  rotation -90  difference 432513 
A 16  B 3  rotation -90  difference 427654 
A 4  B 3  rotation -90  difference 434347 
A 17  B 3  rotation -90  difference 427799 
A 3  B 3  rotation -90  difference 435797 
A 18  B 3  rotation -90  difference 429595 
A 2  B 3  rotation -90  difference 433545 
A 19  B 3  rotation -90  difference 429901 
A 1  B 3  rotation -90  difference 436488 
A 10  B 18  rotation -90  difference 428967 
A 11  B 18  rotation -90  difference 426815 
A 9  B 18  rotation -90  difference 429332 
A 12  B 18  rotation -90  difference 425842 
A 8  B 18  rotation -90  difference 429690 
A 13  B 18  rotation -90  difference 426688 
A 7  B 18  rotation -90  difference 428412 
A 14  B 18  rotation -90  difference 427812 
A 6  B 18  rotation -90  difference 429779 
A 15  B 18  rotation -90  difference 426021 
A 5  B 18  rotation -90  difference 432949 
A 16  B 18  rotation -90  difference 426322 
A 4  B 18  rotation -90  difference 434777 
A 17  B 18  rotation -90  difference 428791 
A 3  B 18  rotation -90  difference 435887 
A 18  B 18  rotation -90  difference 428782 
A 2  B 18  rotation -90  difference 436387 
A 19  B 18  rotation -90  difference 430517 
A 1  B 18  rotation -90  difference 436086 
A 10  B 2  rotation -90  difference 429242 
A 11  B 2  rotation -90  difference 427831 
A 9  B 2  rotation -90  difference 430254 
A 12  B 2  rotation -90  difference 426104 
A 8  B 2  rotation -90  difference 430113 
A 13  B 2  rotation -90  difference 427299 
A 7  B 2  rotation -90  difference 430875 
A 14  B 2  rotation -90  difference 427520 
A 6  B 2  rotation -90  difference 430886 
A 15  B 2  rotation -90  difference 426549 
A 5  B 2  rotation -90  difference 434905 
A 16  B 2  rotation -90  difference 426990 
A 4  B 2  rotation -90  difference 436536 
A 17  B 2  rotation -90  difference 427522 
A 3  B 2  rotation -90  difference 437995 
A 18  B 2  rotation -90  difference 428376 
A 2  B 2  rotation -90  difference 435738 
A 19  B 2  rotation -90  difference 430326 
A 1  B 2  rotation -90  difference 437135 
A 10  B 19  rotation -90  difference 429871 
A 11  B 19  rotation -90  difference 428145 
A 9  B 19  rotation -90  difference 430001 
A 12  B 19  rotation -90  difference 426873 
A 8  B 19  rotation -90  difference 430488 
A 13  B 19  rotation -90  difference 428321 
A 7  B 19  rotation -90  difference 429634 
A 14  B 19  rotation -90  difference 429440 
A 6  B 19  rotation -90  difference 430349 
A 15  B 19  rotation -90  difference 428743 
A 5  B 19  rotation -90  difference 433762 
A 16  B 19  rotation -90  difference 428332 
A 4  B 19  rotation -90  difference 435991 
A 17  B 19  rotation -90  difference 429589 
A 3  B 19  rotation -90  difference 437244 
A 18  B 19  rotation -90  difference 429480 
A 2  B 19  rotation -90  difference 436959 
A 19  B 19  rotation -90  difference 432059 
A 1  B 19  rotation -90  difference 436221 
A 10  B 1  rotation -90  difference 430960 
A 11  B 1  rotation -90  difference 428743 
A 9  B 1  rotation -90  difference 431078 
A 12  B 1  rotation -90  difference 428094 
A 8  B 1  rotation -90  difference 430434 
A 13  B 1  rotation -90  difference 428780 
A 7  B 1  rotation -90  difference 431817 
A 14  B 1  rotation -90  difference 429376 
A 6  B 1  rotation -90  difference 430809 
A 15  B 1  rotation -90  difference 428483 
A 5  B 1  rotation -90  difference 436043 
A 16  B 1  rotation -90  difference 428801 
A 4  B 1  rotation -90  difference 437337 
A 17  B 1  rotation -90  difference 428943 
A 3  B 1  rotation -90  difference 438675 
A 18  B 1  rotation -90  difference 430057 
A 2  B 1  rotation -90  difference 436671 
A 19  B 1  rotation -90  difference 432078 
A 1  B 1  rotation -90  difference 437154 
Views in best pair: A 12  B 12
selene:180DM xuchen$ midas -b 0 rp-135k.stack rp-135k.xf 
selene:180DM xuchen$ finddistort -bin 2 -pat -usexf -str rp-135k.xf dp135k.st 135k -box 44 -ind 2

 RO image file on unit   1 : dp135k.st     Size=      16390 K

 Number of columns, rows, sections .....    1024    1024       8
 Map mode ..............................    1   (16-bit integer)           
 Start cols, rows, sects, grid x,y,z ...    0     0     0    1024   1024      8
 Pixel spacing (Angstroms)..............   21.55      21.55      21.55    
 Cell angles ...........................   90.000   90.000   90.000
 Fast, medium, slow axes ...............    X    Y    Z
 Origin on x,y,z .......................    0.000       0.000       0.000    
 Minimum density .......................   140.00                               
 Maximum density .......................   3447.0                               
 Mean density ..........................   1937.9                               
 tilt angles (original,current) ........   0.0   0.0   0.0   0.0   0.0   0.0
 Space group,# extra bytes,idtype,lens .        0     5120        0        0

     2 Titles :
SerialEM: Camera on TF30 1:Falcon 2:Orius 3:GIF         23-Dec-13  12:27:47    
    Tilt axis angle = -22.2, binning = 2  spot = 4  camera = 3                 


 FORMATTED  ro  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.rawxf
 pair           0           1 , deltas   481.0090       25.54300    
 pair           2           3 , deltas   272.5360       336.0100    
 pair           4           5 , deltas   15.69400       489.8680    
 pair           6           7 , deltas  -292.9820       345.9090    
 Solving for          26  by          26  =         676  field positions
        4794  rows of data,       38183  entries
 condition #   633.2738       632.568716911425     
 Mean and max residual in fit:   0.474  5.471
 Mean and max change in field:    1.6305   7.4591

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.udxf
Shift changes:   1.01   0.18   0.93   1.07   0.20   1.22  -0.56   0.67
 iteration           2    mean change in shift   1.155237    
        4794  rows of data,       38483  entries
 condition #   629.0580       628.499030187937     
 Mean and max residual in fit:   0.487  5.432
 Mean and max change in field:    0.0559   0.3321

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.udxf
Shift changes:   0.00  -0.02   0.02   0.02   0.00   0.02   0.00   0.02
 iteration           3    mean change in shift  2.3922931E-02
        4794  rows of data,       38473  entries
 condition #   628.9758       628.516968133931     
 Mean and max residual in fit:   0.490  5.435
 Mean and max change in field:    0.0039   0.0219

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           4    mean change in shift  1.5768952E-03
        4794  rows of data,       38473  entries
 condition #   628.9699       628.468519227372     
 Mean and max residual in fit:   0.491  5.434
 Mean and max change in field:    0.0004   0.0017

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           5    mean change in shift  4.8828125E-04
        4794  rows of data,       38473  entries
 condition #   628.9701       628.514724833102     
 Mean and max residual in fit:   0.491  5.434
 Mean and max change in field:    0.0001   0.0004

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           6    mean change in shift  0.0000000E+00
        4794  rows of data,       38473  entries
 condition #   628.9871       628.518984597402     
 Mean and max residual in fit:   0.491  5.434
 De-stretch transformation:  0.999929 -0.000011 -0.000474  1.000104

