Each row in the file/frame table corresponds to a frame. First columns state the name of the file and some basic information about the image. Columns to the right hold loop indexes.
There are two ways to fill each index column: automatically (by parsing the filename) or manually.
Figure 1214. Defining a pattern
Automatic index inferring is done by a Regular Expression (see Perl's regular expression documentation Perl's regular expression tutorial). Each loop may have its own expression which is evaluated on every filename (including the subfolder if not present in the root folder). It must match and produce (capture) either an integer index or special ordering information.
Figure 1215. Ordering information
Mapping Regular expression output to indexes:
Index (integer) is the index itself
Column and Row for defining the index for a given well plate definition
name, barcode, x-, y-, z-position are mapped to an index by natural ordering by default
For example, let’s consider time-lapse of two images having three channels:
Figure 1216. Example of a regular expression
Time can be parsed directly into the index. The channel is printed as text in the filename, so index cannot be inferred directly. The channel name is used instead.
Figure 1217. Complex regular expression
Following editing options apply only to manual index editing.
Assign index to the selection
As the columns are sorted based on the execution order, the leftmost index is the one that changes less often. Index can be set to a selection of frames.
Figure 1218. Indexing selected frames manually
In this case time-lapse “After” is set to 1 and “Before” is set to 0.
Figure 1219. Set index to a selection of frames
Assign a uniform sequence
If the files can be sorted reasonably, sequence Indexing can be used.
Figure 1220. Setting a uniform sequence to a selection of frames
Edit index individually
Manual indexes may be edited manually one-by-one.
Figure 1221. Manual index editing