The txt file is saved in the exact same folder as my code but when I run it I get that traceback. I right clicked saved file directly to folder but when run the code vs studio. I am very new to code sorry for the basic question.
file = open('regex_sum_1114202.txt', 'r')
Traceback:
Traceback (most recent call last):
File "c:\Users\EM2750\Desktop\py4e\ex_11\ex_11.py", line 2, in <module>
file = open('regex_sum_1114202.txt', 'r')
FileNotFoundError: [Errno 2] No such file or directory: 'regex_sum_1114202.txt'
screen shot of traceback
Try file = open('./regex_sum_1114202.txt', 'r') instead.
This explicitly specifies that Python should look for the file in the current directory by providing the relative path. Think of the point as a shorthand for the current working directory. So if the current working directory is the directory where the script and the file is, that should work.
Use forward slashes (/) instead of backslashes (\). Backslashes are the default directory separator on Windows, but here they make problems because they are interpreted as escape sequences by Python. Alternatively, you can use two backslashes after another as directory separator: \\.
You can also try to specify the full path before the filename: file = open('c:/Users/EM2750/Desktop/py4e/ex_11/regex_sum_1114202.txt', 'r'). The downside is of course that the path wouldn't be correct anymore if you'd move the file.
Related
I have an audio file and I want to get the timestamps for each word. I want to know during which time period was each the words spoken.
(For example if an audio file says "I am a doctor" I want to know during which instant "I" was said, "am" was said and so on)
I want to do this using python.
I have tried the following code.
from SimpleAudioIndexer import SimpleAudioIndexer as sai
indexer = sai(mode="ibm", src_dir="D:/Codes/Python/audio recognition",
username_ibm="", password_ibm="")
indexer.index_audio(basename = "target.wav")
indexer.save_indexed_audio("{}/indexed_audio".format(indexer.src_dir))
indexer.load_indexed_audio("{}/indexed_audio.txt".format(indexer.src_dir))
print(indexer.get_timestamps())
However I am running into following error.
Traceback (most recent call last):
File "D:\Codes\Python\audio recognition\rec.py", line 5, in <module>
indexer.index_audio(basename = "target.wav")
File "C:\Users\Awais\AppData\Roaming\Python\Python37\site-
packages\SimpleAudioIndexer\__init__.py", line 1108, in index_audio
self._index_audio_ibm(*args, **kwargs)
File "C:\Users\Awais\AppData\Roaming\Python\Python37\site-
packages\SimpleAudioIndexer\__init__.py", line 928, in _index_audio_ibm
replace_already_indexed=replace_already_indexed)
File "C:\Users\Awais\AppData\Roaming\Python\Python37\site-
packages\SimpleAudioIndexer\__init__.py", line 730, in _prepare_audio
self._filtering_step(basename)
File "C:\Users\Awais\AppData\Roaming\Python\Python37\site-
packages\SimpleAudioIndexer\__init__.py", line 638, in _filtering_step
universal_newlines=True).communicate()
File "C:\Program Files (x86)\Microsoft Visual
Studio\Shared\Python37_64\lib\subprocess.py", line 800, in __init__
restore_signals, start_new_session)
File "C:\Program Files (x86)\Microsoft Visual
Studio\Shared\Python37_64\lib\subprocess.py", line 1207, in _execute_child
startupinfo)
FileNotFoundError: [WinError 2] The system cannot find the file specified
From what I can tell from your code/errors is that you're running Windows, but you're using forward slashes "/" in your src_dir string. This won't work as Windows uses the backslash "\" when navigating folders. Such as:
C:\Windows
while many Unix based systems use the forward slash like this:
/home/Awais
In your code you should try to change the "/" to "\" and see if that makes a difference.
If it is your intention on using this program on both Windows and Unix systems, you should use python3's "pathlib" to ensure your directory paths work on either OS. Here is a link that you can use to learn more about handling paths in python3:
https://medium.com/#ageitgey/python-3-quick-tip-the-easy-way-to-deal-with-file-paths-on-windows-mac-and-linux-11a072b58d5f
I am trying to open 2 text files on PyCharm but it says file not found. Where do I put the files so they can be found?
