cdf3 segmentation error
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HI
I am using CTFFIND3.usually i don't get any error with the program but this time i ran it with fallowing options and it start to give me strange result.
i really appreciate it if some one help me to find out what i am missing and what are my mistakes.
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:/fs/metawrk/pmohamma/nora_mrc_unbin> ctf3.com -m 62000 -s 7 -b 512 -d 3500 5000 500 -r 100 1 0 *u.mrc
Parameters for CTFFIND3
Spherical abberration : 2.0 mm
Operation voltage : 200 kV
Amplitude contrast : 0.07
Magnification : 62000 x
Sampling : 7 um
Box size : 512 pix
Resolution range : 100 -- 10 Å
Defocus range : 3500 -- 5000 Å. Stepsize : 500 Å
/v/users/butcher/bin/ctf3.com: line 86: 17257 Segmentation fault ctffind3 > ./${name}_ctf3.log <<-EOF
./${name}.mrc
./${name}_ctf3.mrc
${aberration},${voltage},${amp_contrast},${magnification},${sampling}
${box_size},${resolution_min},${resolution_max},${defocus_min},${defocus_max},${defocus_step}
EOF
/v/users/butcher/bin/ctf3.com: line 86: 18356 Segmentation fault ctffind3 > ./${name}_ctf3.log <<-EOF
./${name}.mrc
./${name}_ctf3.mrc
${aberration},${voltage},${amp_contrast},${magnification},${sampling}
${box_size},${resolution_min},${resolution_max},${defocus_min},${defocus_max},${defocus_step}
EOF
.
.
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it goes so on,until long list of paragraphs same as 2 paragraph as above appears.
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Can you please post (or email
Can you please post (or email me) the ctf3.com file, as well as one of the ctf3.log files?
From your ctf3.com file, it
In reply to Can you please post (or email by niko
From your ctf3.com file, it looks like you are missing one parameter at the end of the last input line. This is a new parameter that is set to the expected amount of astigmatism (difference between the two defocus values). If you do not know what the astigmatism is, set this to a big value (e.g. 2000.0). In most cases, a smaller value should be more appropriate, e.g. 500.0 or 300.0.