More tests to solidify some functions
Addresses two bugs. 1) Created 2 fastq files from the combined reads instead of only 1. 2) There was a potentially nasty bug with the seqio.concat_files function where in some instances if the input and output file were the same it would keep writing until the disk was full
Easy script to convert sai file to sorted/indexed bam file
More documentation about how to run the executables
Fixed a bunch of bugs and such with testing. All tests pass now too :)
Ignore stuff
Merging dev for release