hoffmangroup / genomedata

The Genomedata format for storing large-scale functional genomics data.
https://genomedata.hoffmanlab.org/
GNU General Public License v2.0
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_load_data.py python script interface never used #37

Open EricR86 opened 7 years ago

EricR86 commented 7 years ago

Original report (archived issue) by Eric Roberts (Bitbucket: ericr86, GitHub: ericr86).


Currently in _load_data.py, there is an ability to call the python script with a defined interface (parse_args in genomedata/_load_data.py) . This interface is never used. The name "genomedata-load-data" instead interfaces with the c program used to load in track data from stdin.

There should be consideration to re-open this interface or use this interface instead of the existing for "genomedata-load-data" since it contains far more options and is more flexible than the c program.

EricR86 commented 7 years ago

Original comment by Eric Roberts (Bitbucket: ericr86, GitHub: ericr86).


EricR86 commented 7 years ago

Original comment by Eric Roberts (Bitbucket: ericr86, GitHub: ericr86).


Also notabily the python interface attempts to use "chunk size" but is never actually used by the load_data function