I tried moving the files to the folder where all my PyCharm projects are kept but it didn't work.
dna = open('dna.txt', 'r')
dna.close()
dna_results = open("dnaresults.txt", "w")
dna_results.close()
Expected: I don't know honestly, for the text file to open on PyCharm so I can read it?
Actual: FileNotFoundError: [Errno 2] No such file or directory: 'dna.txt'
You need to pass the full path of the file in order to open it, for e.g. if the file is located at /home/john/dna.txt, you need to do.
dna = open('/home/john/dna.txt', 'r')
dna.close()
You can put your file anywhere you want, but you always need to pass the full path of the file in order to access it, otherwise the python interpreter doesn't know where to find it.
As an additional tidbit, if the dna.txt is located in the same folder as where the script is located, dna = open('dna.txt', 'r') will work
I am trying to use Porter5 to run protein secondary structure prediction on a FASTA file containing a bunch of protein sequences. I am using a Linux machine.
For starters, I decided to try using the example file that gets downloaded along with Porter5, called 2FLGA.fasta. The command I used was the one I found on the GitHub page for Porter5 (https://github.com/mircare/Porter5/)
$ python3 Porter5.py -i example/2FLGA.fasta --cpu 4
I got the following error message:
sh: 1: /home/user/ncbi-blast-2.8.1+/bin/psiblast: not found
PSI-BLAST executed in 0.01s
wc: example/2FLGA.fasta.psi: No such file or directory
awk: cannot open example/2FLGA.fasta.psi (No such file or directory)
HHblits executed in 0.01s
Traceback (most recent call last):
File "/home/user/Porter5/scripts/process-alignment.py", line 37, in <module>
sequences = lines[0] = len(lines) - 1
IndexError: list assignment index out of range
Traceback (most recent call last):
File "Porter5.py", line 80, in <module>
flatpsi_ann = open(filename+".flatpsi.ann", "r").readlines()
FileNotFoundError: [Errno 2] No such file or directory: 'example/2FLGA.fasta.flatpsi.ann'
After PSI-BLAST, the Porter5 script is expecting an output file called 2FLGA.fasta.psi. I checked the example directory and it contains an output file called 2FLGA.fasta.flatpsi.
I'm not sure what to do here. I don't want to try modifying any of the Porter5 scripts to look for .flatpsi files instead of .psi files because I am a beginner at programming, and I don't want all hell to break loose by tampering with the code.
Could someone please help me with this? Any help is appreciated.
(There are a bunch of errors to negotiate with later but I'll see about those after dealing with the first one.)
I am the author of Porter5 and I generally recommend to open an issue straight on GitHub since I don't get any notification otherwise.
It looks like the path of psiblast is wrong (first line of your error message). You can check that with the following command:
$ ls /home/user/ncbi-blast-2.8.1+/bin/psiblast
Also, the path for the executable or the database of HHblits is wrong, or maybe both. You can check that as follow (within Porter5/):
$ cat scripts/config.ini
You can either edit scripts/config.ini or run the following command until Porter5 runs succesfully:
$ python3 Porter5.py -i example/2FLGA.fasta --cpu 4 --setup
(The .flatpsi is an intermediate file, it doesn't contain a valid representation if HHblits doesn't run succesfully)
when trying to open a file using wit open .. getting error that file doesn't exist.
I am trying to parse some txt files , when working localy it works with no issue, but the issue started when I am trying to connect to a network folder. the strange this is that is does see the file , but says its not found .
The Path I referring is '//10.8.4.49/Projects/QASA_BR_TCL_Env_7.2.250/Utils/BR_Env/Call Generator/results/Console_Logs/*' (this folder is full of txt files.
but I am still getting this error:
FileNotFoundError: [Errno 2] No such file or directory: 'Console_log_01-01-2019_08-17-56.txt'
as you see , it does see the needed file .
in order to get to this file I am parsing splitting the path the follwoing way :
readFile = name.split("/")[9].split("\\")[1]
because if I am looking on the list of my files I see them the following way :
['//10.8.4.49/Projects/QASA_BR_TCL_Env_7.2.250/Utils/BR_Env/Call Generator/results/Console_Logs\Console_log_01-01-2019_08-17-56.txt',
after splitting I am getting :
Console_log_01-01-2019_08-17-56.txt
and still it says the file is not found.
