Refactor: Use only local files. Use chr19 in test_files.

Change config.yaml, prepare.smk, genome_process.sh and filter_anno_gtf.sh to use local files.
Add new annotation test files for chr19.
Change .md5 to these new outputs.

Closes #34

changed milestone to %Reevaluate quantification design

added 4 commits

• 2b677157 - Addition of the pre-miRNA annotation file
• a064c54b - Addition of the pre-miRNA annotation file
• d275c4b3 - Add rule to create pre-miRNA annotation file
• 355fc1fe - Add rule to sort isomiRs annotation file

Compare with previous version

closed