 FORMATTED  ro  file opened: /Users/xuchen/GIF-distortion-field/180DM/rp-135k.xf
Pair has rotation =  -90.23, mag = 1.0109, stretch = 0.9765 on  -43.3 deg axis
Mean mag = 0.9989, using mag = 1.0119 and stretch = 0.9765
 No-mag transformation:  0.007884  1.000729 -0.999397 -0.015829
True rotation =  -90.23, underlying stretch =  1.0060 on  -43.4 deg axis
 Stretch transformation:  1.000351 -0.005931 -0.005931  0.999685
 Implied no-mag transformation:  0.007890  1.000729 -0.999397 -0.015834

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.patch
 Embedded transformation:  1.000323 -0.005938 -0.005938  0.999665

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/135k.idf


18k
====
selene:180DM xuchen$ finddistort -bin 2 -pat dp18k.st 18k -box 60 -ind 2

 RO image file on unit   1 : dp18k.st     Size=      16390 K

 Number of columns, rows, sections .....    1024    1024       8
 Map mode ..............................    1   (16-bit integer)           
 Start cols, rows, sects, grid x,y,z ...    0     0     0    1024   1024      8
 Pixel spacing (Angstroms)..............   15.56      15.56      15.56    
 Cell angles ...........................   90.000   90.000   90.000
 Fast, medium, slow axes ...............    X    Y    Z
 Origin on x,y,z .......................    0.000       0.000       0.000    
 Minimum density .......................   126.00                               
 Maximum density .......................   3431.0                               
 Mean density ..........................   1815.2                               
 tilt angles (original,current) ........   0.0   0.0   0.0   0.0   0.0   0.0
 Space group,# extra bytes,idtype,lens .        0     5120        0        0

     2 Titles :
SerialEM: Camera on TF30 1:Falcon 2:Orius 3:GIF         23-Dec-13  12:51:16    
    Tilt axis angle = -7.9, binning = 2  spot = 4  camera = 3                  

 pair           0           1 , deltas   490.2130      -28.17300    
 pair           2           3 , deltas   275.4690       299.8530    
 pair           4           5 , deltas   10.17400       457.2360    
 pair           6           7 , deltas  -304.8980       315.2540    

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.rawxf
 Solving for          25  by          25  =         625  field positions
        4754  rows of data,       37477  entries
 condition #   497.3639       482.230921414097     
 Mean and max residual in fit:   0.308  0.961
 Mean and max change in field:    1.2344   7.2181

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.udxf
Shift changes:   0.62  -0.02   0.26   0.42  -0.12   0.73  -0.54   0.73
 iteration           2    mean change in shift  0.7067943    
        4754  rows of data,       37654  entries
 condition #   479.1414       479.706916615561     
 Mean and max residual in fit:   0.318  0.934
 Mean and max change in field:    0.0376   0.1850

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.udxf
Shift changes:   0.00   0.01   0.00   0.00   0.00   0.01  -0.01   0.01
 iteration           3    mean change in shift  1.2102230E-02
        4754  rows of data,       37660  entries
 condition #   479.4223       495.860867053309     
 Mean and max residual in fit:   0.320  0.949
 Mean and max change in field:    0.0029   0.0121

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           4    mean change in shift  1.1159979E-03
        4754  rows of data,       37660  entries
 condition #   479.4463       495.857867135230     
 Mean and max residual in fit:   0.320  0.950
 Mean and max change in field:    0.0003   0.0012

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           5    mean change in shift  5.0354004E-04
        4754  rows of data,       37660  entries
 condition #   479.4496       479.851694695074     
 Mean and max residual in fit:   0.320  0.950
 Mean and max change in field:    0.0001   0.0003

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           6    mean change in shift  0.0000000E+00
        4754  rows of data,       37660  entries
 condition #   479.4525       495.855995546258     
 Mean and max residual in fit:   0.320  0.950
 De-stretch transformation:  0.999877 -0.000439  0.000504  0.999868

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.patch
 Embedded transformation:  0.999988  0.000005  0.000005  0.999984

