Difference between revisions of "Tomogram-table map file"
(Created page with "A tomogram table map file is a text file with extension <tt>.doc</tt> that shows the names of the tomogram files referred by a table in its column 20. Tomogram <tt>1...") |
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| − | A tomogram table map file is a text file with extension <tt>.doc</tt> that shows the names of the tomogram files referred by a [[table]] in its column 20. | + | A tomogram table map file is a text file with extension <tt>.doc</tt> 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: | |
<tt>1 /Users/casdanie/test/tomogram_01.mrc </tt> | <tt>1 /Users/casdanie/test/tomogram_01.mrc </tt> | ||
<tt>2 /Users/casdanie/test/tomogram_02.mrc </tt> | <tt>2 /Users/casdanie/test/tomogram_02.mrc </tt> | ||
| − | <tt> | + | <tt>5 /Users/casdanie/test/tomogram_03.mrc </tt> |
| + | |||
| + | 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 <tt>indices_column20.doc</tt> 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 <tt>.doc</tt> | ||
| + | |||
| + | |||
| + | ==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 {{docfunction|dynamo_table_crop| dtcrop}}command with the syntax: | ||
| + | |||
| + | <tt> dtcrop <tomogram-table map file> <table> <sidelength> <target folder> </tt> | ||
| + | |||
| + | (and the additional flags you may require) | ||
Revision as of 09:56, 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> (and the additional flags you may require)
