Yuxuan Wu

When I tried to run the predict_all_deaths.py it raise this KeyError, what should I do in this case? KeyError: 'all_deaths_pred_6_17_advanced_shared_model_21'

When I try to run the predict_all_death.py, it shows No such file or directory: 'all_deaths_preds_6_21.pkl' I am not sure where is this file

Confusion for the process of redo the prediction

1

I already have the data extract and place them in the data folder includes: `adm_details.csv pivoted_lab.csv pivoted_vital.csv` and I suppose I need to run the following code: `$ python 00_define_cohort.py...

When I run the line `python 02_extract_notes.py` it shows the following warnings and I think this might affect the rest of the code: `Reading data... sys:1: DtypeWarning: Columns (5) have...

Errors during training phase, RuntimeError: you must first build vocabulary before training the model

1

I have successfully run the first five python file for preprocessing including: `$ python 00_define_cohort.py # define patient cohort and collect labels $ python 01_get_signals.py # extract temporal signals (vital...

raise KeyError(f"{not_found} not in index")

1

When I tried to run `python3 scripts/extract_sub jects.py /home/edmundwuyuxuan/MIMIC3Data/FullMIMIC/physionet.org/files/mimiciii/1.4 data/root/` it shows: `Traceback (most recent call last): File "scripts/extract_subjects.py", line 92, in make_phenotype_label_matrix(phenotypes, stays).to_csv(os.path.join(args.output_path, 'phenotype_labels.csv'), File "/home/edmundwuyuxuan/existing/MIMIC-III_ICU_Readmission_Analysis/mimic3-readmission/mimic3benchmark/preprocessing.py", line 75, in...

Hi, when I tried to run the first script in the description, `python3 scripts/extract_subjects.py /home/edmundwuyuxuan/MIMIC3Data/FullMIMIC/physionet.org/files/mimiciii/1.4 data/root/` it shows the errors of Overflow in Int64 addition in mimic3csv.py  I try...