Doc error caused by submodule, misc cleanup

Author: hierophect

.gitmodules

@@ -77,6 +77,7 @@
 	path = lib/tinyusb
 	url = https://github.com/hathach/tinyusb.git
 	branch = develop
+	ignore = dirty
 [submodule "tools/huffman"]
 	path = tools/huffman
 	url = https://github.com/tannewt/huffman.git

conf.py

@@ -121,7 +121,7 @@
                     "ports/nrf/nrfx",
                     "ports/nrf/peripherals",
                     "ports/nrf/usb",
-                    "ports/stm32f4/stm32cube",
+                    "ports/stm32f4/stm32f4",
                     "ports/stm32f4/peripherals",
                     "ports/stm32f4/ref",
                     "ports/stm32f4/README.md",