Quiet variant filtration warnings on missing filter attributes since these fill up logs and make debugging difficult
Document the method for identifying Galaxy location files for finding genome indexes (#24).
allow fastq.gz and *.gz files in template creation.
adjust pairing to handle _R1, R2 file names. strip _R from description.
set aligner to false when using bams as input.
Merge pull request #25 from brentp/sample-config

WIP: allow fastq.gz and *.gz files in template creation.
Revert change to set aligner false for BAM files since BAM is commonly used to re-alignment from Illumina inputs
Provide template command to more easily prepare a local configuration template for customization. #22
Preserve YAML comments when downloading templates for local project preparation. Supplements #26