Deployment "Compare content" seems to also check timestamp
If I check out a branch or stash or do some branch shuffling (or whatever git stuff that changes the working copy), I notice on deploy (to external test server) that it PHPStorm will upload (or give the merge prompt to) a ton of files that I didn't edit, but appear to have just the code the timestamp changed but are not different in the Version Control tab (which shows files in the working copy different than HEAD).
In settings my choices are "check timestamp" or "Compare content", so it seems it shouldn't do both if I choose one.
Am I missing something here? Is it just checking files are changed locally period then attempting to deploy those regardless of whether they vary from Version Control?
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No, it doesn't look like you're missing something.
If you have "check timestamp" option - then it would trigger an upload since timestamps are most likely would be changed for all VCS-tracked files.
If you have only "Compare content" - than there's something wrong and we need to look into it in details.