diff --git a/README.md b/README.md index e1ddb80a3f5dffe1a85f5945d596123ef25fc0e5..8ce290ea8d012c20c2305414004a36bef794ed07 100644 --- a/README.md +++ b/README.md @@ -38,4 +38,21 @@ issues: snake order argument has white space in it ``` Plugins > Macros > Run ... > ScanImageStitching.ijm -``` \ No newline at end of file +``` + +## Snake Indexing + +### Grid: snake by rows +* Right & Down +* Left & Down +* Right & Up +* Left & Up + + +### Even Grid + +* Z = odd -> {Right & Down} + +* Z = even && Grid = even -> {Right & Up} +* Z = even && Grid = odd -> {Left & Up} + diff --git a/ScanImageStitching.ijm b/ScanImageStitching.ijm index 4261ad6f331b0b40d6b11ded3c07bb8cc5c875cf..a5348cd3e0ae2f3478ed15807efbe30fad2e0b44 100644 --- a/ScanImageStitching.ijm +++ b/ScanImageStitching.ijm @@ -151,9 +151,15 @@ macro "ScanImageStitching" for (z = 1; z <= gridZ; z++) { // set order (this param contains empty space, not a typo!!!) - order="Right & Down "; - if ((z % 2) == 0) - order="Right & Up"; + // Z = even -> Right & Down + // Z = odd AND grid = even -> Right & Up + // Z = odd AND grid = odd -> Left & Up + order = "Right & Down "; + if ((z % 2) == 0) { + order = "Left & Up"; + if ((gridX % 2) == 0) + order = "Right & Up"; + } // stitch for (s = 1; s <= countSlices; s++) {