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Micrograph movie summation: Sum micrograph movies with SumMovie.
Usage in command line
sxsummovie.py summovie_path input_micrograph_pattern input_shift_pattern output_directory --selection_list=SELECTION_LIST --nr_frames=nr_frames --first=FIRST --last=LAST --pixel_size=pixel_size --nr_threads=NR_THREADS --apply_dose_filter --voltage=voltage --exposure_per_frame=exposure_per_frame --pre_exposure=pre_exposure --dont_restore_noise
sxsummovie exists only in non-MPI version.
Perform summovie without dose filtering:
sxsummovie.py ~/my_app/summovie 'outdir_unblur/corrsum/micrograph_*_frames_sum.mrc' 'outdir_unblur/shift/micrograph_*_frames_shift.txt' outdir_summovie --nr_frames=24 --pixel_size=1.19 --nr_threads=1
Perform summovie without dose filtering and with less frames:
sxsummovie.py ~/my_app/summovie 'outdir_unblur/corrsum/micrograph_*_frames_sum.mrc' 'outdir_unblur/shift/micrograph_*_frames_shift.txt' outdir_summovie --nr_frames=24 --first=3 --last=15 --pixel_size=1.19 --nr_threads=1
Perform summovie with dose filtering and with less frames:
sxsummovie.py ~/my_app/summovie 'outdir_unblur/corrsum/micrograph_*_frames_sum.mrc' 'outdir_unblur/shift/micrograph_*_frames_shift.txt' outdir_summovie --nr_frames=24 --first=3 --last=15 --pixel_size=1.19 --nr_threads=1 --apply_dose_filter --voltage=300 --exposure_per_frame=2 --pre_exposure=0
The program automatically creates the following subdirectories in the specified output directory.
Without dose-filtering:
Sum files will be written to the “corrsum” directory.
Log files will be written to the “logfiles” directory.
FRC files will be written to the “frc” directory.
With dose-filtering:
Dose filtered sum files will be written to the “corrsum_dose_filtered” directory.
Log files will be written to the “logfiles” directory
FRC files will be written to the “frc” directory.
Markus Stabrin
Category 1:: APPLICATIONS
sxsummovie.py
No bugs known so far.