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Feature #6715

closed

utility to convert tia raw data series to other formats

Added by Anchi Cheng almost 6 years ago. Updated almost 6 years ago.

Status:
Closed
Priority:
Normal
Assignee:
Category:
-
Start date:
02/04/2019
Due date:
% Done:

0%

Estimated time:
Deliverable:

Description

For electron diffraction processing and appion upload

Actions #1

Updated by Anchi Cheng almost 6 years ago

  • Subject changed from utility to convert tia raw data series to smv files to utility to convert tia raw data series to other formats
  • Description updated (diff)
Actions #2

Updated by Anchi Cheng almost 6 years ago

  • Status changed from Assigned to Closed
  • Target version set to Appion/Leginon 3.4

works.

Actions #3

Updated by Anchi Cheng almost 6 years ago

Usage:

Typically run in the directory that contains the *_???.bin folder where ??? is a %03d or %02d format integer.
Requires knowledge of where pyami is installed or you should copy the python script to a shell accessible directory yourself.

python /path_to_pyami/tiaraw2mrc.py

You should get the below lines for you to enter file prefix desired.

This converts a series of TIA raw output *.bin to mrc format
Enter bin file prefix prior to _001.bin, for example: 
Enter mrc file prefix: 

tiaraw2smv.py is similar but with one addition input

Data offset value (default=200 is added to the input value): 

smv is unsigned while tiaraw is signed. Therefore this offset is needed if you want noise statistics to be correct.

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