i am new user first Q?? with HKL2000 (with scale anomalous option: ON) the output.sca file is like that (for example):   1  -985     38.064    89.066    51.543    90.000   100.446    90.000 p21                0   0   2  3433.6    77.1    0   0   3   735.6    14.0    0   0  11  1564.7    25.4    0   0  12  5643.2    88.3    0   0  13   541.5     9.7    0   0  14  1701.0    27.4    0   1   1  2060.5    47.0    0   1   2  4115.3    75.3   4257.1    97.5    0   1   3  8782.0   280.6  7728.9   173.9    0   1   5  1760.8    28.4  1778.5    33.5    0   1   6  6650.2   122.2  6843.2   126.0    0   1   7  1935.8    36.6  1794.2    29.1   is that one is merged or unmerged????? if i compare with the output.sca with scale anomalous option (off):    0   0   2  3444.4    77.3    0   0   3   734.9    14.0    0   0   4  1705.0    27.5    0   0   5  2693.8    49.4    0   0   6  8383.1   153.9 ------------------------------------------------------- second Q? using output.sca (with scale anomalous option on) for molecular Replacment generate MR.mtz which shows F,SIGF in data labels under phenix.refine the generated (refine_data.mtz) shows: I-obs(+),SIGI-obs(+),I-obs(-),SIGI-obs(-) what is going on in first and second run? ----------------------------------------------------------------- third Q? i want to generate anomalous difference map using phenix.map but when i use output.sca (with scale anomalous option: ON) as reflections file the data label show ((i-obs,sigma)) how to convert this SCA file (if it is merged) to unmerged sca file to creat anomalous difference map for protein contains Br, Sn and Sulpher?? i want to see peaks for these 3 elements to confirm their presence. N.B: the wavelenght was 1.00900 N.B: resolution 1.78 A N.B: i use GUI phenix i am sorry for that long e-mail. thank you in advance haytham wahba biochemi UdeM Canada