bug fixes;
new arith codec
rans0 dirty impl, tested
issue9 fix: NPE in fastq command when read names are discarded.
removed --collate option from cram2fastq; 
added hidden --issure-eof-marker to bam2cram
Merge remote-tracking branch 'origin/master'
removed test-output directory, this is leftoovers from testng
fix for integer codecs offset in CHF
changed param description in SamRecordComparision
changed NPE in FixBAMFileHeader when ref seq not found for a more
meaningful error message
minor clean up in CHF
changed B2C to issue EOF marker by default
changed the version representation in Utils class
bumped minor version number
enforced EOF marker requirements by checks in CramIO
first build of v2.1
updated the specs to 2.1
updated README to 2.1 and added change log
changed maxRecords counter in B2C from int to long