pyinstaller not finding external fortran executable

Dear all, My code consists of a graphical user interface written in PySide. This GUI will then call a FORTRAN executable. I run the FORTRAN executable using the following lines in my script: curPath = os.path.dirname(os.path.realpath(__file__)) execPath = os.path.join(curPath, "myFORTRAN.out"

how to compare and check if two binary(h5) files numerically have the same contents

Dear all, I am trying to compare the contents of two binary files. I use python 3.6 filecomp comparing same name files inside two directories. results_dummy=filecmp.cmpfiles(dir1, dir2, common, shallow=True) The above line works for *.bin file I have in both directories, but it does not work

Re: PySide window does not resize to fit screen

Hi Chris and others, I have re-designed my user interface to include layouts and now it fits the screen perfectly. Thanks a lot for all your help on this thread, Best -- https://mail.python.org/mailman/listinfo/python-list

import issues python3.4

Dear all, I have a software code that is written in python and has a structure like this. package/ run_my_gui.py#gui sub_package/ main.py sub_sub_package/ __init__.py A.py B.py C.py All the imports in main.py are absolute and look lik

Interpolation gives negative values

Dear all, I have an ASCII file (f1) with 100M lines with columns x,y,z ( new data points) and then I have a second ASCII file (f2) with 2M lines with columns x,y,z and VALUE (v10).(known data points). I need to interpolate f1 over f2, that is I need to have values for v10 for all coordinated

Re: best way to read a huge ascii file.

Hi all, Writing my ASCII file once to either of pickle or npy or hdf data types and then working afterwards on the result binary file reduced the read time from 80(min) to 2 seconds. Thanks everyone for your help. -- https://mail.python.org/mailman/listinfo/python-list

Re: best way to read a huge ascii file.

Hi all, Let me update my question, I have an ascii file(7G) which has around 100M lines. I read this file using : f=np.loadtxt(os.path.join(dir,myfile),delimiter=None,skiprows=0) x=f[:,1] y=f[:,2] z=f[:,3] id=f[:,0] I will need the x,y,z and id arrays later for interpolations. The prob

best way to read a huge ascii file.

Hi, I have a huge ascii file(40G) and I have around 100M lines. I read this file using : f=np.loadtxt(os.path.join(dir,myfile),delimiter=None,skiprows=0) x=f1[:,1] y=f1[:,2] z=f1[:,3] id=f1[:,0] I will need the x,y,z and id arrays later for interpolations. The problem is reading the file t

data interpolation

Hi, I have a question about data interpolation using python. I have a big ascii file containg data in the following format and around 200M points. id, xcoordinate, ycoordinate, zcoordinate then I have a second file containing data in the following format, ( 2M values) id, xcoordinate, ycoor

Re: Reading Fortran Ascii output using python

On Monday, October 31, 2016 at 8:03:53 PM UTC+1, MRAB wrote: > On 2016-10-31 17:46, Heli wrote: > > On Monday, October 31, 2016 at 6:30:12 PM UTC+1, Irmen de Jong wrote: > >> On 31-10-2016 18:20, Heli wrote: > >> > Hi all, > >> > > >> > I am t

Re: Reading Fortran Ascii output using python

On Monday, October 31, 2016 at 6:30:12 PM UTC+1, Irmen de Jong wrote: > On 31-10-2016 18:20, Heli wrote: > > Hi all, > > > > I am trying to read an ascii file written in Fortran90 using python. I am > > reading this file by opening the input

Reading Fortran Ascii output using python

Hi all, I am trying to read an ascii file written in Fortran90 using python. I am reading this file by opening the input file and then reading using: inputfile.readline() On each line of the ascii file I have a few numbers like this: line 1: 1 line 2: 1000.834739 2000.38473 3000.349798 line

