v2.2.2
*--indel_alleles option now will flip negative strand for SNPs

v2.1
*Added option "--indel_alleles" for using longer allele names than single character. Please note that enabling that option will remove strand flipping.
*Added "Analysis finished." line to log file and standard output.

v2.0.7
*Fixed a typo in printing effect directions for cohorts where p-value was 1

v2.0.6
*Fixed typos in manual and in command line options (thanks Josh!)

v2.0.5
*Repaired effect allele frequency discrepancy check. will print now warning and increase strand problem quantity if eaf difference larger than 30%

v2.0.4
*Repaired an issue with IMPUTED column (segmentation fault if value not 1 or 0)

v2.0.4
*Removed a bug created by previous fix

v2.0.3
*Repaired issue with sex-specific results in case of missing eaf

v2.0.2
*Repaired issue with alternative column names - all names are converted to uppercase to remove case sensitivity

v2.0.1
*Added genomic control output file
*Repaired header line in case of map option is used
*If using OR and confidence intervals, the std.err calculation has changed a bit - in previous version both upper and lower confidence interval were used (and average was measured), in GWAMA v.2 only the lower one is used. This might cause a slight change in results due to rounding.

v2
*Added new command line options
*Added sex-specific analysis framework
*Fixed bug concerning numeric alleles and negaitive strands
*Made program more memory efficient
*Summary file info on screen while running analysis

v1.4
*Added random effect correction
*Log and error file names now have changable output file root ("--output" option)
*PERL scripts for reformatting SNPTEST and PLINK association results to GWAMA format have been added to webpage
*Added check for column count for each row of input data
*Repaired directions column - it used to be mirrored

v1.3.1.1
*Added automatic strand flipping if marker is not A/T nor C/G
*Repaired threshold use in effect directions

v1.3.1
*Changed file input format: added N column
*Changed input format: added chromosome and position columns, N column
*Added --map and -qt command line options
*Added R scritps for plots
*Added HapMap marker maps

v1.3

*Changed file input format: removed imputation accuracy, chromosome and position columns. 
Added alternative input file format with odds ratio information.
*Changed output format: removed chromosome and position columns. Added different 
format options
*Replaced single configuration file with command line options
*Improved error trapping
*Replaced chi-distribution median 0.456 with 0.4549364. Value received from R using 
qchisq(0.5, df= 1)