Updated trim_adaptor_seq_fastq-new.pl on 2014-11-25. Added a few features to the script. Concatenated the trimmed and removed layouts into one file so that we can use it for filtering TASSEL SNPs based on the trimming data. I kept the trimmed and removed layout files separate as well so that we know what is trimmed and what was actually removed in the trimming of the GBS common adaptor sequence from the original GBS sequences. I also added the length of the barcode to the  parameter so that we don't lost any potentially useful base pairs. I kept the default for the min_trimmed_fastq_sequence_length parameter as 32 bps, but used the actual length of the barcode for each individual for the following calculation. min_trimmed_fastq_sequence_length_plus_barcode = min_trimmed_fastq_sequence_length + length(barcode). This keeps us from using a default cut-off of 36-40 base pairs across the entire dataset. Barcodes can be variable from 4-8 base pairs so I thought we could be more percise in the trimming of the GBS common adaptor sequence