nf-core/eager: [2.0.7] - 2019-06-10

[2.0.7] - 2019-06-10 Added #189 - Outputing unmapped reads in a fastq files with the --strip_input_fastq flag #186 - Make FastQC skipping [possible] /(https://github.com/nf-core/eager/issues/182) Merged in nf-core/tools release V1.6 template changes A lot more automated tests using Travis CI Don't ignore DamageProfiler errors anymore #220 - Added post-mapping filtering statistics module and corresponding MultiQC statistics #217 Fixed #152 - DamageProfiler errors won't crash entire pipeline anymore #176 - Increase runtime for DamageProfiler on large reference genomes #172 - DamageProfiler errors won't crash entire pipeline anymore #174 - Publish DeDup files properly #196 - Fix reference issues #196 - Fix issues with PE data being mapped incompletely #200 - Fix minor issue with some typos #210 - Fix PMDTools encoding issue from samtools calmd generated files by running through sa]mtools view first #221 - Fix BWA Index not being reused by multiple samples Dependencies Added DeDup v0.12.5 (json support) Added mtnucratio v0.5 (json support) Updated Picard 2.18.27 -> 2.20.2 Updated GATK 4.1.0.0 -> 4.1.2.0 Updated damageprofiler 0.4.4 -> 0.4.5 Updated r-rmarkdown 1.11 -> 1.12 Updated fastp 0.19.7 -> 0.20.0 Updated qualimap 2.2.2b -> 2.2.2