Custom endpoint for `ros3` driver in `h5py` Question: h5py supports the native S3 driver for HDF5 (the ros3 driver). We’ve enabled this with a local build of HDF5. >>> import h5py >>> >>> print(f’Registered drivers: {h5py.registered_drivers()}’) Registered drivers: frozenset({ ‘ros3’, ‘sec2’, ‘fileobj’, ‘core’, ‘family’, ‘split’, ‘stdio’, ‘mpio’}) We have a custom endpoint for our S3 …
How to parallel the following code using Multiprocessing in Python Question: I have a function generate(file_path) which returns an integer index and a numpy array. The simplified of generate function is as follows: def generate(file_path): temp = np.load(file_path) #get index from the string file_path idx = int(file_path.split["_"][0]) #do some mathematical operation on temp result = …
How to save a list in a pandas dataframe cell to a HDF5 table format? Question: I have a dataframe that I want to save in the appendable format to a hdf5 file. The dataframe looks like this: column1 0 [0, 1, 2, 3, 4] And the code that replicates the issue is: import pandas …
Save data to hdf5 (e.g. from pandas df) with structure copied from another hdf5-file Question: I have astronomical data in columns, that look something like this M200c, M200m, dec, ra 19.4, 20.4, 1.33, 4.68 … I need to save my data in hdf5 format, so it can be fed into a script. I know the …
Pandas to HDF5? Question: How do I convert a big table in Pandas/Numpy to h5 format with the same structure? I used the next code, but received .h5 version with messy data data.to_hdf(‘data.h5’,format = ‘table’, key=’data’) I attached the image with my data Or which data type can you recommend ? I received the next …
Columns not recognized when importing HDF5 file Question: I am trying to import an HDF5 file in python. I do not have details how the file was written. Therefore, I tried vaex and pandas to open it. How can I specify my columns, so that they are recognized? I tried to check the structure of …
Is it possible to create a HDF5 structure matching the file path on a local pc? Question: I am trying to automatically create a HDF5 structure by using the file paths on my local pc. I want to read through the subdirectories and create a HDF5 structure to match, that I can then save files …
Only the last saved dataset exists when using h5py Question: I am trying to save several datasets into a hdf5 file by h5py module, but it seems only the last one is saved. I think that because when a break statement was added, the first dataset is saved instead. The code in problem is below. …
TreeView to JSON in Python Question: [Edit: apparently this file looks similar to h5 format] I am trying to extract metadata from a file with extension of (.dm3) using hyperspy in Python, I am able to get all the data but it’s getting saved in a treeview, but I need the data in Json I …
Can HDF5 data be read as a byte stream in real time in Python? Question: We have access to a multi gigabyte HDF5 file as it’s being written over the course of many minutes. We would like to pull the most recent data written to the file as it becomes available (sub second time-frame). Is …
