2.0 Alpha 1 stores a project file with LF line ending whereas 1.0 RC 1 uses CR/LF. It would be nice if this could be harmonized.
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The described error has been added to the official bug list.
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Please merge/delete this bug in favor of bug no. 2895080 - "Line ending not consistent with setting". The line ending used should actually be determined by Tools->Options->Files->Default
Remark: The bug still exists there in 2.0 Alpha 2