comparison COBRAxy/marea.py @ 309:38c9a958ea78 draft

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308:797d0e002934

    for i in range(len(classes)):
        classe :str = classes.iloc[i, 1]
        if pd.isnull(classe): continue

        l :List[List[float]] = []
        for j in range(i, len(classes)):
            if classes.iloc[j, 1] == classe:
                pat_id :str = classes.iloc[j, 0] # sample name
                values = dataset_values.get(pat_id, None) # the column of values for that sample
                if values != None:
                    l.append(values)
                classes.iloc[j, 1] = None # TODO: problems?
        
        if l:
            class_pat[classe] = list(map(list, zip(*l)))
            continue
        
        utils.logWarning(
            f"Warning: no sample found in class \"{classe}\", the class has been disregarded", ARGS.out_log)
    

        classes = read_dataset(classPath, "class")
        classes = classes.astype(str)

        values, ids = getDatasetValues(datasetPath, "Dataset Class (not actual name)")
        if values != None:
            # TODO: add the columnNames thing, I didn't because I don't understand the whole "dataset classes" thing
            class_pat = split_class(classes, values)
    
    return ids, class_pat, columnNames
    #^^^ TODO: this could be a match statement over an enum, make it happen future marea dev with python 3.12! (it's why I kept the ifs)

#TODO: create these damn args as FilePath objects

309:38c9a958ea78

    for i in range(len(classes)):
        classe :str = classes.iloc[i, 1]
        if pd.isnull(classe): continue

        l :List[List[float]] = []
        sample_ids: List[str] = []

        for j in range(i, len(classes)):
            if classes.iloc[j, 1] == classe:
                pat_id :str = classes.iloc[j, 0] # sample name
                values = dataset_values.get(pat_id, None) # the column of values for that sample
                if values != None:
                    l.append(values)
                    sample_ids.append(pat_id)
                classes.iloc[j, 1] = None # TODO: problems?
        
        if l:
            class_pat[classe] = {
                "values": list(map(list, zip(*l))),  # trasposta
                "samples": sample_ids
            }
            continue
        
        utils.logWarning(
            f"Warning: no sample found in class \"{classe}\", the class has been disregarded", ARGS.out_log)
    

        classes = read_dataset(classPath, "class")
        classes = classes.astype(str)

        values, ids = getDatasetValues(datasetPath, "Dataset Class (not actual name)")
        if values != None:
            class_pat_with_samples_id = split_class(classes, values)

            for clas, values_and_samples_id in class_pat_with_samples_id.items():
                class_pat[clas] = values_and_samples_id["values"]
                columnNames[clas] = values_and_samples_id["samples"]
    
    return ids, class_pat, columnNames
    #^^^ TODO: this could be a match statement over an enum, make it happen future marea dev with python 3.12! (it's why I kept the ifs)

#TODO: create these damn args as FilePath objects