Update Log (2020-05-21)

Previous bug fix fixed problem for no-regress, but caused all normal PRSice run to fail.

Update Log (2020-05-19)

Fix output error where we always say 0 valid phenotype were included for continuous trait
Fix problem with permutation where PRSice will crash if input are rank deficient
Fix problem when provide a binary phenotype file with a fam file containing -9 as phenotype, PRSice will wrongly state that there are no phenotype presented
Fix problem in Rscript where if sample ID is numeric and starts with 0, the best file will not merge with the phenotype file, causing 0 valid PRS to be observed

We now support multi-threaded clumping (separated by chromosome)
- Genotypes will be stored to memory during clumping (increase memory usage, significantly speed up clumping)
Will only generate one .prsice file for all phenotypes
- .prsice file now has additional column call "Pheno"
Introduced --chr-id which generate rs id based on user provided formula
Format of --base-maf and --base-info are now changed to <name>:<value> from <name>,<value>
Fix a bug related to ambiguous allele dosage flipping when --keep-ambig is used
Better mismatch handling. For example, if your base file only provide the effective allele A without the non-effective allele information, PRSice will now do dosage flipping if your target file has G/C as effective allele and A /T as an non-effective allele (whereas previous this SNP will be considered as a mismatch)
Fix bug in 2.2.13 where PRSice won't output the error message during command parsing stage
If user provided the --stat information, PRSice will now error out instead of trying to look for BETA or OR in the file.
PRSice should now better recognize if phenotype file contains a header
various small bug fix