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.idf

selene:180DM xuchen$ matchrotpairs -d 18k.nosidf -b 2 18kts1.st 18kts2.st rp18k.xf
Finding the best matched pair of views in the two series:
              (Type Ctrl-C to end search)
A 10  B 10  rotation -90  difference 387868 *
A 10  B 10  rotation +90  difference 772647 
A 11  B 10  rotation -90  difference 384997 *
A 11  B 10  rotation +90  difference 771253 
A 9  B 10  rotation -90  difference 388279 
A 9  B 10  rotation +90  difference 775213 
A 12  B 10  rotation -90  difference 387763 
A 12  B 10  rotation +90  difference 775032 
A 8  B 10  rotation -90  difference 392200 
A 13  B 10  rotation -90  difference 391912 
A 7  B 10  rotation -90  difference 396908 
A 14  B 10  rotation -90  difference 396695 
A 6  B 10  rotation -90  difference 399140 
A 15  B 10  rotation -90  difference 401727 
A 5  B 10  rotation -90  difference 401684 
A 16  B 10  rotation -90  difference 403894 
A 4  B 10  rotation -90  difference 404494 
A 17  B 10  rotation -90  difference 406559 
A 3  B 10  rotation -90  difference 407996 
A 18  B 10  rotation -90  difference 408772 
A 2  B 10  rotation -90  difference 409593 
A 19  B 10  rotation -90  difference 410109 
A 1  B 10  rotation -90  difference 410858 
A 10  B 11  rotation -90  difference 386163 
A 11  B 11  rotation -90  difference 384074 *
A 9  B 11  rotation -90  difference 387790 
A 12  B 11  rotation -90  difference 385345 
A 8  B 11  rotation -90  difference 391408 
A 13  B 11  rotation -90  difference 389587 
A 7  B 11  rotation -90  difference 397652 
A 14  B 11  rotation -90  difference 396069 
A 6  B 11  rotation -90  difference 399551 
A 15  B 11  rotation -90  difference 400913 
A 5  B 11  rotation -90  difference 403081 
A 16  B 11  rotation -90  difference 402496 
A 4  B 11  rotation -90  difference 405323 
A 17  B 11  rotation -90  difference 405268 
A 3  B 11  rotation -90  difference 407815 
A 18  B 11  rotation -90  difference 407931 
A 2  B 11  rotation -90  difference 410858 
A 19  B 11  rotation -90  difference 409709 
A 1  B 11  rotation -90  difference 412355 
A 10  B 9  rotation -90  difference 391546 
A 11  B 9  rotation -90  difference 389976 
A 9  B 9  rotation -90  difference 393248 
A 12  B 9  rotation -90  difference 391753 
A 8  B 9  rotation -90  difference 393943 
A 13  B 9  rotation -90  difference 395369 
A 7  B 9  rotation -90  difference 398775 
A 14  B 9  rotation -90  difference 399575 
A 6  B 9  rotation -90  difference 398990 
A 15  B 9  rotation -90  difference 401918 
A 5  B 9  rotation -90  difference 403911 
A 16  B 9  rotation -90  difference 404691 
A 4  B 9  rotation -90  difference 405580 
A 17  B 9  rotation -90  difference 405649 
A 3  B 9  rotation -90  difference 407395 
A 18  B 9  rotation -90  difference 408046 
A 2  B 9  rotation -90  difference 409746 
A 19  B 9  rotation -90  difference 409297 
A 1  B 9  rotation -90  difference 410218 
A 10  B 12  rotation -90  difference 386047 
A 11  B 12  rotation -90  difference 382154 *
A 9  B 12  rotation -90  difference 388920 
A 12  B 12  rotation -90  difference 386008 
A 8  B 12  rotation -90  difference 393250 
A 13  B 12  rotation -90  difference 390571 
A 7  B 12  rotation -90  difference 397596 
A 14  B 12  rotation -90  difference 396021 
A 6  B 12  rotation -90  difference 398286 
A 15  B 12  rotation -90  difference 400315 
A 5  B 12  rotation -90  difference 403069 
A 16  B 12  rotation -90  difference 403548 
A 4  B 12  rotation -90  difference 405012 
A 17  B 12  rotation -90  difference 405523 
A 3  B 12  rotation -90  difference 408165 
A 18  B 12  rotation -90  difference 407952 
A 2  B 12  rotation -90  difference 410118 
A 19  B 12  rotation -90  difference 410278 
A 1  B 12  rotation -90  difference 411556 
A 10  B 8  rotation -90  difference 396417 
A 11  B 8  rotation -90  difference 396157 
A 9  B 8  rotation -90  difference 396008 
A 12  B 8  rotation -90  difference 396990 
A 8  B 8  rotation -90  difference 396663 
A 13  B 8  rotation -90  difference 396752 
A 7  B 8  rotation -90  difference 399295 
A 14  B 8  rotation -90  difference 401272 
A 6  B 8  rotation -90  difference 400959 
A 15  B 8  rotation -90  difference 402718 
A 5  B 8  rotation -90  difference 404421 
A 16  B 8  rotation -90  difference 404862 
A 4  B 8  rotation -90  difference 406506 
A 17  B 8  rotation -90  difference 405247 
A 3  B 8  rotation -90  difference 409863 
A 18  B 8  rotation -90  difference 408696 
A 2  B 8  rotation -90  difference 410579 
A 19  B 8  rotation -90  difference 409635 
A 1  B 8  rotation -90  difference 412179 
A 10  B 13  rotation -90  difference 388775 
A 11  B 13  rotation -90  difference 386791 
A 9  B 13  rotation -90  difference 390082 
A 12  B 13  rotation -90  difference 389602 
A 8  B 13  rotation -90  difference 394058 
A 13  B 13  rotation -90  difference 393249 
A 7  B 13  rotation -90  difference 398866 
A 14  B 13  rotation -90  difference 396644 
A 6  B 13  rotation -90  difference 399359 
A 15  B 13  rotation -90  difference 403281 
A 5  B 13  rotation -90  difference 403471 
A 16  B 13  rotation -90  difference 404534 
A 4  B 13  rotation -90  difference 404630 
A 17  B 13  rotation -90  difference 407150 
A 3  B 13  rotation -90  difference 409208 
A 18  B 13  rotation -90  difference 409114 
A 2  B 13  rotation -90  difference 411861 
A 19  B 13  rotation -90  difference 410885 
A 1  B 13  rotation -90  difference 412044 
A 10  B 7  rotation -90  difference 400758 
A 11  B 7  rotation -90  difference 399679 
A 9  B 7  rotation -90  difference 400321 
A 12  B 7  rotation -90  difference 400371 
A 8  B 7  rotation -90  difference 400426 
A 13  B 7  rotation -90  difference 401832 
A 7  B 7  rotation -90  difference 403115 
A 14  B 7  rotation -90  difference 402568 
A 6  B 7  rotation -90  difference 404797 
A 15  B 7  rotation -90  difference 405378 
A 5  B 7  rotation -90  difference 407143 
A 16  B 7  rotation -90  difference 406118 
A 4  B 7  rotation -90  difference 407791 
A 17  B 7  rotation -90  difference 408150 
A 3  B 7  rotation -90  difference 411466 
A 18  B 7  rotation -90  difference 409718 
A 2  B 7  rotation -90  difference 412125 
A 19  B 7  rotation -90  difference 410995 
A 1  B 7  rotation -90  difference 413784 
A 10  B 14  rotation -90  difference 390645 
A 11  B 14  rotation -90  difference 390511 
A 9  B 14  rotation -90  difference 393204 
A 12  B 14  rotation -90  difference 393586 
A 8  B 14  rotation -90  difference 395103 
A 13  B 14  rotation -90  difference 395568 
A 7  B 14  rotation -90  difference 399246 
A 14  B 14  rotation -90  difference 399657 
A 6  B 14  rotation -90  difference 400218 
A 15  B 14  rotation -90  difference 403879 
A 5  B 14  rotation -90  difference 403286 
A 16  B 14  rotation -90  difference 406845 
A 4  B 14  rotation -90  difference 407147 
A 17  B 14  rotation -90  difference 406949 
A 3  B 14  rotation -90  difference 410504 
A 18  B 14  rotation -90  difference 409519 
A 2  B 14  rotation -90  difference 412655 
A 19  B 14  rotation -90  difference 410720 
A 1  B 14  rotation -90  difference 413637 
A 10  B 6  rotation -90  difference 400286 
A 11  B 6  rotation -90  difference 399975 
A 9  B 6  rotation -90  difference 400878 
A 12  B 6  rotation -90  difference 401718 
A 8  B 6  rotation -90  difference 400449 
A 13  B 6  rotation -90  difference 402784 
A 7  B 6  rotation -90  difference 402338 
A 14  B 6  rotation -90  difference 404318 
A 6  B 6  rotation -90  difference 402634 
A 15  B 6  rotation -90  difference 405500 
A 5  B 6  rotation -90  difference 405313 
A 16  B 6  rotation -90  difference 406495 
A 4  B 6  rotation -90  difference 407737 
A 17  B 6  rotation -90  difference 407687 
A 3  B 6  rotation -90  difference 410603 
A 18  B 6  rotation -90  difference 408720 
A 2  B 6  rotation -90  difference 411706 
A 19  B 6  rotation -90  difference 410027 
A 1  B 6  rotation -90  difference 411802 
A 10  B 15  rotation -90  difference 394355 
A 11  B 15  rotation -90  difference 394591 
A 9  B 15  rotation -90  difference 395313 
A 12  B 15  rotation -90  difference 396067 
A 8  B 15  rotation -90  difference 397481 
