Can't find the executable

[ctwelsh]

The executable should be in the directory.

are you referring to the ~/MCServer/MCServer directory? If so, here is what is in that directory:

crafting.txt
items.ini
README.txt
delete_windows_service.cmd
lang
settings_apidump.ini
favicon.png
monsters.ini
vg
furnace.txt
Plugins
vg.supp
hg
profile_run.cmd
webadmin
hg.supp
profile_run_debug.cmd
install_windows_service.cmd
profile_run_x64.cmd

Did it not install everything?