Make DDD movie stack » History » Revision 7
Revision 6 (Anchi Cheng, 08/26/2014 05:54 PM) → Revision 7/17 (Anchi Cheng, 08/26/2014 05:57 PM)
h2. Make DDD movie stack
The following section comes from Appion Manual
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h2. Making Gain/Dark correction one image at a time without saving results to databases
Two scripts are attached here. They use using Leginon infrastructure to locate references and do gain/dark correction and bad pixel/column/row correction. It, however, does but not involve involving saving results to the leginon/appion databases. These databases are good for testing of add your own idea to it. attached here
*correctframes.py* let you correct a range of raw frames in an image and output as mrc file.
*correctstack.py* let you correct each frame in the specified summed image and output at 2D image stack in mrc format.
type:
<pre>
python correctframes.py
</pre>
for the options
h2. Do it yourself
If you want to do everything yourself, you can use the python script
"getReferences.py":http://emg.nysbc.org/projects/leginon/repository/changes/branches/myami-3.1/leginon/getReferences.py
to find the location and filenames of the references and work on them yourself.
*Beware that the fames are often in different orientation from the reference images in Leginon*
If there are no bad pixel/column/row on your camera that you included in your correction plan, you can feed the properly rotated/flipped references to the drift correction program by Xueming Li.