ctffind output

Hello,

When I run ctffind4 on tomography tilt series consisting of 61 frames. I get output containing ctf parameters ( if I correctly understand) as average values for the tilt series. Please see below:

# Output from CTFFind version 4.1.14, run on 2022-06-27 21:18:54
# Input file: ./tomo_wt_002.mrc ; Number of micrographs: 1
# Pixel size: 3.356 Angstroms ; acceleration voltage: 300.0 keV ; spherical aberration: 2.70 mm ; amplitude contrast: 0.07
# Box size: 512 pixels ; min. res.: 40.0 Angstroms ; max. res.: 10.0 Angstroms ; min. def.: 40000.0 um; max. def. 60000.0 um
# Columns: #1 - micrograph number; #2 - defocus 1 [Angstroms]; #3 - defocus 2; #4 - azimuth of astigmatism; #5 - additional phase sh
ift [radians]; #6 - cross correlation; #7 - spacing (in Angstroms) up to which CTF rings were fit successfully
1.000000 60066.507812 58577.039062 -16.516852 0.000000 0.081746 9.875126

 

Instead, I wish to get an output containing ctf parameters for each 61 images within the tilt series. Like below

 

# Output from CTFFind version 4.1.14, run on 2022-06-27 21:18:54
# Input file: ./tomo_wt_002.mrc ; Number of micrographs: 1
# Pixel size: 3.356 Angstroms ; acceleration voltage: 300.0 keV ; spherical aberration: 2.70 mm ; amplitude contrast: 0.07
# Box size: 512 pixels ; min. res.: 40.0 Angstroms ; max. res.: 10.0 Angstroms ; min. def.: 40000.0 um; max. def. 60000.0 um
# Columns: #1 - micrograph number; #2 - defocus 1 [Angstroms]; #3 - defocus 2; #4 - azimuth of astigmatism; #5 - additional phase sh
ift [radians]; #6 - cross correlation; #7 - spacing (in Angstroms) up to which CTF rings were fit successfully
1.000000 60066.507812 58577.039062 -16.516852 0.000000 0.081746 9.875126

2.000000 61066.507812 59577.039062 -17.516852 0.000000 0.081746 9.875126

3.000000 61266.507812 57577.039062 -18.516852 0.000000 0.081746 9.875126

.....

61.00000 ......

 

Is there a flag that I am missing as an input for cttfind4?

 

Thanks,

Elena

 

Hi Elena,

what are the parameters you are using?

My guess is you answered

 

Input is a movie (stack of frames):

with Yes, which will cause ctffind to assume the images are frames of a movie and calculate an average ctf value.

Best,

Johannes