A 13  B 15  rotation -90  difference 398410 
A 7  B 15  rotation -90  difference 400298 
A 14  B 15  rotation -90  difference 401703 
A 6  B 15  rotation -90  difference 401661 
A 15  B 15  rotation -90  difference 406034 
A 5  B 15  rotation -90  difference 404828 
A 16  B 15  rotation -90  difference 407291 
A 4  B 15  rotation -90  difference 407318 
A 17  B 15  rotation -90  difference 408143 
A 3  B 15  rotation -90  difference 409851 
A 18  B 15  rotation -90  difference 409885 
A 2  B 15  rotation -90  difference 413092 
A 19  B 15  rotation -90  difference 411971 
A 1  B 15  rotation -90  difference 412522 
A 10  B 5  rotation -90  difference 403305 
A 11  B 5  rotation -90  difference 402754 
A 9  B 5  rotation -90  difference 403122 
A 12  B 5  rotation -90  difference 404969 
A 8  B 5  rotation -90  difference 401752 
A 13  B 5  rotation -90  difference 405906 
A 7  B 5  rotation -90  difference 405337 
A 14  B 5  rotation -90  difference 406213 
A 6  B 5  rotation -90  difference 405316 
A 15  B 5  rotation -90  difference 408499 
A 5  B 5  rotation -90  difference 407249 
A 16  B 5  rotation -90  difference 407577 
A 4  B 5  rotation -90  difference 408804 
A 17  B 5  rotation -90  difference 409769 
A 3  B 5  rotation -90  difference 411019 
A 18  B 5  rotation -90  difference 410369 
A 2  B 5  rotation -90  difference 412106 
A 19  B 5  rotation -90  difference 412054 
A 1  B 5  rotation -90  difference 412943 
A 10  B 16  rotation -90  difference 401601 
A 11  B 16  rotation -90  difference 399477 
A 9  B 16  rotation -90  difference 401230 
A 12  B 16  rotation -90  difference 400556 
A 8  B 16  rotation -90  difference 402194 
A 13  B 16  rotation -90  difference 402064 
A 7  B 16  rotation -90  difference 404518 
A 14  B 16  rotation -90  difference 405074 
A 6  B 16  rotation -90  difference 405601 
A 15  B 16  rotation -90  difference 408283 
A 5  B 16  rotation -90  difference 407468 
A 16  B 16  rotation -90  difference 409299 
A 4  B 16  rotation -90  difference 409188 
A 17  B 16  rotation -90  difference 409415 
A 3  B 16  rotation -90  difference 411887 
A 18  B 16  rotation -90  difference 412342 
A 2  B 16  rotation -90  difference 414692 
A 19  B 16  rotation -90  difference 414044 
A 1  B 16  rotation -90  difference 415690 
A 10  B 4  rotation -90  difference 405218 
A 11  B 4  rotation -90  difference 404132 
A 9  B 4  rotation -90  difference 404552 
A 12  B 4  rotation -90  difference 405688 
A 8  B 4  rotation -90  difference 404689 
A 13  B 4  rotation -90  difference 408597 
A 7  B 4  rotation -90  difference 406659 
A 14  B 4  rotation -90  difference 408037 
A 6  B 4  rotation -90  difference 405589 
A 15  B 4  rotation -90  difference 410442 
A 5  B 4  rotation -90  difference 408372 
A 16  B 4  rotation -90  difference 410359 
A 4  B 4  rotation -90  difference 409773 
A 17  B 4  rotation -90  difference 411709 
A 3  B 4  rotation -90  difference 411730 
A 18  B 4  rotation -90  difference 412815 
A 2  B 4  rotation -90  difference 414168 
A 19  B 4  rotation -90  difference 413471 
A 1  B 4  rotation -90  difference 413565 
A 10  B 17  rotation -90  difference 404621 
A 11  B 17  rotation -90  difference 403445 
A 9  B 17  rotation -90  difference 404542 
A 12  B 17  rotation -90  difference 402791 
A 8  B 17  rotation -90  difference 404646 
A 13  B 17  rotation -90  difference 404648 
A 7  B 17  rotation -90  difference 405913 
A 14  B 17  rotation -90  difference 407401 
A 6  B 17  rotation -90  difference 406429 
A 15  B 17  rotation -90  difference 408968 
A 5  B 17  rotation -90  difference 408526 
A 16  B 17  rotation -90  difference 409846 
A 4  B 17  rotation -90  difference 409048 
A 17  B 17  rotation -90  difference 410670 
A 3  B 17  rotation -90  difference 411480 
A 18  B 17  rotation -90  difference 411489 
A 2  B 17  rotation -90  difference 414434 
A 19  B 17  rotation -90  difference 413285 
A 1  B 17  rotation -90  difference 414015 
A 10  B 3  rotation -90  difference 407341 
A 11  B 3  rotation -90  difference 406380 
A 9  B 3  rotation -90  difference 406521 
A 12  B 3  rotation -90  difference 407844 
A 8  B 3  rotation -90  difference 405337 
A 13  B 3  rotation -90  difference 407738 
A 7  B 3  rotation -90  difference 407453 
A 14  B 3  rotation -90  difference 410878 
A 6  B 3  rotation -90  difference 407424 
A 15  B 3  rotation -90  difference 411837 
A 5  B 3  rotation -90  difference 409650 
A 16  B 3  rotation -90  difference 412408 
A 4  B 3  rotation -90  difference 412223 
A 17  B 3  rotation -90  difference 412050 
A 3  B 3  rotation -90  difference 413328 
A 18  B 3  rotation -90  difference 413290 
A 2  B 3  rotation -90  difference 414429 
A 19  B 3  rotation -90  difference 414872 
A 1  B 3  rotation -90  difference 415791 
A 10  B 18  rotation -90  difference 405399 
A 11  B 18  rotation -90  difference 405448 
A 9  B 18  rotation -90  difference 405411 
A 12  B 18  rotation -90  difference 406725 
A 8  B 18  rotation -90  difference 405264 
A 13  B 18  rotation -90  difference 406993 
A 7  B 18  rotation -90  difference 406518 
A 14  B 18  rotation -90  difference 408439 
A 6  B 18  rotation -90  difference 406809 
A 15  B 18  rotation -90  difference 409996 
A 5  B 18  rotation -90  difference 408752 
A 16  B 18  rotation -90  difference 409228 
A 4  B 18  rotation -90  difference 409326 
A 17  B 18  rotation -90  difference 409787 
A 3  B 18  rotation -90  difference 409729 
A 18  B 18  rotation -90  difference 411163 
A 2  B 18  rotation -90  difference 413153 
A 19  B 18  rotation -90  difference 411957 
A 1  B 18  rotation -90  difference 413595 
A 10  B 2  rotation -90  difference 408585 
A 11  B 2  rotation -90  difference 408160 
A 9  B 2  rotation -90  difference 406724 
A 12  B 2  rotation -90  difference 408884 
A 8  B 2  rotation -90  difference 407047 
A 13  B 2  rotation -90  difference 408889 
A 7  B 2  rotation -90  difference 408676 
A 14  B 2  rotation -90  difference 410358 
A 6  B 2  rotation -90  difference 407907 
A 15  B 2  rotation -90  difference 412643 
A 5  B 2  rotation -90  difference 410788 
A 16  B 2  rotation -90  difference 411732 
A 4  B 2  rotation -90  difference 412059 
A 17  B 2  rotation -90  difference 411938 
A 3  B 2  rotation -90  difference 412447 
A 18  B 2  rotation -90  difference 413576 
A 2  B 2  rotation -90  difference 413971 
A 19  B 2  rotation -90  difference 414195 
A 1  B 2  rotation -90  difference 415830 
A 10  B 19  rotation -90  difference 406936 
A 11  B 19  rotation -90  difference 406230 
A 9  B 19  rotation -90  difference 405415 
A 12  B 19  rotation -90  difference 407964 
A 8  B 19  rotation -90  difference 405820 
A 13  B 19  rotation -90  difference 407848 
A 7  B 19  rotation -90  difference 408044 
A 14  B 19  rotation -90  difference 409547 
A 6  B 19  rotation -90  difference 407793 
A 15  B 19  rotation -90  difference 411314 
A 5  B 19  rotation -90  difference 409174 
A 16  B 19  rotation -90  difference 409486 
A 4  B 19  rotation -90  difference 409650 
A 17  B 19  rotation -90  difference 409285 
A 3  B 19  rotation -90  difference 411121 
A 18  B 19  rotation -90  difference 412795 
A 2  B 19  rotation -90  difference 412145 
A 19  B 19  rotation -90  difference 411852 
A 1  B 19  rotation -90  difference 412997 
A 10  B 1  rotation -90  difference 409847 
A 11  B 1  rotation -90  difference 408943 
A 9  B 1  rotation -90  difference 408493 
A 12  B 1  rotation -90  difference 410295 
A 8  B 1  rotation -90  difference 408288 
A 13  B 1  rotation -90  difference 409209 
A 7  B 1  rotation -90  difference 408597 
A 14  B 1  rotation -90  difference 412578 
A 6  B 1  rotation -90  difference 410013 
A 15  B 1  rotation -90  difference 412531 
A 5  B 1  rotation -90  difference 411778 
A 16  B 1  rotation -90  difference 412614 
A 4  B 1  rotation -90  difference 412802 
A 17  B 1  rotation -90  difference 412701 
A 3  B 1  rotation -90  difference 415022 
A 18  B 1  rotation -90  difference 415702 
A 2  B 1  rotation -90  difference 416055 
A 19  B 1  rotation -90  difference 414656 
A 1  B 1  rotation -90  difference 416563 
Views in best pair: A 11  B 12

