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Bug #1715

open

readImagic does not use smaller particle iteration number for larger particle image

Added by Anchi Cheng about 12 years ago. Updated about 12 years ago.

Status:
In Code Review
Priority:
Normal
Assignee:
Dmitry Lyumkis
Category:
Python scripting
Target version:
Appion/Leginon 2.2.0
Start date:
04/13/2012
Due date:
% Done:

0%

Estimated time:
Affected Version:
Appion/Leginon 2.1.0
Show in known bugs:
No
Workaround:

Description

This is fixed at 4096 so that if the particle box size is large, it will fail even though it does not have to.

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 #1

Updated by Anchi Cheng about 12 years ago

  • Status changed from Assigned to In Code Review
  • Assignee changed from Anchi Cheng to Dmitry Lyumkis

r16489 add a function to make a reasonable number for this case and use it in appion/bin/uploadMaxlikeAlignment.py where the bug was discovered.

Testing:
1. Test if uploadMaxlikeAlignment.py works in general:
run maxlike alignment on any stack and upload. It should go through fine.
2. Test the function directly on a large box stack from python command line.
You can use /ami/data00/appion/zz09feb18c/stacks/stack1/start.img which I made for this testing (1024x1024 box)

from appionlib import apImagicFile
apImagicFile.getPartSegmentLimit('/ami/data00/appion/zz09feb18c/stacks/stack1/start.img')

The function should return a small number 256. If you run the same on a regular sized stack, you should
get a larger number like 4096

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