Re: reshape with xyz ordering

Thanks for your replies. Let me explain my problem a little bit more. I have the following data which i read from a file using numpy.loadtxt and then i sort it using np.lexsort: x=f[:,0] # XColumn y=f[:,1] # YColumn z=f[:,2] # ZColumn val=f[:,3] # Val Column xcoord=np.sort(np.unique(f[:,0])) # X

reshape with xyz ordering

Hi, I sort a file with 4 columns (x,y,z, somevalue) and I sort it using numpy.lexsort. ind=np.lexsort((val,z,y,x)) myval=val[ind] myval is a 1d numpy array sorted by x,then y, then z and finally val. how can I reshape correctly myval so that I get a 3d numpy array maintaining the xyz orderi

Getting number of neighbours for a 3d numpy arrays

Hi, I have a 3d numpy array containing true/false values for each i,j,k. The size of the array is a*b*c. for each cell with indices i,j,k; I will need to check all its neighbours and calculate the number of neighbour cells with true values. A cell with index i,j,k has the following neighbou

Re: fastest way to read a text file in to a numpy array

Dear all, After a few tests, I think I will need to correct a bit my question. I will give an example here. I have file 1 with 250 lines: X1,Y1,Z1 X2,Y2,Z2 Then I have file 2 with 3M lines: X1,Y1,Z1,value11,value12, value13, X2,Y2,Z2,value21,value22, value23,... I will need to

fastest way to read a text file in to a numpy array

Hi, I need to read a file in to a 2d numpy array containing many number of lines. I was wondering what is the fastest way to do this? Is even reading the file in to numpy array the best method or there are better approaches? Thanks for your suggestions, -- https://mail.python.org/mailman/li

Re: reshape and keep x,y,z ordering

Thanks Michael, This did the trick. array.flatten('F') works exactly as I need. Thanks a lot, -- https://mail.python.org/mailman/listinfo/python-list

reshape and keep x,y,z ordering

Hello, I have a question regarding reshaping numpy array. I either have a 1D array that I need to reshape to a 3D array or a 3D array to reshape to a 1d numpy array. In both of these cases it is assumed that data follows x,y,z ordering. and I use the following to reshape the numpy array.

Re: installing scipy

Yes, the python I have installed is 64bit. Python 3.4.3 (v3.4.3:9b73f1c3e601, Feb 24 2015, 22:44:40) [MSC v.1600 64 bit (AMD64)] on win32 and the scipy wheel I am trying to install from is : scipy-0.17.0-cp34-none-win_amd64.whl At Sayth: Thanks for recommending Anaconda. I already am familiar

installing scipy

Hi all, I have a python34 installed on a windows-64bit machine. I am using Eclipse pydev editor. I need to used griddata from scipy.interpolate. I have installed scipy using by downloading the followng wheel file: scipy-0.17.0-cp34-none-win_amd64 and isntalling using pip install. The install

Re: numpy arrays

As you said, this did the trick. sortedVal=np.array(val[ind]).reshape((xcoord.size,ycoord.size,zcoord.size)) Only val[ind] instead of val[ind,:] as val is 1D. Thanks Oscar, -- https://mail.python.org/mailman/listinfo/python-list

Re: numpy arrays

Thanks Oscar, In my case this did the trick. sortedVal=np.array(val[ind]).reshape((xcoord.size,ycoord.size,zcoord.size)) -- https://mail.python.org/mailman/listinfo/python-list

Re: numpy arrays

Thanks a lot Oscar, The lexsort you suggested was the way to go. import h5py import numpy as np f=np.loadtxt(inputFile,delimiter=None) xcoord=np.sort(np.unique(f[:,0])) ycoord=np.sort(np.unique(f[:,1])) zcoord=np.sort(np.unique(f[:,2])) x=f[:,0] y=f[:,1] z=f[:,2] val=f[:,3] ind = np.lexsort(

Re: numpy arrays

Thanks for your replies. I have a question in regard with my previous question. I have a file that contains x,y,z and a value for that coordinate on each line. Here I am giving an example of the file using a numpy array called f. f=np.array([[1,1,1,1], [1,1,2,2], [1,1,3

