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Merged
richrobe merged 2 commits into from
Jun 30, 2025
Merged

Dev ronja #53

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b0d67cd
Fix timelog import in biopsykit
Ronja151 Jun 3, 2025
6e56ffd
IP: Fix timelog import in biopsykit
Ronja151 Jun 29, 2025
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13 changes: 11 additions & 2 deletions src/biopsykit/io/io.py
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Original file line number Diff line number Diff line change
Expand Up @@ -242,7 +242,9 @@ def convert_time_log_datetime(
return time_log


def load_atimelogger_file(file_path: path_t, timezone: datetime.tzinfo | str | None = None) -> pd.DataFrame:
def load_atimelogger_file(
file_path: path_t, timezone: datetime.tzinfo | str | None = None, handle_multiple: str = "raise"
) -> pd.DataFrame:
"""Load time log file exported from the aTimeLogger app.

The resulting dataframe will have one row and start and end times of the single phases as columns.
Expand Down Expand Up @@ -293,14 +295,21 @@ def load_atimelogger_file(file_path: path_t, timezone: datetime.tzinfo | str | N
timelog.index.name = "phase"
timelog.columns.name = "start_end"

if timelog.index.duplicated().any():
if handle_multiple == "raise":
raise ValueError("Duplicate indices found in the time log file.")
if handle_multiple == "fix":
duplicate_counter = timelog.groupby(timelog.index).cumcount()
timelog.index = pd.MultiIndex.from_arrays([timelog.index, duplicate_counter], names=["phase", "trial"])

probe_timelog = timelog.iloc[0, 0]
dayfirst = "/" in probe_timelog
timelog = timelog.apply(lambda ts, d=dayfirst: pd.to_datetime(ts, dayfirst=d), axis=1).map(
lambda val: val.tz_localize(timezone)
)

timelog = pd.DataFrame(timelog.T.unstack(), columns=["time"])
timelog = timelog[::-1].reindex(["start", "end"], level="start_end")
timelog = timelog.reindex(["start", "end"], level="start_end")
timelog = timelog.T
return timelog

Expand Down