CODEWITHSUNDEEP
pythonpython-3.xpandasdataframepandas-groupby
Ajees Basha
Ajees Basha

Reputation: 23

Pandas to read a excel file from s3 and apply some operation and write the file in same location

i am using pandas to read an excel file from s3 and i will be doing some operation in one of the column and write the new version in same location. Basically new version will overwrite the original version.

with csv file i am able to achieve using the below code but not sure of excel(.xlsx). Please can someone help.

key = source_path + folder_name + "/" + file_name
s3 = boto3.client('s3')
obj = s3.get_object(Bucket=bucketname, Key=key)
csv_buf = StringIO()
df = pd.read_csv(obj['Body'])
df["col1"] = df["col1"] * 100
df.to_csv(csv_buf, index=False)
csv_buf.seek(0)
s3.put_object(Bucket=bucketname, Body=csv_buf.getvalue(), Key=key)

i tried to use the same code using read_excel and to_excel getting UnsupportedOperation: seek error.

key = source_path + folder_name + "/" + file_name
    s3 = boto3.client('s3')
    obj = s3.get_object(Bucket=bucketname, Key=key)
    csv_buf = StringIO()
    df = pd.read_excel(obj['Body'])
    df["col1"] = df["col1"] * 100
    df.to_excel(csv_buf, index=False)
    csv_buf.seek(0)
    s3.put_object(Bucket=bucketname, Body=csv_buf.getvalue(), Key=key)

Error Message:

---------------------------------------------------------------------------
UnsupportedOperation                      Traceback (most recent call last)
<ipython-input-298-9363cf7d6609> in <module>
      6         obj = s3.get_object(Bucket=raw_bucket, Key=key)
      7         csv_buf = StringIO()
----> 8         df = pd.read_excel(obj['Body'])
      9         df["patient_ID"] = df["patient_ID"] * 100
     10         df.to_excel(csv_buf, index=False)

~\anaconda3\lib\site-packages\pandas\util\_decorators.py in wrapper(*args, **kwargs)
    297                 )
    298                 warnings.warn(msg, FutureWarning, stacklevel=stacklevel)
--> 299             return func(*args, **kwargs)
    300 
    301         return wrapper

~\anaconda3\lib\site-packages\pandas\io\excel\_base.py in read_excel(io, sheet_name, header, names, index_col, usecols, squeeze, dtype, engine, converters, true_values, false_values, skiprows, nrows, na_values, keep_default_na, na_filter, verbose, parse_dates, date_parser, thousands, comment, skipfooter, convert_float, mangle_dupe_cols, storage_options)
    334     if not isinstance(io, ExcelFile):
    335         should_close = True
--> 336         io = ExcelFile(io, storage_options=storage_options, engine=engine)
    337     elif engine and engine != io.engine:
    338         raise ValueError(

~\anaconda3\lib\site-packages\pandas\io\excel\_base.py in __init__(self, path_or_buffer, engine, storage_options)
   1069                 ext = "xls"
   1070             else:
-> 1071                 ext = inspect_excel_format(
   1072                     content=path_or_buffer, storage_options=storage_options
   1073                 )

~\anaconda3\lib\site-packages\pandas\io\excel\_base.py in inspect_excel_format(path, content, storage_options)
    951     ) as handle:
    952         stream = handle.handle
--> 953         stream.seek(0)
    954         buf = stream.read(PEEK_SIZE)
    955         if buf is None:

UnsupportedOperation: seek

sample file

s.no patient_id 1 100 2 200 3 300 4 400 5 500

Upvotes: 1

Views: 3054

Answers (1)

Villa
Villa

Reputation: 136

Try the below solution it worked for me. Now you can directly pass the s3 location of the file.

 key = source_path + folder_name + "/" + file_name
    path = "s3://" + bucket_name + "/" + key
    if target_file[num].endswith(".xlsx"):
        df = pd.read_excel(path)
        df["col1"] = df["col1"] * 100
        df.to_excel(path)
    elif target_file[num].endswith(".csv"):
        df = pd.read_csv(path)
        df["col1"] = df["col1"] * 100
        df.to_csv(path)

Upvotes: 1

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