MIT-LCP / MIT-LCP/wfdb-python

Memory Exception When Merging Large Volumes of Waveform Data Files Using wrdb.wrsamp()

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Description

I'm trying to merge multiple waveform data (.dat) files into a single file. I'm using the wrdb.wrsamp() function for this task. The total number of files is approximately 10,000 and each one has 3 channels. I've tried several times, but every attempt results in a memory exception, requiring more than 40GB of memory. I'm unsure if I am doing something incorrect.

I've been unable to find a method to write the files incrementally. My current approach is to read each sample, combine all signals into an array, and write them. While this works fine with a small number of files, I'm having difficulties when it comes to larger datasets. Each file contains over 6 minutes of data.

Any assistance insights or suggestions on this matter would be highly appreciated.

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Research direction

Start by reproducing the reported memory exception with wrdb.wrsamp() on multiple .dat files and inspect how the current read, combine, and write flow handles the arrays. Done means establishing whether incremental writing is supported and identifying the implementation and regression test needed if it is not; the issue names no files or tests.

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Assessment

Tech stack
python
Domain
data-engineering
Issue type
Bug
Difficulty
4/5
Estimated time
3-5 days
Activity status
Stale
Clarity
Needs clarification
Newbie friendliness
25/100

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