Github user sergei-ivanov commented on the issue:
https://github.com/apache/maven-scm/pull/31
I need help with that from the Apache team.
In the original version of `GitCheckInCommand`, just before committing, the
list of files to be committed was passed to `git add`. This ensured that all
the new files were staged into the commit.
Unfortunately, it did not work when there were deleted files in that list.
So, the patched version attempts to check `git status` on each of the files in
the list, in order to filter out the deleted files from the list. See the
changes in `GitCheckInCommand`.
Here is a problem though. Some of the git commands assume file paths
relative to the working directory, while the other work with paths relative to
the git repository root. Accordingly, the file paths need to be converted back
and forth, and it seems that at some point we have a mismatch.
This caused grief previously
(https://issues.apache.org/jira/browse/SCM-709) and it looks like we are
observing yet another manifestation of the same problem.
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