selene:180DM xuchen$ finddistort -bin 2 -pat -usexf -str rp18k.xf dp18k.st 18k -box 60 -ind 2

 RO image file on unit   1 : dp18k.st     Size=      16390 K

 Number of columns, rows, sections .....    1024    1024       8
 Map mode ..............................    1   (16-bit integer)           
 Start cols, rows, sects, grid x,y,z ...    0     0     0    1024   1024      8
 Pixel spacing (Angstroms)..............   15.56      15.56      15.56    
 Cell angles ...........................   90.000   90.000   90.000
 Fast, medium, slow axes ...............    X    Y    Z
 Origin on x,y,z .......................    0.000       0.000       0.000    
 Minimum density .......................   126.00                               
 Maximum density .......................   3431.0                               
 Mean density ..........................   1815.2                               
 tilt angles (original,current) ........   0.0   0.0   0.0   0.0   0.0   0.0
 Space group,# extra bytes,idtype,lens .        0     5120        0        0

     2 Titles :
SerialEM: Camera on TF30 1:Falcon 2:Orius 3:GIF         23-Dec-13  12:51:16    
    Tilt axis angle = -7.9, binning = 2  spot = 4  camera = 3                  


 FORMATTED  ro  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.rawxf
 pair           0           1 , deltas   490.2130      -28.17300    
 pair           2           3 , deltas   275.4690       299.8530    
 pair           4           5 , deltas   10.17400       457.2360    
 pair           6           7 , deltas  -304.8980       315.2540    
 Solving for          25  by          25  =         625  field positions
        4754  rows of data,       37477  entries
 condition #   497.3639       482.230921414097     
 Mean and max residual in fit:   0.308  0.961
 Mean and max change in field:    1.2344   7.2181

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.udxf
Shift changes:   0.62  -0.02   0.26   0.42  -0.12   0.73  -0.54   0.73
 iteration           2    mean change in shift  0.7067943    
        4754  rows of data,       37654  entries
 condition #   479.1414       479.706916615561     
 Mean and max residual in fit:   0.318  0.934
 Mean and max change in field:    0.0376   0.1850

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.udxf
Shift changes:   0.00   0.01   0.00   0.00   0.00   0.01  -0.01   0.01
 iteration           3    mean change in shift  1.2102230E-02
        4754  rows of data,       37660  entries
 condition #   479.4223       495.860867053309     
 Mean and max residual in fit:   0.320  0.949
 Mean and max change in field:    0.0029   0.0121

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           4    mean change in shift  1.1159979E-03
        4754  rows of data,       37660  entries
 condition #   479.4463       495.857867135230     
 Mean and max residual in fit:   0.320  0.950
 Mean and max change in field:    0.0003   0.0012

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           5    mean change in shift  5.0354004E-04
        4754  rows of data,       37660  entries
 condition #   479.4496       479.851694695074     
 Mean and max residual in fit:   0.320  0.950
 Mean and max change in field:    0.0001   0.0003

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           6    mean change in shift  0.0000000E+00
        4754  rows of data,       37660  entries
 condition #   479.4525       495.855995546258     
 Mean and max residual in fit:   0.320  0.950
 De-stretch transformation:  0.999877 -0.000439  0.000504  0.999868

 FORMATTED  ro  file opened: /Users/xuchen/GIF-distortion-field/180DM/rp18k.xf
Pair has rotation =  -90.22, mag = 1.0092, stretch = 0.9793 on   67.7 deg axis
Mean mag = 0.9987, using mag = 1.0105 and stretch = 0.9793
 No-mag transformation: -0.011232  0.992616 -1.007478  0.003509
True rotation =  -90.22, underlying stretch =  1.0052 on   67.6 deg axis
 Stretch transformation:  0.996298  0.003690  0.003690  1.003729
 Implied no-mag transformation: -0.011241  0.992616 -1.007478  0.003518

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.patch
 Embedded transformation:  0.996286  0.003694  0.003694  1.003713

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/18k.idf


225k
=====

selene:180DM xuchen$ finddistort -bin 2 -pat dp225k.st 225k -box 60 -ind 2

 RO image file on unit   1 : dp225k.st     Size=      16390 K

 Number of columns, rows, sections .....    1024    1024       8
 Map mode ..............................    1   (16-bit integer)           
 Start cols, rows, sects, grid x,y,z ...    0     0     0    1024   1024      8
 Pixel spacing (Angstroms)..............   12.48      12.48      12.48    
 Cell angles ...........................   90.000   90.000   90.000
 Fast, medium, slow axes ...............    X    Y    Z
 Origin on x,y,z .......................    0.000       0.000       0.000    
 Minimum density .......................  -20.000                               
 Maximum density .......................   2977.0                               
 Mean density ..........................   1427.9                               
 tilt angles (original,current) ........   0.0   0.0   0.0   0.0   0.0   0.0
 Space group,# extra bytes,idtype,lens .        0     5120        0        0

     2 Titles :
SerialEM: Camera on TF30 1:Falcon 2:Orius 3:GIF         23-Dec-13  12:59:20    
    Tilt axis angle = -8.1, binning = 2  spot = 4  camera = 3                  

 pair           0           1 , deltas   499.6080      -12.67700    
 pair           2           3 , deltas   264.7130       310.1580    
 pair           4           5 , deltas  -57.58600       503.6860    
 pair           7           6 , deltas   284.9330      -277.8330    

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.rawxf
 Solving for          25  by          25  =         625  field positions
        4694  rows of data,       37158  entries
 condition #   721.2687       697.647534989111     
 Mean and max residual in fit:   0.288  1.039
 Mean and max change in field:    1.2397   7.3301

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.54   0.04   0.22   0.48   0.03   0.80   0.54  -0.67
 iteration           2    mean change in shift  0.6977132    
        4694  rows of data,       37332  entries
 condition #   693.3256       724.211408070229     
 Mean and max residual in fit:   0.301  0.961
 Mean and max change in field:    0.0656   0.2577

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.00   0.01   0.00   0.00   0.03  -0.01   0.02  -0.01
 iteration           3    mean change in shift  1.9256033E-02
        4694  rows of data,       37338  entries
 condition #   695.8832       724.305779071029     
 Mean and max residual in fit:   0.308  0.970
 Mean and max change in field:    0.0070   0.0262

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           4    mean change in shift  1.8740174E-03
        4694  rows of data,       37340  entries
 condition #   716.1119       724.315294906894     
 Mean and max residual in fit:   0.308  0.972
 Mean and max change in field:    0.0007   0.0023

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           5    mean change in shift  8.6121808E-04
        4694  rows of data,       37340  entries
 condition #   709.2589       724.419696136875     
 Mean and max residual in fit:   0.308  0.972
 Mean and max change in field:    0.0001   0.0004

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           6    mean change in shift  7.0942088E-04
        4694  rows of data,       37340  entries
 condition #   716.1231       703.915973211116     
 Mean and max residual in fit:   0.308  0.972
 Mean and max change in field:    0.0001   0.0003

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           7    mean change in shift  5.0354004E-04
        4694  rows of data,       37340  entries
 condition #   716.1241       724.300084178340     
 Mean and max residual in fit:   0.309  0.972
 Mean and max change in field:    0.0001   0.0005

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           8    mean change in shift  5.0354004E-04
        4694  rows of data,       37340  entries
 condition #   716.1217       724.317421585900     
 Mean and max residual in fit:   0.308  0.972
 Mean and max change in field:    0.0001   0.0005

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           9    mean change in shift  5.0354004E-04
        4694  rows of data,       37340  entries
 condition #   716.1245       703.912096290017     
 Mean and max residual in fit:   0.309  0.972
 Mean and max change in field:    0.0001   0.0005

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration          10    mean change in shift  5.0354004E-04
        4694  rows of data,       37340  entries
 condition #   695.9003       716.692357913578     
 Mean and max residual in fit:   0.308  0.972
 De-stretch transformation:  1.000001  0.000427  0.000669  0.999775

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.patch
 Embedded transformation:  0.999988  0.000005  0.000005  0.999984