Re: numpy arrays

On Wednesday, March 23, 2016 at 11:07:27 AM UTC+1, Heli wrote: > Hi, > > I have a 2D numpy array like this: > > [[1,2,3,4], > [1,2,3,4], > [1,2,3,4] > [1,2,3,4]] > > Is there any fast way to convert this array to > > [[1,1,1,1], > [2,2,2,2] >

numpy arrays

Hi, I have a 2D numpy array like this: [[1,2,3,4], [1,2,3,4], [1,2,3,4] [1,2,3,4]] Is there any fast way to convert this array to [[1,1,1,1], [2,2,2,2] [3,3,3,3] [4,4,4,4]] In general I would need to retrieve every nth element of the interior arrays in to single arrays. I know I can

Re: looping and searching in numpy array

On Thursday, March 10, 2016 at 5:49:07 PM UTC+1, Heli wrote: > On Thursday, March 10, 2016 at 2:02:57 PM UTC+1, Peter Otten wrote: > > Heli wrote: > > > > > Dear all, > > > > > > I need to loop over a numpy array and then do the following search. The >

Re: looping and searching in numpy array

On Thursday, March 10, 2016 at 2:02:57 PM UTC+1, Peter Otten wrote: > Heli wrote: > > > Dear all, > > > > I need to loop over a numpy array and then do the following search. The > > following is taking almost 60(s) for an array (npArray1 and npArray2 in > >

looping and searching in numpy array

Dear all, I need to loop over a numpy array and then do the following search. The following is taking almost 60(s) for an array (npArray1 and npArray2 in the example below) with around 300K values. for id in np.nditer(npArray1): newId=(np.where(npArray2==id))[0][0]

Re: np.searchSorted over 2D array

elements with shape 10*2*10 appears. If it does, then I want the indices of the bigger dataset where this happens. I hope I´m making myself more clear :) Thanks for your comments, On Wednesday, December 9, 2015 at 5:37:07 PM UTC+1, Peter Otten wrote: > Heli wrote: > > [Please don

np.searchSorted over 2D array

Dear all, I need to check whether two 2d numpy arrays have intersections and if so I will need to have the cell indices of the intersection. By intersection, I exactly mean the intersection definition used in set theory. I will give an example of what I need to do: a=[[0,1,2],[3,4,5],[6,7,8]]

3D numpy array subset

Dear all, I am reading a dataset from a HDF5 file using h5py. my datasets are 3D. Then I will need to check if another 3d numpy array is a subset of this 3D array i am reading from the file. In general, is there any way to check if two 3d numpy arrays have intersections and if so, get the in

Re: PyInstaller+ Python3.5 (h5py import error)

Thanks Christian, It turned out that h5py.defs was not the only hidden import that I needed to add. I managed to get it working with the follwoing command adding 4 hidden imports. pyinstaller --hidden-import=h5py.defs --hidden-import=h5py.utils --hidden-import=h5py.h5ac --hidden-import=h5

PyInstaller+ Python3.5 (h5py import error)

Dear all, Thanks a lot for your replies. Very helpful. I have already done some trials with Virtualenv, but PyInstaller is much closer to the idea of an installer you can pass to someone. I have been using development version of PyInstaller in order to be able to use it with my script writt

Porting Python Application to a new linux machine

Dear all, I have my python scripts that use several python libraries such as h5py, pyside, numpy In Windows I have an installer that will install python locally on user machine and so my program gets access to this local python and runs successfully. How can I do this in Linux ? ( I wan

Re: Optimizing if statement check over a numpy value

On Thursday, July 23, 2015 at 1:43:00 PM UTC+2, Jeremy Sanders wrote: > Heli Nix wrote: > > > Is there any way that I can optimize this if statement. > > Array processing is much faster in numpy. Maybe this is close to what you > want > > import numpy as N > # i

Optimizing if statement check over a numpy value

Dear all, I have the following piece of code. I am reading a numpy dataset from an hdf5 file and I am changing values to a new value if they equal 1. There is 90 percent chance that (if id not in myList:) is true and in 10 percent of time is false. with h5py.File(inputFile, 'r') as f1: