Yeah I found it but and set to ignore white space but still the same issue. I do a behind compare and I don't see any differences and maybe that's why when I click on the modified file nothing shows up in difference window but still is mark as modified??
Ignore white space only prevents white space changes from appearing in the Diff panel. It won't actually remove it from the list of files.
With only whitespace changes, and Ignore enabled, you get the result described in the orginal post. If you disable ignore, you should see the modified lines in the Diff panel.
What version of SourceTree are you using. I believe there were some bugs with whitespace handling in the initial release of the recent overhaul. Current V = 22.214.171.124.
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