In analysis.json there are absolute paths. Change to relative paths--
/Users/afried/Documents/orai/commons-cli/src/main/java/org/apache/commons/cli/AlreadySelectedException.java -> commons-cli/src/main/java/org/apache/commons/cli/AlreadySelectedException.java
In analysis.json there are absolute paths. Change to relative paths--
/Users/afried/Documents/orai/commons-cli/src/main/java/org/apache/commons/cli/AlreadySelectedException.java
->commons-cli/src/main/java/org/apache/commons/cli/AlreadySelectedException.java