The source image files are of the following filename format:
Time-lapse name\ Time-lapse name plate name\well name(fld position index wv channel name).tif
Figure 1229. Image filenames example
The loop structure (nesting) could be set as in the picture bellow:
Figure 1230. Loop structure
We can use following patterns to extract the corresponding index or name from the filenames:
| Time-lapse loop | (?<name>\w+)\\* |
| Plate loop | \w+\\(After|Before) (?<name> Plate \d+-\d+)\\* |
| Well loop | \w+\\(After|Before) Plate \d+-\d+\\(?<row>\w) - (?<column>\d\d)\(* |
| Position loop | \w+\\(After|Before) Plate \d+-\d+\\\w - \d\d\(fld (?<index>\d\d) * |
| Channel loop | \w+\\(After|Before) Plate \d+-\d+\\\w - \d\d\(fld \d\d wv (?<name>[^\)]+)\)* |
Another possibility is to use the manual index definition described here Manual Index Definition. Matched names or indices should be visible in the corresponding columns:
Figure 1231. Parsed columns
Matched names or indices (or other types mentioned in section Automatic index finding using pattern) should be defined using the corresponding definition dialogs.
If all the required information is filled, it is possible to press and import files into the JOB.
In this specific case, loops are reordered to follow the created ND2 files, which means that the last three loops are Time-lapse loop, Position loop and Channel loop.
Figure 1232. Result table of example 1
Suppose the same image filename format as in Example 1. We can avoid using a time-lapse loop and import files as two independent experiments captured in time “Before” and time “After”.
Set the loop structure as in the picture below.
Figure 1233. Loop structure
We can use following patterns to extract the corresponding index or name in “Before” experiment:
| Plate loop | Before\\Before(?<name> Plate \d+-\d+)\\* |
| Well loop | Before\\Before Plate \d+-\d+\\(?<row>\w) - (?<column>\d\d)\(* |
| Position loop | Before\\Before Plate \d+-\d+\\\w - \d\d\(fld (?<index>\d\d) * |
| Channel loop | Before\\Before Plate \d+-\d+\\\w - \d\d\(fld \d\d wv (?<name>[^\)]+)\)* |
Substitute Before with After to use the patterns for “After” experiment or use the manual index definition.
Figure 1234. Parsed columns
Figure 1235. Result table of example 2
The source image files are of the following filename format:
well name_ttime-lapse index_pposition index_zz-stack index.tif
Figure 1236. Image filenames example
Set the loop structure as in the picture bellow.
Figure 1237. Loop structure
We can use following patterns to extract the corresponding index or name from the filenames:
| Well loop | (?<row>\w) - (?<column>\d\d)_* |
| Time-lapse loop | \w - \d\d_t(?<index>\d\d)_* |
| Position loop | \w - \d\d_t\d\d_p(?<index>\d\d)_* |
| Z-Stack loop | \w - \d\d_t\d\d_p\d\d_z(?<index>\d\d).* |
Another possibility is to use the manual index definition described here Manual Index Definition.
Figure 1238. Parsed columns
If all the required information is filled, it is possible to press and import files into the JOB.
Figure 1239. Result table of example 3