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.idf

selene:180DM xuchen$ matchrotpairs -d 225k.nosidf -b 2 225kts1.st 225kts2.st rp225k.xf
Finding the best matched pair of views in the two series:
              (Type Ctrl-C to end search)
A 10  B 10  rotation -90  difference 364114 *
A 10  B 10  rotation +90  difference 757927 
A 11  B 10  rotation -90  difference 357472 *
A 11  B 10  rotation +90  difference 758191 
A 9  B 10  rotation -90  difference 368339 
A 9  B 10  rotation +90  difference 813912 
A 12  B 10  rotation -90  difference 359473 
A 12  B 10  rotation +90  difference 796452 
A 8  B 10  rotation -90  difference 375094 
A 13  B 10  rotation -90  difference 363975 
A 7  B 10  rotation -90  difference 380433 
A 14  B 10  rotation -90  difference 371531 
A 6  B 10  rotation -90  difference 384004 
A 15  B 10  rotation -90  difference 374730 
A 5  B 10  rotation -90  difference 385963 
A 16  B 10  rotation -90  difference 377330 
A 4  B 10  rotation -90  difference 386515 
A 17  B 10  rotation -90  difference 380469 
A 3  B 10  rotation -90  difference 386864 
A 18  B 10  rotation -90  difference 383376 
A 2  B 10  rotation -90  difference 387221 
A 19  B 10  rotation -90  difference 386803 
A 1  B 10  rotation -90  difference 384923 
A 10  B 11  rotation -90  difference 361381 
A 11  B 11  rotation -90  difference 352359 *
A 9  B 11  rotation -90  difference 366877 
A 12  B 11  rotation -90  difference 355927 
A 8  B 11  rotation -90  difference 374059 
A 13  B 11  rotation -90  difference 361359 
A 7  B 11  rotation -90  difference 379754 
A 14  B 11  rotation -90  difference 368173 
A 6  B 11  rotation -90  difference 383969 
A 15  B 11  rotation -90  difference 374132 
A 5  B 11  rotation -90  difference 385015 
A 16  B 11  rotation -90  difference 376553 
A 4  B 11  rotation -90  difference 386418 
A 17  B 11  rotation -90  difference 380086 
A 3  B 11  rotation -90  difference 386915 
A 18  B 11  rotation -90  difference 382648 
A 2  B 11  rotation -90  difference 386966 
A 19  B 11  rotation -90  difference 386412 
A 1  B 11  rotation -90  difference 386119 
A 10  B 9  rotation -90  difference 367663 
A 11  B 9  rotation -90  difference 361885 
A 9  B 9  rotation -90  difference 372144 
A 12  B 9  rotation -90  difference 364792 
A 8  B 9  rotation -90  difference 377333 
A 13  B 9  rotation -90  difference 367217 
A 7  B 9  rotation -90  difference 383118 
A 14  B 9  rotation -90  difference 373859 
A 6  B 9  rotation -90  difference 385207 
A 15  B 9  rotation -90  difference 378094 
A 5  B 9  rotation -90  difference 386711 
A 16  B 9  rotation -90  difference 378932 
A 4  B 9  rotation -90  difference 388290 
A 17  B 9  rotation -90  difference 381380 
A 3  B 9  rotation -90  difference 388329 
A 18  B 9  rotation -90  difference 383541 
A 2  B 9  rotation -90  difference 388753 
A 19  B 9  rotation -90  difference 387255 
A 1  B 9  rotation -90  difference 387617 
A 10  B 12  rotation -90  difference 361927 
A 11  B 12  rotation -90  difference 353704 
A 9  B 12  rotation -90  difference 367415 
A 12  B 12  rotation -90  difference 355005 
A 8  B 12  rotation -90  difference 375129 
A 13  B 12  rotation -90  difference 362328 
A 7  B 12  rotation -90  difference 379289 
A 14  B 12  rotation -90  difference 368308 
A 6  B 12  rotation -90  difference 382180 
A 15  B 12  rotation -90  difference 372632 
A 5  B 12  rotation -90  difference 383418 
A 16  B 12  rotation -90  difference 375683 
A 4  B 12  rotation -90  difference 384196 
A 17  B 12  rotation -90  difference 379681 
A 3  B 12  rotation -90  difference 385579 
A 18  B 12  rotation -90  difference 382868 
A 2  B 12  rotation -90  difference 386060 
A 19  B 12  rotation -90  difference 386316 
A 1  B 12  rotation -90  difference 385434 
A 10  B 8  rotation -90  difference 371476 
A 11  B 8  rotation -90  difference 365983 
A 9  B 8  rotation -90  difference 374334 
A 12  B 8  rotation -90  difference 368165 
A 8  B 8  rotation -90  difference 378601 
A 13  B 8  rotation -90  difference 371218 
A 7  B 8  rotation -90  difference 383115 
A 14  B 8  rotation -90  difference 376072 
A 6  B 8  rotation -90  difference 385280 
A 15  B 8  rotation -90  difference 378039 
A 5  B 8  rotation -90  difference 387394 
A 16  B 8  rotation -90  difference 379733 
A 4  B 8  rotation -90  difference 388619 
A 17  B 8  rotation -90  difference 381907 
A 3  B 8  rotation -90  difference 388301 
A 18  B 8  rotation -90  difference 383933 
A 2  B 8  rotation -90  difference 389063 
A 19  B 8  rotation -90  difference 387290 
A 1  B 8  rotation -90  difference 386963 
A 10  B 13  rotation -90  difference 365206 
A 11  B 13  rotation -90  difference 357149 
A 9  B 13  rotation -90  difference 370453 
A 12  B 13  rotation -90  difference 357900 
A 8  B 13  rotation -90  difference 377583 
A 13  B 13  rotation -90  difference 363563 
A 7  B 13  rotation -90  difference 380451 
A 14  B 13  rotation -90  difference 369005 
A 6  B 13  rotation -90  difference 383247 
A 15  B 13  rotation -90  difference 373429 
A 5  B 13  rotation -90  difference 384282 
A 16  B 13  rotation -90  difference 377089 
A 4  B 13  rotation -90  difference 386296 
A 17  B 13  rotation -90  difference 379652 
A 3  B 13  rotation -90  difference 388458 
A 18  B 13  rotation -90  difference 382423 
A 2  B 13  rotation -90  difference 388606 
A 19  B 13  rotation -90  difference 386449 
A 1  B 13  rotation -90  difference 386811 
A 10  B 7  rotation -90  difference 375747 
A 11  B 7  rotation -90  difference 369694 
A 9  B 7  rotation -90  difference 378148 
A 12  B 7  rotation -90  difference 371810 
A 8  B 7  rotation -90  difference 381325 
A 13  B 7  rotation -90  difference 374666 
A 7  B 7  rotation -90  difference 384433 
A 14  B 7  rotation -90  difference 377780 
A 6  B 7  rotation -90  difference 386212 
A 15  B 7  rotation -90  difference 381242 
A 5  B 7  rotation -90  difference 386627 
A 16  B 7  rotation -90  difference 381612 
A 4  B 7  rotation -90  difference 388189 
A 17  B 7  rotation -90  difference 383572 
A 3  B 7  rotation -90  difference 388749 
A 18  B 7  rotation -90  difference 385271 
A 2  B 7  rotation -90  difference 389270 
A 19  B 7  rotation -90  difference 386493 
A 1  B 7  rotation -90  difference 387284 
A 10  B 14  rotation -90  difference 369475 
A 11  B 14  rotation -90  difference 362692 
A 9  B 14  rotation -90  difference 372807 
A 12  B 14  rotation -90  difference 362542 
A 8  B 14  rotation -90  difference 379353 
A 13  B 14  rotation -90  difference 366342 
A 7  B 14  rotation -90  difference 383181 
A 14  B 14  rotation -90  difference 372301 
A 6  B 14  rotation -90  difference 385369 
A 15  B 14  rotation -90  difference 375472 
A 5  B 14  rotation -90  difference 386401 
A 16  B 14  rotation -90  difference 377802 
A 4  B 14  rotation -90  difference 388022 
A 17  B 14  rotation -90  difference 380591 
A 3  B 14  rotation -90  difference 389382 
A 18  B 14  rotation -90  difference 383225 
A 2  B 14  rotation -90  difference 389902 
A 19  B 14  rotation -90  difference 387230 
A 1  B 14  rotation -90  difference 388710 
A 10  B 6  rotation -90  difference 378530 
A 11  B 6  rotation -90  difference 374072 
A 9  B 6  rotation -90  difference 380451 
A 12  B 6  rotation -90  difference 375405 
A 8  B 6  rotation -90  difference 383520 
A 13  B 6  rotation -90  difference 376529 
A 7  B 6  rotation -90  difference 386899 
A 14  B 6  rotation -90  difference 380886 
A 6  B 6  rotation -90  difference 387547 
A 15  B 6  rotation -90  difference 382385 
A 5  B 6  rotation -90  difference 388487 
A 16  B 6  rotation -90  difference 382440 
A 4  B 6  rotation -90  difference 388966 
A 17  B 6  rotation -90  difference 383433 
A 3  B 6  rotation -90  difference 388974 
A 18  B 6  rotation -90  difference 386681 
A 2  B 6  rotation -90  difference 389004 
A 19  B 6  rotation -90  difference 388611 
A 1  B 6  rotation -90  difference 386820 
A 10  B 15  rotation -90  difference 374139 
A 11  B 15  rotation -90  difference 367682 
A 9  B 15  rotation -90  difference 375598 
A 12  B 15  rotation -90  difference 367474 
A 8  B 15  rotation -90  difference 381482 
