[Numpy-discussion] Np.genfromtxt Problem

Stephen P. Molnar s.molnar at sbcglobal.net
Fri Oct 4 13:31:34 EDT 2019


I have a snippet of code

#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""

Created on Tue Sep 24 07:51:11 2019

"""
import numpy as np

files = []

data = np.genfromtxt(files, usecols=(3), dtype=None, skip_header=8, 
skip_footer=1, encoding=None)

print(data)


If file is a single file the code generates the data that I want. 
However I have a list of files that I want to process. According to 
numpy.genfromtxt fname can be a "File, filename, list, or generator to 
read."  If I use [13-7a_apo-1acl.RMSD    13-7_apo-1acl.RMSD 
14-7_apo-1acl.RMSD    15-7_apo-1acl.RMSD    17-7_apo-1acl.RMSD ] get the 
error:

runfile('/home/comp/Apps/Models/1-PhosphorusLigands/CombinedLigands/MOL/Docking/Results/RMSDTable/Test/DeltaGTable_s.py', 
wdir='/home/comp/Apps/Models/1-PhosphorusLigands/CombinedLigands/MOL/Docking/Results/RMSDTable/Test', 
current_namespace=True)
Traceback (most recent call last):

   File 
"/home/comp/Apps/Models/1-PhosphorusLigands/CombinedLigands/MOL/Docking/Results/RMSDTable/Test/DeltaGTable_s.py", 
line 12, in <module>
     data = np.genfromtxt(files, usecols=(3), dtype=None, skip_header=8, 
skip_footer=1, encoding=None)

   File 
"/home/comp/Apps/Miniconda3/lib/python3.7/site-packages/numpy/lib/npyio.py", 
line 1762, in genfromtxt
     next(fhd)

StopIteration

I have tried very combination of search terms that I can think of in 
order to find an example of how to make this work without success.

How can I make this work?

Thanks in advance.

-- 
Stephen P. Molnar, Ph.D.
www.molecular-modeling.net
614.312.7528 (c)
Skype:  smolnar1



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