How to read/print the ( _io.TextIOWrapper) data?
102,030
The file is already closed (when the previous with
block finishes), so you cannot do anything more to the file. To reopen the file, create another with statement and use the read
attribute to read the file.
with open('test_output.txt', 'r') as f2:
data = f2.read()
print(data)
Author by
everestial007
Evolution and Genomics Scientist with skills of a programmer and rustic hobbyist as a ping ponger and guitar player !
Updated on July 06, 2021Comments
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everestial007 almost 3 years
With the following code I want to > open a file > read the contents and strip the non-required lines > then write the data to the file and also read the file for downstream analyses.
with open("chr2_head25.gtf", 'r') as f,\ open('test_output.txt', 'w+') as f2: for lines in f: if not lines.startswith('#'): f2.write(lines) f2.close()
Now, I want to read the f2 data and do further processing in pandas or other modules but I am running into a problem while reading the data(
f2
).data = f2 # doesn't work print(data) #gives <_io.TextIOWrapper name='test_output.txt' mode='w+' encoding='UTF-8'> data = io.StringIO(f2) # doesn't work # Error message Traceback (most recent call last): File "/home/everestial007/PycharmProjects/stitcher/pHASE-Stitcher-Markov/markov_final_test/phase_to_vcf.py", line 64, in <module> data = io.StringIO(f2) TypeError: initial_value must be str or None, not _io.TextIOWrapper
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everestial007 about 7 yearsI tried not putting
f2.close()
at the end of that for loop, but it didn't work either. I already know what you have suggested. I just didn't wanted to read the file again and again. Was wondering if that codes is missing something. -
martineau about 7 years@everestial007: The
f2.close()
is redundant because the precedingwith
does it automatically. -
Leevo almost 5 yearsHow can I convert
f2
to anstr
object ? -
Taku almost 5 years@Leevo
data
is the str object of the file’s content. -
Ivailo Bardarov almost 3 years@abccd how this answer is using io.TextIOWrapper ?
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nlhnt over 2 yearsWell the person asking forgot to read from the file handler. So he was trying to read using the wrong object.