Can't generate stubs from the tooling wsdl

Hi, I'm trying to generate the stubs from the 46.0 tooling wsdl with the latest release of the wsc. I'm getting numerous "cannot find symbol" errors. Here is the console output.

java -jar force-wsc-46.1.0-uber.jar tooling-46.0.wsdl tooling-46.0.0.jar
[WSC][wsdlc.main:71]Generating Java files from schema ...
[WSC][wsdlc.main:71]Generated 1263 java files.
[WSC][wsdlc.main:71]Compiling to target 1.6...
warning: [options] bootstrap class path not set in conjunction with -source 1.6
/var/folders/dz/0gjncmxj7t122x8tlcscwq_m0000gn/T/wsc-scratch6300091101829371115tmp/com/sforce/soap/tooling/sobject/UserManagementSettings.java:205: error: cannot find symbol
private com.sforce.soap.tooling.metadata.UserManagementSettings Metadata;
^
symbol: class UserManagementSettings
location: package com.sforce.soap.tooling.metadata
/var/folders/dz/0gjncmxj7t122x8tlcscwq_m0000gn/T/wsc-scratch6300091101829371115tmp/com/sforce/soap/tooling/sobject/UserManagementSettings.java:207: error: cannot find symbol
public com.sforce.soap.tooling.metadata.UserManagementSettings getMetadata() {
^
symbol: class UserManagementSettings
location: package com.sforce.soap.tooling.metadata
/var/folders/dz/0gjncmxj7t122x8tlcscwq_m0000gn/T/wsc-scratch6300091101829371115tmp/com/sforce/soap/tooling/sobject/UserManagementSettings.java:211: error: cannot find symbol
public void setMetadata(com.sforce.soap.tooling.metadata.UserManagementSettings Metadata) {
^
symbol: class UserManagementSettings
location: package com.sforce.soap.tooling.metadata
/var/folders/dz/0gjncmxj7t122x8tlcscwq_m0000gn/T/wsc-scratch6300091101829371115tmp/com/sforce/soap/tooling/sobject/AnalyticsSettings.java:263: error: cannot find symbol
private com.sforce.soap.tooling.metadata.AnalyticsSettings Metadata;
^
symbol: class AnalyticsSettings
location: package com.sforce.soap.tooling.metadata
/var/folders/dz/0gjncmxj7t122x8tlcscwq_m0000gn/T/wsc-scratch6300091101829371115tmp/com/sforce/soap/tooling/sobject/AnalyticsSettings.java:265: error: cannot find symbol
public com.sforce.soap.tooling.metadata.AnalyticsSettings getMetadata() {
^
symbol: class AnalyticsSettings
location: package com.sforce.soap.tooling.metadata
/var/folders/dz/0gjncmxj7t122x8tlcscwq_m0000gn/T/wsc-scratch6300091101829371115tmp/com/sforce/soap/tooling/sobject/AnalyticsSettings.java:269: error: cannot find symbol
public void setMetadata(com.sforce.soap.tooling.metadata.AnalyticsSettings Metadata) {
^
symbol: class AnalyticsSettings
location: package com.sforce.soap.tooling.metadata
/var/folders/dz/0gjncmxj7t122x8tlcscwq_m0000gn/T/wsc-scratch6300091101829371115tmp/com/sforce/soap/tooling/sobject/UserManagementSettings.java:220: error: cannot find symbol
setMetadata((com.sforce.soap.tooling.metadata.UserManagementSettings)__typeMapper.readObject(__in, _lookupTypeInfo("Metadata", "urn:sobject.tooling.soap.sforce.com","Metadata","urn:metadata.tooling.soap.sforce.com","UserManagementSettings",0,1,true), com.sforce.soap.tooling.metadata.UserManagementSettings.class));
^
symbol: class UserManagementSettings
location: package com.sforce.soap.tooling.metadata
/var/folders/dz/0gjncmxj7t122x8tlcscwq_m0000gn/T/wsc-scratch6300091101829371115tmp/com/sforce/soap/tooling/sobject/UserManagementSettings.java:220: error: cannot find symbol
setMetadata((com.sforce.soap.tooling.metadata.UserManagementSettings)__typeMapper.readObject(__in, _lookupTypeInfo("Metadata", "urn:sobject.tooling.soap.sforce.com","Metadata","urn:metadata.tooling.soap.sforce.com","UserManagementSettings",0,1,true), com.sforce.soap.tooling.metadata.UserManagementSettings.class));
^
symbol: class UserManagementSettings
location: package com.sforce.soap.tooling.metadata
/var/folders/dz/0gjncmxj7t122x8tlcscwq_m0000gn/T/wsc-scratch6300091101829371115tmp/com/sforce/soap/tooling/sobject/AnalyticsSettings.java:278: error: cannot find symbol
setMetadata((com.sforce.soap.tooling.metadata.AnalyticsSettings)__typeMapper.readObject(__in, _lookupTypeInfo("Metadata", "urn:sobject.tooling.soap.sforce.com","Metadata","urn:metadata.tooling.soap.sforce.com","AnalyticsSettings",0,1,true), com.sforce.soap.tooling.metadata.AnalyticsSettings.class));
^
symbol: class AnalyticsSettings
location: package com.sforce.soap.tooling.metadata
/var/folders/dz/0gjncmxj7t122x8tlcscwq_m0000gn/T/wsc-scratch6300091101829371115tmp/com/sforce/soap/tooling/sobject/AnalyticsSettings.java:278: error: cannot find symbol
setMetadata((com.sforce.soap.tooling.metadata.AnalyticsSettings)__typeMapper.readObject(__in, _lookupTypeInfo("Metadata", "urn:sobject.tooling.soap.sforce.com","Metadata","urn:metadata.tooling.soap.sforce.com","AnalyticsSettings",0,1,true), com.sforce.soap.tooling.metadata.AnalyticsSettings.class));
^
symbol: class AnalyticsSettings
location: package com.sforce.soap.tooling.metadata
10 errors
1 warning
Error: Failed to compile