Dorieh Utilities (Python package)
There are open questions about how best to structure this package that we can address (i.e. do we do multiple modules within this module, 1 single module, etc).
Overview of Utilities
The dorieh.utils package is intended to hold python code that will be useful across multiple portions of the Dorieh pipelines.
The included utilities are developed to be as independent of specific infrastructure and execution environment as possible.
Included utilities:
Interpolation code
Reading FST files from Python The pyfst Module
Reading FWF files The fwf Module
various I/O wrappers The io_utils Module
An API and CLI framework The context Module
Helper wrappers to get currently allocated memory The profile_utils Module
QC Framework
Current Development
Updated 2/26/2021, Ben Sabath
Interpolatation code: We have re-implemented the logic used for the initial moving average interpolation used in the R based pipelines. Developing better metholdologies remains to be done. Based on spot checks the results match those from the previous version.
TODO
Updated 2/26/2021, Ben Sabath
Generic
Dataobject that other NSAPH modules can inherit from.Creation of list of other useful general features
Review of already done development to see what would make sense to port to this package