luyang93 / pywdl

pywdl

A playground repository for implementing WDL in Python.

Checklist

• Top priority denoted as "(!!)".

WDL -> Python objects Transformation

Compilation design; expressions are stored as Python code as strings in collections.

• Types
  • Primitives (String, Int, Float, Boolean, File)
    • Directory
    • allow user to hook into this to modify how this is parsed. (!!)
  • Compound (Array, Pair, Map)
  • Struct
• Expression
  • LOR, LAND
  • ==, !=, <=, >=, <, >
  • +, -
  • *, /, %
  • apply (function call)
  • array_literal
  • pair_literal
  • map_literal
  • struct_literal
  • ifthenelse
  • expression_group
  • get_name (!!)
    • allow user to hook into this to modify how this is parsed. (!!)
  • negate (!!)
  • unirarysigned
  • primitives (including None and variables)
  • left_name
• Document
  • import
  • struct
  • task
  • workflow
• Workflow
  • input
  • output
  • bound_decls (non-input declarations)
  • call
  • scatter
  • conditional
  • parameter_meta
  • meta
• Task
  • input
  • output
  • command
  • runtime
  • hints
  • bound_decls (non-input declarations)
  • parameter_meta
  • meta

License

The following files come from openwdl/wdl under the BSD 3-Clause "New" or "Revised" License.

• pywdl/antlr/WdlLexer.g4
• pywdl/antlr/WdlParser.g4

The following file is modified from DataBiosphere/toil under the Apache License, v2.0.

• pywdl/types.py