If the images to be adjusted don't have the same window size, for example, to get reference prj001 from 128,128 to 150,150: 1) Pad reference to actual size and put particle in center pd prj001 to 150,150, top left 12,12 =prji001 check if it is still on centre (in case padding was with wrong right top coordinates): rotate 3 times 90 degress, add these 3 and the initial image=addproj cc prji001 addproj ccf 002 PK C X11,X12,X13,X14,X15,X16,X17 ccf002 3,0 3,3 n 5 4,4 EDGE EXCLUSION WIDTH USED: X: 4 Y: 4 LARGEST PEAK: NO NSAM NROW X Y VALUE RATIO 1 IF NEGATIVE VALUES IN CGR AREA 1 74.96 73.05 -1.04 -2.95 0.727E+05 1.00000 0 + (-0.14, 0.17) PEAK VALUE = 72851. ** 3 PEAKS SPECIFIED 3 PEAKS PASSED 0 PEAKS EXCLUDED (NEIGB.DIST. EDGE EXCL.) sh prji001 prjish001 1,3 re-check that now is in the centre, repeating the same operation (rotate 3 times 90 degrees, cc, pk) and checking that shifts=0 2) If images need to be both re-adjusted and oriented, they should be initially rotated by eye, and when the size is adjusted, re-aligned using the existing procedures