- getOutputFile
Retrieves the file to (ultimately) be created.
- getOutputStream
Retrieves the output stream to which to (ultimately) write.
- getWriterOptions
- <init>
Create a new stub given the requested file.
- alsoWriteBCFForTest
Should we also write a BCF file alongside our VCF file for testing TODO --
remove me when argument g
- getMasterSequenceDictionary
Gets the master sequence dictionary from the engine associated with this stub
- getVCFHeader
Retrieves the header to use when creating the new file.
- isCompressed
- setCompressed
- setDoNotWriteGenotypes
- setForceBCF
- setSkipWritingCommandLineHeader