A 13  B 15  rotation -90  difference 369904 
A 7  B 15  rotation -90  difference 384767 
A 14  B 15  rotation -90  difference 374876 
A 6  B 15  rotation -90  difference 386659 
A 15  B 15  rotation -90  difference 376958 
A 5  B 15  rotation -90  difference 386058 
A 16  B 15  rotation -90  difference 379292 
A 4  B 15  rotation -90  difference 388790 
A 17  B 15  rotation -90  difference 381329 
A 3  B 15  rotation -90  difference 389811 
A 18  B 15  rotation -90  difference 383944 
A 2  B 15  rotation -90  difference 389963 
A 19  B 15  rotation -90  difference 386264 
A 1  B 15  rotation -90  difference 388657 
A 10  B 5  rotation -90  difference 382033 
A 11  B 5  rotation -90  difference 377042 
A 9  B 5  rotation -90  difference 383563 
A 12  B 5  rotation -90  difference 378269 
A 8  B 5  rotation -90  difference 386514 
A 13  B 5  rotation -90  difference 380088 
A 7  B 5  rotation -90  difference 388985 
A 14  B 5  rotation -90  difference 382897 
A 6  B 5  rotation -90  difference 388965 
A 15  B 5  rotation -90  difference 383606 
A 5  B 5  rotation -90  difference 389366 
A 16  B 5  rotation -90  difference 383635 
A 4  B 5  rotation -90  difference 390376 
A 17  B 5  rotation -90  difference 385905 
A 3  B 5  rotation -90  difference 389576 
A 18  B 5  rotation -90  difference 386987 
A 2  B 5  rotation -90  difference 389944 
A 19  B 5  rotation -90  difference 388387 
A 1  B 5  rotation -90  difference 387610 
A 10  B 16  rotation -90  difference 377358 
A 11  B 16  rotation -90  difference 371765 
A 9  B 16  rotation -90  difference 378520 
A 12  B 16  rotation -90  difference 370264 
A 8  B 16  rotation -90  difference 384071 
A 13  B 16  rotation -90  difference 373399 
A 7  B 16  rotation -90  difference 386007 
A 14  B 16  rotation -90  difference 378049 
A 6  B 16  rotation -90  difference 387241 
A 15  B 16  rotation -90  difference 379605 
A 5  B 16  rotation -90  difference 387737 
A 16  B 16  rotation -90  difference 381220 
A 4  B 16  rotation -90  difference 389993 
A 17  B 16  rotation -90  difference 381811 
A 3  B 16  rotation -90  difference 389136 
A 18  B 16  rotation -90  difference 383839 
A 2  B 16  rotation -90  difference 389198 
A 19  B 16  rotation -90  difference 386838 
A 1  B 16  rotation -90  difference 387823 
A 10  B 4  rotation -90  difference 382637 
A 11  B 4  rotation -90  difference 379718 
A 9  B 4  rotation -90  difference 384229 
A 12  B 4  rotation -90  difference 380139 
A 8  B 4  rotation -90  difference 386418 
A 13  B 4  rotation -90  difference 381426 
A 7  B 4  rotation -90  difference 389445 
A 14  B 4  rotation -90  difference 384344 
A 6  B 4  rotation -90  difference 389490 
A 15  B 4  rotation -90  difference 385227 
A 5  B 4  rotation -90  difference 389471 
A 16  B 4  rotation -90  difference 384547 
A 4  B 4  rotation -90  difference 389669 
A 17  B 4  rotation -90  difference 385731 
A 3  B 4  rotation -90  difference 389949 
A 18  B 4  rotation -90  difference 388380 
A 2  B 4  rotation -90  difference 390137 
A 19  B 4  rotation -90  difference 389216 
A 1  B 4  rotation -90  difference 388023 
A 10  B 17  rotation -90  difference 380533 
A 11  B 17  rotation -90  difference 374995 
A 9  B 17  rotation -90  difference 382594 
A 12  B 17  rotation -90  difference 376478 
A 8  B 17  rotation -90  difference 386423 
A 13  B 17  rotation -90  difference 377203 
A 7  B 17  rotation -90  difference 388235 
A 14  B 17  rotation -90  difference 380779 
A 6  B 17  rotation -90  difference 388829 
A 15  B 17  rotation -90  difference 381385 
A 5  B 17  rotation -90  difference 388025 
A 16  B 17  rotation -90  difference 381259 
A 4  B 17  rotation -90  difference 389553 
A 17  B 17  rotation -90  difference 382709 
A 3  B 17  rotation -90  difference 389189 
A 18  B 17  rotation -90  difference 384081 
A 2  B 17  rotation -90  difference 389190 
A 19  B 17  rotation -90  difference 387785 
A 1  B 17  rotation -90  difference 387330 
A 10  B 3  rotation -90  difference 385365 
A 11  B 3  rotation -90  difference 381127 
A 9  B 3  rotation -90  difference 384869 
A 12  B 3  rotation -90  difference 380554 
A 8  B 3  rotation -90  difference 388280 
A 13  B 3  rotation -90  difference 382878 
A 7  B 3  rotation -90  difference 389932 
A 14  B 3  rotation -90  difference 385177 
A 6  B 3  rotation -90  difference 390159 
A 15  B 3  rotation -90  difference 386538 
A 5  B 3  rotation -90  difference 390057 
A 16  B 3  rotation -90  difference 385415 
A 4  B 3  rotation -90  difference 390094 
A 17  B 3  rotation -90  difference 386757 
A 3  B 3  rotation -90  difference 391150 
A 18  B 3  rotation -90  difference 388305 
A 2  B 3  rotation -90  difference 390335 
A 19  B 3  rotation -90  difference 389245 
A 1  B 3  rotation -90  difference 388226 
A 10  B 18  rotation -90  difference 383326 
A 11  B 18  rotation -90  difference 378365 
A 9  B 18  rotation -90  difference 384581 
A 12  B 18  rotation -90  difference 378958 
A 8  B 18  rotation -90  difference 389065 
A 13  B 18  rotation -90  difference 380292 
A 7  B 18  rotation -90  difference 389690 
A 14  B 18  rotation -90  difference 382626 
A 6  B 18  rotation -90  difference 390588 
A 15  B 18  rotation -90  difference 383089 
A 5  B 18  rotation -90  difference 389518 
A 16  B 18  rotation -90  difference 383156 
A 4  B 18  rotation -90  difference 391293 
A 17  B 18  rotation -90  difference 383743 
A 3  B 18  rotation -90  difference 390563 
A 18  B 18  rotation -90  difference 385937 
A 2  B 18  rotation -90  difference 389652 
A 19  B 18  rotation -90  difference 387901 
A 1  B 18  rotation -90  difference 387391 
A 10  B 2  rotation -90  difference 386368 
A 11  B 2  rotation -90  difference 382278 
A 9  B 2  rotation -90  difference 386891 
A 12  B 2  rotation -90  difference 383446 
A 8  B 2  rotation -90  difference 389478 
A 13  B 2  rotation -90  difference 384636 
A 7  B 2  rotation -90  difference 391962 
A 14  B 2  rotation -90  difference 386903 
A 6  B 2  rotation -90  difference 391493 
A 15  B 2  rotation -90  difference 388281 
A 5  B 2  rotation -90  difference 392203 
A 16  B 2  rotation -90  difference 386885 
A 4  B 2  rotation -90  difference 392603 
A 17  B 2  rotation -90  difference 386495 
A 3  B 2  rotation -90  difference 392461 
A 18  B 2  rotation -90  difference 387408 
A 2  B 2  rotation -90  difference 391675 
A 19  B 2  rotation -90  difference 389515 
A 1  B 2  rotation -90  difference 388875 
A 10  B 19  rotation -90  difference 384240 
A 11  B 19  rotation -90  difference 379386 
A 9  B 19  rotation -90  difference 385998 
A 12  B 19  rotation -90  difference 378968 
A 8  B 19  rotation -90  difference 389107 
A 13  B 19  rotation -90  difference 380933 
A 7  B 19  rotation -90  difference 390406 
A 14  B 19  rotation -90  difference 383262 
A 6  B 19  rotation -90  difference 390023 
A 15  B 19  rotation -90  difference 382795 
A 5  B 19  rotation -90  difference 390698 
A 16  B 19  rotation -90  difference 382754 
A 4  B 19  rotation -90  difference 391124 
A 17  B 19  rotation -90  difference 383010 
A 3  B 19  rotation -90  difference 389924 
A 18  B 19  rotation -90  difference 384842 
A 2  B 19  rotation -90  difference 389051 
A 19  B 19  rotation -90  difference 387535 
A 1  B 19  rotation -90  difference 387000 
A 10  B 1  rotation -90  difference 387359 
A 11  B 1  rotation -90  difference 384534 
A 9  B 1  rotation -90  difference 389270 
A 12  B 1  rotation -90  difference 384744 
A 8  B 1  rotation -90  difference 391063 
A 13  B 1  rotation -90  difference 386325 
A 7  B 1  rotation -90  difference 393444 
A 14  B 1  rotation -90  difference 388108 
A 6  B 1  rotation -90  difference 393233 
A 15  B 1  rotation -90  difference 389130 
A 5  B 1  rotation -90  difference 393847 
A 16  B 1  rotation -90  difference 387711 
A 4  B 1  rotation -90  difference 394030 
A 17  B 1  rotation -90  difference 388208 
A 3  B 1  rotation -90  difference 393681 
A 18  B 1  rotation -90  difference 389522 
A 2  B 1  rotation -90  difference 393183 
A 19  B 1  rotation -90  difference 390788 
A 1  B 1  rotation -90  difference 390111 
Views in best pair: A 11  B 11

