Summary

PR to add error free BAMS, remove redundant rules and simplify functions

Features

Addition of --errfree parameter to resolve #32 (thanks @teojcryan !)
Changes
65d0e9ae98ca00accf847f72e1b978ccfd1270f1 Use xargs + cat to concatenate all fasta per sample
3d3ee4643fce302182492504c1facd2664009cbe Only print three first fastqs per sample in cat_fastqs message
24928f530fbc499e804f9b6ac9f7ec4eb72b180e Added samtools container and env
8c61950b274975002c224ae136ce804a2b87fe93 Bumped assembly_finder's version
4db4d0318567019382ca2065187f7cab9fefd502 Removed redundant cat rules
6eda0496b24064e5bb6bc96c8fbf3cce37c83b85 4fc53f493c39e0e2144ac431e8fcbdf33a8096a3 Removed unused benchmarks and logs
023de5bf3d7cafca22e6333218d811daaadfd76a Improved functions syntax

4872558cde8e0bbd7383b2091aae9bc7c6944441 Removed fix_art_sam in favor of 0 length indel to fix #22
a5192009e25adfcffbeea113d96f715c64d6b7ec Fixed read shuffling seed