reading .txt and .hdf5 file typed from the same folder

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Manar Anwar 2021-10-2

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https://ww2.mathworks.cn/matlabcentral/answers/1465529-reading-txt-and-hdf5-file-typed-from-the-same-folder

评论： Walter Roberson 2021-10-4

I have a folder that contains data files of type .txt and .hdf5, I am using the follwoing code to read the text files from this folder

 % Specify the folder where the files live.
 myFolder = 'C:\Users\Windows 10 Pro\Desktop\JRO_Data';
% Check to make sure that folder actually exists.  Warn user if it doesn't.
if ~isdir(myFolder)
  errorMessage = sprintf('Error: The following folder does not exist:\n%s', myFolder);
  uiwait(warndlg(errorMessage));
  return;
end
% Get a list of all files in the folder with the desired file name pattern.
filePattern = fullfile(myFolder, '*.*'); 
theFiles = dir(filePattern);
theFiles = theFiles(~[theFiles.isdir]);  %remove folders from list
numfiles = length(theFiles);
DATA = cell(numfiles,2);
fullnames = fullfile({theFiles.folder}, {theFiles.name});
DATA(:,1) = fullnames(:); %cell array where we store the names of the files and the desired data

how can I modify this to be able to read .hdf5 as well, I am aware that there is a matlab function for reading such type but I am not sure how I can implement it in my code.

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Answer 1

Walter Roberson 2021-10-2

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https://ww2.mathworks.cn/matlabcentral/answers/1465529-reading-txt-and-hdf5-file-typed-from-the-same-folder#answer_800314

在 MATLAB Online 中打开

dataset_to_read = 'something_appropriate';
for K = 1 : numfiles
    got_hdf = false; got_table = false;
    
    thisfile = fullnames{K};
    [~, ~, ext] = fileparts(thisfile);
    if ismember(ext, {'.hdf5', '.h5'})
        data = h5read(thisfile, dataset_to_read);
        got_hdf = true;
    elseif ismember(ext, {'.hdf4', '.h4'})
        data = hdfread(thisfile, dataset_to_read);
        got_hdf = true;
    elseif ismember(ext, {'.csv', '.xls', '.xlsx'})
        data = readtable(thisfile);
        got_table = true;
    elseif ismember(ext, '.xt')
        data = something appropriate
    end
end

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Manar Anwar 2021-10-4

编辑：Manar Anwar 2021-10-4

在 MATLAB Online 中打开

Thank you for the help. I used what you have provided and modified my code to fit, but I am still stuck at some point where there is no error shown but still the files are not being read from the folder.

here is what I have done :

 % Specify the folder where the files live.
 myFolder = 'C:/datafile';
% Check to make sure that folder actually exists.  Warn user if it doesn't.
if ~isdir(myFolder)
  errorMessage = sprintf('Error: The following folder does not exist:\n%s', myFolder);
  uiwait(warndlg(errorMessage));
  return;
end
% Get a list of all files in the folder with the desired file name pattern.
theFiles = [dir('*.txt');dir('*.hdf5')]; 
theFiles = theFiles(~[theFiles.isdir]);  %remove folders from list
numfiles = length(theFiles);
DATA = cell(numfiles,2);
fullnames = fullfile({theFiles.folder},{theFiles.name});
dataset_to_read = 'C:\datafile ';  %datafile is the folder where the files wewant to read are stored.
for K = 1 : nfiles 
got_hdf = false; got_table = false ; 
thisfile = fullnames{K }; 
[~, ~, ext] = fileparts(thisfile ); 
if ismember(ext, {'.hdf5', '.h5 '}) 
data = h5read(thisfile, dataset_to_read ); 
got_hdf = true ; 
elseif ismember(ext, '.txt ') 
data = readtable(fullFileName);
end 
end

I am not sure though if what I have put in 'dataset_to_read', I know that the path of the folder should go here but I am not sure if this is true.

Walter Roberson 2021-10-4

在 MATLAB Online 中打开

theFiles = [dir(fullfile(myFolder,'*.txt'));dir(fullfile(myFolder,'*.hdf5'))];

Walter Roberson 2021-10-4

dataset_to_read should be the HDF5 dataset path, not the folder to read the data into. The HDF5 dataset path will look similar to a unix path, starting with / and with parts separated by /

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reading .txt and .hdf5 file typed from the same folder

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reading .txt and .hdf5 file typed from the same folder

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