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import os | |
import pandas as pd | |
import dask.dataframe as dd | |
from dask.multiprocessing import get | |
num_workers = 20 #or use int(os.environ["SLURM_JOB_CPUS_PER_NODE"]) | |
def apply_row(row): | |
return pd.Series({ | |
"newColA": row["A"]+row["B"]), | |
"newColB": row["A"]+row["C"])}) | |
#Read in pandas | |
pandas_df = pd.read_hdf("file.h5", "table") | |
#Convert to dask and split into chunks | |
#Make sure to set name so it doesn't hash the pandas_df | |
ddf = dd.from_pandas(pandas_df, name="pandas_test", npartitions=num_workers) | |
#Define the column types of your output | |
meta = pd.DataFrame({"newColA":[str], "newColB":[str]}) | |
#Apply function in parallel using the number of cores specified (num_workers) | |
#The compute get uses multiprocessing.Pool like: | |
# pool = multiprocessing.Pool(num_workers) | |
new_series = ddf.map_partitions(lambda _df: _df.apply(apply_row, axis=1), meta=meta).compute(get=get, num_workers=num_workers) | |
#Create new columns in pandas df | |
pandas_df.loc[:, ["newColA", "newColB"]] = new_series |
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