import pandas as pd participant_info = pd.read_csv(snakemake.input["participant_info"]) summarised = snakemake.params["summarised"] pid = snakemake.input["participant_info"].split("/")[2] targets = pd.DataFrame({"pid": [pid], "target": [None]}) if summarised == "summarised": if not participant_info.empty: cesds = participant_info.loc[0, ["preop_cesd_total", "inpatient_cesd_total", "postop_cesd_total", "3month_cesd_total"]] # targets: 1 => 50% (ceiling) or more of available CESD scores were 16 or higher; 0 => otherwise threshold_num = (cesds.count() + 1) // 2 threshold_cesd = 16 target = 1 if cesds.apply(lambda x : 1 if x >= threshold_cesd else 0).sum() >= threshold_num else 0 targets.loc[0, "target"] = target targets.to_csv(snakemake.output[0], index=False)