I have this code reading a text file with headers. ANd append another file with the same headers to it. As the main file is very huge, I only want to read in part of it and get the column headers. I will get this error if the only line there is the header. And I do not have an idea of how many rows the file has. What I would like to achieve is to read in the file and get the column header of the file. Because I want to append another file to it, I am trying to ensure that the columns are correct.
import pandas as pd
main = pd.read_csv(main_input, nrows=1)
data = pd.read_csv(file_input)
data = data.reindex_axis(main.columns, axis=1)
data.to_csv(main_input,
quoting=csv.QUOTE_ALL,
mode='a', header=False, index=False)
Examine the stack trace:
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "C:\Users\gohm\AppData\Local\Continuum\Anaconda\lib\site-packages\pandas\io\parsers.py", line 420, in parser_f
return _read(filepath_or_buffer, kwds)
File "C:\Users\gohm\AppData\Local\Continuum\Anaconda\lib\site-packages\pandas\io\parsers.py", line 221, in _read
return parser.read(nrows)
File "C:\Users\gohm\AppData\Local\Continuum\Anaconda\lib\site-packages\pandas\io\parsers.py", line 626, in read
ret = self._engine.read(nrows)
File "C:\Users\gohm\AppData\Local\Continuum\Anaconda\lib\site-packages\pandas\io\parsers.py", line 1070, in read
data = self._reader.read(nrows)
File "parser.pyx", line 727, in pandas.parser.TextReader.read (pandas\parser.c:7110)
File "parser.pyx", line 774, in pandas.parser.TextReader._read_low_memory (pandas\parser.c:7671)
StopIteration
It seems that the whole file may be being read into memory. You can specify a chunksize=
in read_csv(...)
as discussed in the docs here.
I think that read_csv
s memory usage had been overhauled in version 0.10. So pandas your version makes a difference too see this answer from @WesMcKinney and the associated comments. The changes were also discussed a while ago on Wes' blog
import pandas as pd
from cStringIO import StringIO
csv_data = """\
header, I want
0.47094534, 0.40249001,
0.45562164, 0.37275901,
0.05431775, 0.69727892,
0.24307614, 0.92250565,
0.85728819, 0.31775839,
0.61310243, 0.24324426,
0.669575 , 0.14386658,
0.57515449, 0.68280618,
0.58448533, 0.51793506,
0.0791515 , 0.33833041,
0.34361147, 0.77419739,
0.53552098, 0.47761297,
0.3584255 , 0.40719249,
0.61492079, 0.44656684,
0.77277236, 0.68667805,
0.89155627, 0.88422355,
0.00214914, 0.90743799
"""
tfr = pd.read_csv(StringIO(csv_data), header=None, chunksize=1)
main = tfr.get_chunk()
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