/*
 * -------------------------------------------------
 *  Nextflow config file for running tests
 * -------------------------------------------------
 * Defines bundled input files and everything required
 * to run a fast and simple test. Use as follows:
 *   nextflow run qbic-pipelines/bamtofastq -profile test_bai
 */


params {
  config_profile_name = 'Test profile'
  config_profile_description = 'Minimal test dataset to check pipeline function'
  // Limit resources so that this can run on Travis
  max_cpus = 2
  max_memory = 6.GB
  max_time = 48.h
  samtools_collate_fast = true
  reads_in_memory = '10000'
  no_stats = true
  no_read_QC = true
  

  index_files = true
  input_paths = [
          ['First_SmallTest_Paired', ['https://raw.githubusercontent.com/qbic-pipelines/bamtofastq/master/testdata/First_SmallTest_Paired.bam','https://raw.githubusercontent.com/qbic-pipelines/bamtofastq/master/testdata/First_SmallTest_Paired.bai']],
          ['Second_SmallTest_Paired', ['https://raw.githubusercontent.com/qbic-pipelines/bamtofastq/master/testdata/Second_SmallTest_Paired.bam','https://raw.githubusercontent.com/qbic-pipelines/bamtofastq/master/testdata/Second_SmallTest_Paired.bam.bai']],
          ['wgEncodeUwRepliSeqK562G1AlnRep1', ['https://raw.githubusercontent.com/qbic-pipelines/bamtofastq/master/testdata/wgEncodeUwRepliSeqK562G1AlnRep1.bam','https://raw.githubusercontent.com/qbic-pipelines/bamtofastq/master/testdata/wgEncodeUwRepliSeqK562G1AlnRep1.bam.bai']]
          ]
}