Gradle cleanup

Removed all outdated dependencies, repositories, etc.
This allows us to have a clean state to build upon without having to care
about obsolete things.

Removed the deobf jar since forge can handle normal ones just fine since 1.8.9.

Fixed build errors during javadoc creation due to missing symbols caused
by ForgeGradle breaking gradle conventions and not providing the
necessary dependencies.

gradle.properties

@@ -14,46 +14,9 @@ forge_version=12.18.1.2094
 #########################################################
 # Installable                                           #
 #########################################################
-waila_version=1.7.0-B3
-jabba_version=1.2.1a
-#enderstorage_version=1.4.7.36
-#translocator_version=1.1.2.15
-ic2_version=2.2.717
-enderio_version=2.3.0.375_beta
-#cofhlib_version=1.0.1-157
-#cofhcore_version=3.0.2-270
-#texpansion_version=4.0.0-176
-#tfoundation_version=1.0.0-82
-betterstorage_version=0.11.3.123.20
-invtweaks_version=1.59
+waila_version=1.7.0-B3_1.9.4
 
 #########################################################
 # Provided APIs                                         #
 #########################################################
-fmp_version=1.2.0.345
-code_chicken_lib_version=1.1.3.138
-code_chicken_core_version=1.0.7.47
 jei_version=3.12.2.291
-bc_version=7.0.9
-opencomputers_version=1.5.18.39
-pneumaticcraft_version=1.9.15-105
-
-#########################################################
-# Self Compiled APIs                                    #
-#########################################################
-mekansim_version=8.0.1.198
-rotarycraft_version=V6e
-
-
-#########################################################
-# Self Compiled API Stubs                               #
-# Note: Do not edit these version numbers as they are   #
-# not the version of the mod, but stub code for AE2 to  #
-# compile                                               #
-#########################################################
-api_coloredlightscore_version=1
-api_craftguide_version=1
-api_immibis_version=1
-api_mfr_version=1
-api_railcraft_version=1
-api_rf_version=2