Compilation hard codes /usr/bin/git

[Tim Straub]

The scripts that make runs relies on hard coded /usr/bin/git which may or may not actually work (version too old, etc.). Please change to checking for if git is in PATH and use that version if it is.

[Rob Egan]

Hi Tim.

Can you include an error log for this? I do not believe there are any hard-coded paths to git. git is used to build some of the dependencies (zlib and htslib) but I do not believe that those packages hard-code a path to git either.

When I configure a new build, cmake executes the ExternalProject_Add function and generates make files with the fully qualified path to the git that was found, but that is not necessarily /usr/bin/git in my tests.