Most probably!
Now I run into the next problem:
CTF estimation by using CTFFIND-4.1 outputs the following:
"ERROR: Unexpected number of words on data line with acceleration
voltage in
CtfFind/job004/Micrographs/ApartAu2secCC_20k_K2_Jun18_04_17_41.txt" This
and all other .txt files look like this:
# Output from CTFFind version 4.0.17, run on 2018-09-23 07:40:55
# Input file:
CtfFind/job004/Micrographs/ApartAu2secCC_20k_K2_Jun18_09_46_16.mrc;
Number of micrographs: 1
# Pixel size: 2.033; acceleration voltage: 300.0; spherical aberration:
2.0; amplitude contrast: .10
# Box size: 512; min res: 30.0; max. res.: 5.0; min. def.: 5000.0; max.
def.: 50000.0
# Columns: #1 - micrograph number; #2 - defocus 1 [Angstroms]; #3 -
defocus 2; #4 - azimuth of astigmatism; #5 - additional phase shift
[radians]; #6 - cross correlation; #7 - spacing (in Angstroms) up to
which CTF rings were fit successfully
1.000000 14302.16 13027.00 0.1076347 0.000000
0.1290669E-01 23.65673
all files seem to be generated correctly except that the final star file
that combines the results of all files is missing!
Sorry, but I have to ask again for help
bw, Dieter
------------------------------------------------------------------------
Dieter Blaas,
Max F. Perutz Laboratories
Medical University of Vienna,
Inst. Med. Biochem., Vienna Biocenter (VBC),
Dr. Bohr Gasse 9/3,
A-1030 Vienna, Austria,
Tel: 0043 1 4277 61630,
Fax: 0043 1 4277 9616,
e-mail: [log in to unmask]
------------------------------------------------------------------------
Am 23.09.2018 um 08:36 schrieb Yehuda Halfon:
>
> Maybe something got corrupted in the file.
>
>
>
> -------- Original Message --------
> From: Dieter Blaas <[log in to unmask]>
> Sent: Sunday, September 23, 2018 12:17 AM
> To: [log in to unmask]
> Subject: Re: [ccpem] Relion-3-beta2: ERROR: Too few frames (<3) after
> grouping
>
> Very strange: The 1st movie does not give any output when invoking this
> command. The second gives a long output with a number of parameters that
> seem reasonable! So, despite having the same size there seems to be
> something wrong with the first movie. And this is apparently recognized
> by relion as it denies to run "Import" on it!
>
> In the meantime I had manually assembled the star file that is normally
> made by "Import", deleted the first movie record and used it in "Motion
> Correction". It now seems to be running normally, I shall see tomorrow
> whether it terminates correctly!
>
> Thanks a lot for your help, I never ever would have found that on my own..
>
> bw Dieter
>
> ------------------------------------------------------------------------
> Dieter Blaas,
> Max F. Perutz Laboratories
> Medical University of Vienna,
> Inst. Med. Biochem., Vienna Biocenter (VBC),
> Dr. Bohr Gasse 9/3,
> A-1030 Vienna, Austria,
> Tel: 0043 1 4277 61630,
> Fax: 0043 1 4277 9616,
> e-mail: [log in to unmask]
> ------------------------------------------------------------------------
>
> Am 22.09.2018 um 22:11 schrieb Takanori Nakane:
> > Hi,
> >
> > What does 'relion_image_handler --stats --i ' say on the
> > file it fails?
> >
> > Best regards,
> >
> > Takanori Nakane
> >
> > On 2018/09/22 19:23, Dieter Blaas wrote:
> >> Hi,
> >>
> >> Running Motion Correction on an older dataset collected with a
> >> Polara / K2 I get the error: "Too few frames (<3) after grouping".
> >> However, I do not group anything (Group frames = 1) and I have 18
> >> frames per movie. All files have 489 MB. What might be wrong?
> >>
> >> ++++ with the following command(s):
> >> `which relion_run_motioncorr_mpi` --i Import/job001/movies.star --o
> >> MotionCorr/job002/ --first_frame_sum 1 --last_frame_sum 0 --use_own
> >> --j 2 --bin_factor 1 --bfactor 180 --angpix 0.97 --voltage 300
> >> --dose_per_frame 2 --preexposure 0 --patch_x 5 --patch_y 5
> --dose_weight
> >> ing
> >> ++++
> >>
> >> Thanks for hints, bw Dieter
> >>
> >>
> >>
> ------------------------------------------------------------------------
> >> Dieter Blaas,
> >> Max F. Perutz Laboratories
> >> Medical University of Vienna,
> >> Inst. Med. Biochem., Vienna Biocenter (VBC),
> >> Dr. Bohr Gasse 9/3,
> >> A-1030 Vienna, Austria,
> >> Tel: 0043 1 4277 61630,
> >> Fax: 0043 1 4277 9616,
> >> e-mail: [log in to unmask]
> >>
> ------------------------------------------------------------------------
> >>
> >>
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> >
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