config.yml

default:
  genome_version: "hg19"
#  transcripts:  "refseq"
#  transcripts:  "ensembl"
  transcripts:  "merged"
  app_prod: no
  use_browser: FALSE
  browser_server_path: "localpath"
  browser_client_url: http://127.0.0.1:5000
  cache_directory: default
  multiqc: /home/ptngs/Git/multiqc
  db_path: "app/data/testdata"
  prefix: "test"
  app_title: "akalaka"

production:
  genome_version: "hg19"
#  transcripts:  "refseq"
#  transcripts:  "ensembl"
  transcripts:  "merged"
  app_prod: yes
  use_browser: FALSE
  browser_server_path: remote # default, remote or path
  browser_client_url: url_to_access_JBrowse_server_files_from # url to access JBrowse server files from
  cache_directory: "default" # Shiny app caching directory
  genome_ref: "genome reference file name"
  db_path: "edit_dp_path"
  prefix: "edit_db_prefix"
  
demo:
  genome_version: "hg19"
  transcripts:  "refseq"
  app_prod: no
  use_browser: FALSE
  cache_directory: "default"
  db_path: "app/data/testdata"
  prefix: "test"

demo_browser:
  transcripts:  "refseq"
  genome_version: 'hg19'
  app_prod: no
  use_browser: TRUE
  browser_server_path: !expr system.file("extdata/testdata/JBrowseR/", package = "SomaVarDB")
  browser_client_url: http://127.0.0.1:5000
  cache_directory: "default"
  genome_ref: "human_g1k_v37.fasta.gz"
  db_path: "app/data/testdata"
  prefix: "test"