Difference between revisions of "Tomogram-table map file"

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(Using tomograp-table map files)
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  <tt> dtcrop <tomogram-table map file> <table> <sidelength> <target folder> </tt>
  <tt> dtcrop <tomogram-table map file> <table> <sidelength> <target folder> </tt>
(and the additional flags you may require)
(and the additional flags you may require).

Revision as of 10:56, 23 June 2016

A tomogram table map file is a text file with extension .doc that shows the names of the tomogram files referred by a table in its column 20 (reserved for this goal).

An example file could be:

1   /Users/casdanie/test/tomogram_01.mrc 
2   /Users/casdanie/test/tomogram_02.mrc 
5   /Users/casdanie/test/tomogram_03.mrc 

to go along with a table that has only values 1, 2 and 5 in its column 20.

Producing tomograp-table map files

Such files are created automatically during particle extraction through the catalogue. In the data folder created by Dynamo as result of an extraction, you should get a file called indices_column20.doc with this format.

They are regular text files and can be normally edited. The only restriction is that they are expected to have the extension .doc

Using tomograp-table map files

These files can be used to directly crop particles from set of tomograms without entering into the catalogue system. You can use the dtcropcommand with the syntax:

dtcrop <tomogram-table map file> <sidelength> <target folder> </tt> (and the additional flags you may require).