Kunal B. Kunal B. - 7 months ago 175
Python Question

pandas DataFrame.to_string() truncating strings from columns

When I try to use to_string to output a column from a dataframe, it truncates the output of the column.

print gtf_df.ix[:1][['transcript_id','attributes']].to_string(header=False,index=False)

Out: ' CUFF.1.1 gene_id "CUFF.1"; transcript_id "CUFF.1.1"; FPKM '

print gtf_df.ix[:1]['attributes'][0]

Out: 'gene_id "CUFF.1"; transcript_id "CUFF.1.1"; FPKM "1670303.8168650887"; frac "1.000000"; conf_lo "0.000000"; conf_hi "5010911.450595"; cov "9658.694354";'

Any ideas as to how to resolve this problem?


Using __repr__ or to_string columns are by default truncated at 50 chars. In versions of Pandas older than 0.13.1, this can be controlled using pandas.set_printoptions():

In [64]: df
                                                   A    B
a  this is a very long string, longer than the defau  bar
b                                                foo  baz

In [65]: pandas.set_printoptions(max_colwidth=100)

In [66]: df
                                                                      A    B
a  this is a very long string, longer than the default max_column width  bar
b                                                                   foo  baz

In more recent versions of Pandas, use this instead:

pd.options.display.max_colwidth = 100