I have the same problem and it is strange (IMHO a bug) that fossil can detect 
such changes, but cant resolve them at all. Recently in one of my project I 
have massive replacements of files with symlinks. Now I have many broken 
chekins in the repository. 

I hope this bug will be fixed ASAP. 

Regards

On Tue, 27 Feb 2018 14:46:38 -0700
Warren Young <[email protected]> wrote:

> On Feb 27, 2018, at 2:42 PM, Svyatoslav Mishyn <[email protected]> 
> wrote:
> > 
> > So, if I want at some point to replace file by a symlink,
> > first need to remove that file, commit changes,
> > and only then add a symlink, right?
> 
> I did just that for a file here just days ago using the 2.5 release version.  
> I’ve had no trouble due to the file -> symlink change, even when doing a 
> “fossil update” on machines that haven’t had an update since before the 
> change, so they’re effectively getting both changes at once.
> 
> If for some reason you had to have this change appear atomically on the 
> trunk, you could remove the file, check it in on a branch, add the symlink, 
> check that in on the branch, and then “fossil merge --integrate 
> symlink-fix-branch” to cause both changes to appear on trunk together.
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