selene:180DM xuchen$ finddistort -bin 2 -pat -usexf -str rp225k.xf dp225k.st 225k -box 60 -ind 2

 RO image file on unit   1 : dp225k.st     Size=      16390 K

 Number of columns, rows, sections .....    1024    1024       8
 Map mode ..............................    1   (16-bit integer)           
 Start cols, rows, sects, grid x,y,z ...    0     0     0    1024   1024      8
 Pixel spacing (Angstroms)..............   12.48      12.48      12.48    
 Cell angles ...........................   90.000   90.000   90.000
 Fast, medium, slow axes ...............    X    Y    Z
 Origin on x,y,z .......................    0.000       0.000       0.000    
 Minimum density .......................  -20.000                               
 Maximum density .......................   2977.0                               
 Mean density ..........................   1427.9                               
 tilt angles (original,current) ........   0.0   0.0   0.0   0.0   0.0   0.0
 Space group,# extra bytes,idtype,lens .        0     5120        0        0

     2 Titles :
SerialEM: Camera on TF30 1:Falcon 2:Orius 3:GIF         23-Dec-13  12:59:20    
    Tilt axis angle = -8.1, binning = 2  spot = 4  camera = 3                  


 FORMATTED  ro  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.rawxf
 pair           0           1 , deltas   499.6080      -12.67700    
 pair           2           3 , deltas   264.7130       310.1580    
 pair           4           5 , deltas  -57.58600       503.6860    
 pair           7           6 , deltas   284.9330      -277.8330    
 Solving for          25  by          25  =         625  field positions
        4694  rows of data,       37158  entries
 condition #   721.2687       697.647534989111     
 Mean and max residual in fit:   0.288  1.039
 Mean and max change in field:    1.2397   7.3301

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.54   0.04   0.22   0.48   0.03   0.80   0.54  -0.67
 iteration           2    mean change in shift  0.6977132    
        4694  rows of data,       37332  entries
 condition #   693.3256       724.211408070229     
 Mean and max residual in fit:   0.301  0.961
 Mean and max change in field:    0.0656   0.2577

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.00   0.01   0.00   0.00   0.03  -0.01   0.02  -0.01
 iteration           3    mean change in shift  1.9256033E-02
        4694  rows of data,       37338  entries
 condition #   695.8832       724.305779071029     
 Mean and max residual in fit:   0.308  0.970
 Mean and max change in field:    0.0070   0.0262

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           4    mean change in shift  1.8740174E-03
        4694  rows of data,       37340  entries
 condition #   716.1119       724.315294906894     
 Mean and max residual in fit:   0.308  0.972
 Mean and max change in field:    0.0007   0.0023

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           5    mean change in shift  8.6121808E-04
        4694  rows of data,       37340  entries
 condition #   709.2589       724.419696136875     
 Mean and max residual in fit:   0.308  0.972
 Mean and max change in field:    0.0001   0.0004

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           6    mean change in shift  7.0942088E-04
        4694  rows of data,       37340  entries
 condition #   716.1231       703.915973211116     
 Mean and max residual in fit:   0.308  0.972
 Mean and max change in field:    0.0001   0.0003

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           7    mean change in shift  5.0354004E-04
        4694  rows of data,       37340  entries
 condition #   716.1241       724.300084178340     
 Mean and max residual in fit:   0.309  0.972
 Mean and max change in field:    0.0001   0.0005

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           8    mean change in shift  5.0354004E-04
        4694  rows of data,       37340  entries
 condition #   716.1217       724.317421585900     
 Mean and max residual in fit:   0.308  0.972
 Mean and max change in field:    0.0001   0.0005

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration           9    mean change in shift  5.0354004E-04
        4694  rows of data,       37340  entries
 condition #   716.1245       703.912096290017     
 Mean and max residual in fit:   0.309  0.972
 Mean and max change in field:    0.0001   0.0005

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.nosidf

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.udxf
Shift changes:   0.00   0.00   0.00   0.00   0.00   0.00   0.00   0.00
 iteration          10    mean change in shift  5.0354004E-04
        4694  rows of data,       37340  entries
 condition #   695.9003       716.692357913578     
 Mean and max residual in fit:   0.308  0.972
 De-stretch transformation:  1.000001  0.000427  0.000669  0.999775

 FORMATTED  ro  file opened: /Users/xuchen/GIF-distortion-field/180DM/rp225k.xf
Pair has rotation =  -90.19, mag = 1.0105, stretch = 0.9773 on   68.2 deg axis
Mean mag = 0.9990, using mag = 1.0115 and stretch = 0.9773
 No-mag transformation: -0.011273  0.991797 -1.008323  0.004603
True rotation =  -90.19, underlying stretch =  1.0058 on   68.0 deg axis
 Stretch transformation:  0.995885  0.003979  0.003979  1.004148
 Implied no-mag transformation: -0.011293  0.991797 -1.008324  0.004623

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.patch
 Embedded transformation:  0.995873  0.003984  0.003984  1.004132

 FORMATTED  new  file opened: /Users/xuchen/GIF-distortion-field/180DM/225k.idf