When I run the following commands to apply a patch in the Shell, the command seems to run fine, but the patch does not seem to be applied on the files:

run --command "git apply -v --ignore-whitespace --ignore-space-change patches/admin_layer_functional.patch"

run --command "git apply -v --ignore-whitespace --ignore-space-change patches/admin_layer_graphics.patch"

The patches are from the TicketMonster 2.7.x-develop branch. They apply correctly when I use Eclipse eGit.