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| author | Muriithi Frederick Muriuki | 2021-09-06 08:06:14 +0300 |
|---|---|---|
| committer | Muriithi Frederick Muriuki | 2021-09-06 08:06:14 +0300 |
| commit | 679a1af832ad9585c7cf72996043edb08e1b0d10 (patch) | |
| tree | 638a27a1f40d9391aefe88097e7dc67b2ce1ba3a /gn3/computations/qtlreaper.py | |
| parent | 4ce5695a35e92a704add8d497266bb2986a593f6 (diff) | |
| download | genenetwork3-679a1af832ad9585c7cf72996043edb08e1b0d10.tar.gz | |
Leave "Chr" value as string when parsing
Issue:
https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi
* The "Chr" value seems to be mostly a name of some sort, despite it being,
seemingly an number. This commit parses the "Chr" value as a string.
It also updates the tests to expec a string, rather than a number for "Chr"
values.
Diffstat (limited to 'gn3/computations/qtlreaper.py')
| -rw-r--r-- | gn3/computations/qtlreaper.py | 5 |
1 files changed, 3 insertions, 2 deletions
diff --git a/gn3/computations/qtlreaper.py b/gn3/computations/qtlreaper.py index eff2a80..9b20309 100644 --- a/gn3/computations/qtlreaper.py +++ b/gn3/computations/qtlreaper.py @@ -94,7 +94,7 @@ def parse_reaper_main_results(results_file): with open(results_file, "r") as infile: lines = infile.readlines() - def __parse_column_value(value): + def __parse_column_float_value(value): try: return float(value) except: @@ -102,7 +102,8 @@ def parse_reaper_main_results(results_file): def __parse_line(line): items = line.strip().split("\t") - return items[0:2] + [__parse_column_value(item) for item in items[2:]] + return items[0:3] + [ + __parse_column_float_value(item) for item in items[3:]] header = lines[0].strip().split("\t") return [dict(zip(header, __parse_line(line))) for line in lines[1:]] |