A community effort to collect a curated set of analysis pipelines built using Nextflow.

nf-core

The error I'm getting is this:
```WARN: The following invalid input values have been detected:

* --markdown_path: /mnt/biggley/home/slava/projects/leancage_dev/cageseq/assets/cager_report.Rmd


~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  Genome 'reproduce_test_data/sacCer3chrIII.fa' not found in any config files provided to the pipeline.
  Currently, the available genome keys are:
  GRCh37, GRCh38, CHM13, GRCm38, TAIR10, EB2, UMD3.1, WBcel235, CanFam3.1, GRCz10, BDGP6, EquCab2, EB1, Galgal4, Gm01, Mmul_1, IRGSP-1.0, CHIMP2.1.4, Rnor_5.0, Rnor_6.0, R64-1-1, EF2, Sbi1, Sscrofa10.2, AGPv3, hg38, hg19, mm10, bosTau8, ce10, canFam3, danRer10, dm6, equCab2, galGal4, panTro4, rn6, sacCer3, susScr3
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~```