doxygen: fix build

Closes #17504.
Update `tap --repair` function to ignore non-directory files in Library/Taps/

Closes #17518.
Closes #17511.

Signed-off-by: Adam Vandenberg <flangy@gmail.com>
polarssl 1.2.4

Closes #17517.

Signed-off-by: Adam Vandenberg <flangy@gmail.com>
vimpc: use boysetsfrog's repo canonically

Closes #17489.

Signed-off-by: Adam Vandenberg <flangy@gmail.com>
node: fix indent
v8: apply fix for gyp without Xcode from node

Closes #17484 probably.
Lua 5.1.5

Closes #16213.

Signed-off-by: Adam Vandenberg <flangy@gmail.com>
mongodb 2.2.3

Closes #17520.

Signed-off-by: Adam Vandenberg <flangy@gmail.com>
v8cgi: use optional deps
Move MD5 deprecation warning into Pathname#md5

This way it will print when the verification takes place, making it a
bit more obvious which formula it refers to.
cdo: fix dep
libnids: fix deps
tokyo-tyrant: fix dep
weechat: fix deps
htmlcompressor: fix deps
zint: fix dep
vtk: fix dep
rrdtool: fix dep
graphicsmagick: fix deps
glpk 4.48

Signed-off-by: Jack Nagel <jacknagel@gmail.com>