Improve PolyPhen-2/SIFT Nextflow pipeline

[nuno-agostinho]

• Capture expected errors to avoid job failure and write them to failure_reasons.tsv
  • 9792c9c Capture expected PolyPhen-2 error
  • 0d456f4 Capture expected errors in SIFT
  • b50fab3 Report captured errors to file
• Quality improvements:
  • 751c40a Avoid error when writing predictions to database and identical predictions are already there
    • This may happen for certain jobs when resuming the pipeline
  • b5d40af Improve memory usage + Retry on LSF submission failures
  • 9cf8b46 Use tuples to ensure expected pair of arguments
  • 3822210 Improve PolyPhen-2 with tuples
• Config improvements:
  • 9792c9c SLURM support
  • 781c120 Write report on workflow error
  • a0c7135 Email report

Associated tickets

• ENSVAR-5257: failure_reason table
• ENSVAR-5533: improve handling of expected failed job
• ENSVAR-4600: results for HGRC assemblies