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| author | Frederick Muriuki Muriithi | 2025-06-26 08:46:29 -0500 |
|---|---|---|
| committer | Frederick Muriuki Muriithi | 2025-06-26 08:46:29 -0500 |
| commit | 829e1c3ecfe368f0df411790f5642a3a29a0046c (patch) | |
| tree | 50efbc6f2e8d5ec5b3cef0d554fb2de7476e8c52 /scripts | |
| parent | 559187493ef499ca30182f98d027aee20f613b11 (diff) | |
| download | gn-uploader-829e1c3ecfe368f0df411790f5642a3a29a0046c.tar.gz | |
Pass in the field separator, and comment char while reading file
Pass in the field separator character to split the fields correctly. Also pass in the comment character to safely ignore any comment lines.
Diffstat (limited to 'scripts')
| -rw-r--r-- | scripts/load_phenotypes_to_db.py | 5 |
1 files changed, 4 insertions, 1 deletions
diff --git a/scripts/load_phenotypes_to_db.py b/scripts/load_phenotypes_to_db.py index 8f49e10..9a2971f 100644 --- a/scripts/load_phenotypes_to_db.py +++ b/scripts/load_phenotypes_to_db.py @@ -73,7 +73,10 @@ def save_phenotypes( (dict(zip(_headers, __replace_na_strings__(line, control_data["na.strings"]))) for filecontent - in (rqtl2.read_csv_file(path) for path in phenofiles) + in (rqtl2.read_csv_file(path, + separator=control_data["sep"], + comment_char=control_data["comment.char"]) + for path in phenofiles) for idx, line in enumerate(filecontent) if idx != 0)) |