def main():
lines =0
path = '//10.8.4.49/Projects/QASA_BR_TCL_Env_7.2.250/Utils/BR_Env/Call Generator/results/Console_Logs/*'
files = glob.glob(path)
print ("files")
print ('\n')
print(files)
for name in glob.glob(path):
print (path)
readFile = name.split("/")[9].split("\\")[1]
print(readFile)
with open(readFile,"r") as file:
lines = file.readlines()
print (lines)
main()
files
['//10.8.4.49/Projects/QASA_BR_TCL_Env_7.2.250/Utils/BR_Env/Call Generator/results/Console_Logs\\Console_log_01-01-2019_08-17-56.txt', '//10.8.4.49/Projects/QASA_BR_TCL_Env_7.2.250/Utils/BR_Env/Call Generator/results/Console_Logs\\Console_log_01-01-2019_08-18-29.txt']
Traceback (most recent call last):
//10.8.4.49/Projects/QASA_BR_TCL_Env_7.2.250/Utils/BR_Env/Call Generator/results/Console_Logs/*
Console_log_01-01-2019_08-17-56.txt
File "C:/Users/markp/.PyCharmEdu2018.3/config/scratches/scratch_3.py", line 19, in <module>
main()
File "C:/Users/markp/.PyCharmEdu2018.3/config/scratches/scratch_3.py", line 16, in main
with open(readFile,"r") as file:
FileNotFoundError: [Errno 2] No such file or directory: 'Console_log_01-01-2019_08-17-56.txt'
Process finished with exit code 1
When you are looking for the file you are looking in the entire path, however when you are opening the file, you are referencing it as if it was in the local path, either change the current working directory with
os.chdir(path)
before opening the file, or in the open statement use
open(os.path.join(path,filename))
I recommend the first approach if you have to open only one file in your program and second if you open multiple files at multiple directories.
In future better format your questions, stack overflow has multiple tools, use them, also you can see how your text looks, make sure to have a look at it before posting. Use the code brackets for your code, that will help whoever is trying to answer.
I'm trying to read in a text file to work with Word Clouds. Here is the syntax I'm trying:
# Read the whole text.
text = open(r'C:\Users\mswitajski\Desktop\alice.txt').read()
But I keep getting the following error:
FileNotFoundError: [Errno 2] No such file or directory: 'C:\\Users\\mswitajski\\Desktop\\alice.txt'
I've triple checked the file name, tried reading it as a raw file, changed the slashes and everything but I continue to get the same error.
Well, if someone reaches up to here and still could not find the solution then here is the more pythonic way of doing the absolute path in windows.
Instead of using:
text = open(r'C:\Users\mswitajski\Desktop\alice.txt').read()
use os.sep, in conjunction of os.path.join like the following:
import os
text = open(os.path.join('C:', os.sep, 'Users', 'mswitajski', 'Desktop', 'alice.txt')).read()
Try changin the path to this"
'C:\Users\mswitajski\Desktop/alice.txt'
Sometimes windows won't find/recognize the file path when the file is specified like this
'C:\Users\mswitajski\Desktop\alice.txt'
In the answer it shows up as only one \ but you still need 2 like your previous path. The only difference is the last slash /. Hope that works.
At your text raw file (alice.txt) try delete the .txt.
The file probably is named alice.txt.txt
I face the same issue and solve it by deleted the .txt.
I had to use double slashes instead of one, because python interpreted it as a escape sequence. My final string was:
C:\\Users\\ArpitChinmay's\\AppData\\Roaming\\Code\\User\\globalStorage\\moocfi.test-my-
code\\tmcdata\\TMC workspace\\Exercises\\hy\\hy-data-analysis-with-python-
2020\\part02-e04_word_frequencies\\src\\alice.txt
However, it worked this way too,
C:\\Users\\Arpit Chinmay's\\AppData\\Roaming\\Code\\User\\globalStorage\\moocfi.test-
my-code\\tmcdata\\TMC workspace\\Exercises\\hy\\hy-data-analysis-with-python-
2020\\part02-e04_word_frequencies\\src/alice.txt