New RNASeq pipeline. Removing old one
Add IVA assembler as option to assmebly pipeline
sometimes the pool fastq file can be picked up by the split reads method, explicity check for fastqs
dont delete pool so that job can be restarted
and in if statement
Merge pull request #262 from andrewjpage/reads_not_split_correctly

Reads not split correctly
use inner join instead of left join when looking for lanes to map
Merge pull request #263 from andrewjpage/speedup_searching_for_mapping_lanes

use inner join instead of left join when looking for lanes to map
Pipeline now calling new Bio-RNASeq application
Merge pull request #264 from js21/no_rna_seq

No rna seq
Move identical map_and_generate_stats functions into Assembly.pm
Use system() instead of backticks and check return codes
Remove smalt and faidx index files after filtering reads
Merge pull request #265 from martinghunt/add_iva_assembler

Add iva assembler