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| author | Frederick Muriuki Muriithi | 2024-02-13 04:03:02 +0300 |
|---|---|---|
| committer | Frederick Muriuki Muriithi | 2024-02-13 04:03:02 +0300 |
| commit | 8b637a760362d08fb92152288d0b04f90299da5f (patch) | |
| tree | 55b9900a72f51902cd5c6150cdab3f0cd097c372 /r_qtl/r_qtl2_qc.py | |
| parent | 092ae35512b3ef236622c4ab9dfe2bafb221ded7 (diff) | |
| download | gn-uploader-8b637a760362d08fb92152288d0b04f90299da5f.tar.gz | |
Make "FILE_TYPES" part of public interface for module/package.
Diffstat (limited to 'r_qtl/r_qtl2_qc.py')
| -rw-r--r-- | r_qtl/r_qtl2_qc.py | 6 |
1 files changed, 3 insertions, 3 deletions
diff --git a/r_qtl/r_qtl2_qc.py b/r_qtl/r_qtl2_qc.py index aa5c81e..43f7d94 100644 --- a/r_qtl/r_qtl2_qc.py +++ b/r_qtl/r_qtl2_qc.py @@ -5,7 +5,7 @@ from typing import Union, Iterator, Optional, Callable from r_qtl import errors as rqe from r_qtl import r_qtl2 as rqtl2 -from r_qtl.r_qtl2 import __FILE_TYPES__ +from r_qtl.r_qtl2 import FILE_TYPES from r_qtl.fileerrors import MissingFile from quality_control.errors import InvalidValue @@ -21,7 +21,7 @@ def bundle_files_list(cdata: dict) -> tuple[tuple[str, str], ...]: fileslist: tuple[tuple[str, str], ...] = reduce( __merge__, - (key for key in cdata.keys() if key in __FILE_TYPES__), + (key for key in cdata.keys() if key in FILE_TYPES), tuple()) if "file" in cdata.get("sex", {}): @@ -98,7 +98,7 @@ def phenose_errors(zfile: ZipFile) -> Iterator[Union[InvalidValue, MissingFile]] def retrieve_errors(zfile: ZipFile, filetype: str, checkers: tuple[Callable]) -> Iterator[ Union[InvalidValue, MissingFile]]: """Check for and retrieve errors from files of type `filetype`.""" - assert filetype in __FILE_TYPES__, f"Invalid file type {filetype}." + assert filetype in FILE_TYPES, f"Invalid file type {filetype}." cdata = rqtl2.control_data(zfile) try: for lineno, row in enumerate( |