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Comparison Method Setting not Used


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I just downloaded Semantic Merge today (4/2/2014) and am having issues with the Comparison Option setting in the diff window.  When I select "Ignore EOL and white spaces", the diff window still highlights white-space differences.  Also, if I do a diff on a different section of my file, the diff window reverts to "Recognize all".  I've tried specifying -i="eol&whitespaces" in the command line, but it still recognizes white-space changes.  The version I have is 1.0.57.0.

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If I run a text diff, the "Comparison Method" defaults to "Ignore EOL", but it still recognizes whitespace and EOL as significant differences.  Also, if I change the setting there, it is still not saved.  I appear to have version 5.0.10.57 of mergetool.exe.

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