MIT-LCP / MIT-LCP/mimic-code

xyyyyyn.hea files missing in mimic3wdb-matched DB

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Description

Prerequisites
Description

Not a big issue, but a nuisance, if what I am guessing is right. Also this is an issue regarding data hosting, not about any code.

While trying to read the 'numerics' data from the 'mimic3wdb-matched' using rdsamp() , I ran into the
'Could not find record: ...'
error. I realized that this is because the corresponding header files are not present. For example for the numerics file
$base/p04/p040033/3606239n.dat
There is no matching
$base/p04/p040033/3606239n.hea

Documentation says the file names of 'mimic3wdb' and 'mimic3wdb-matched' are the same, so I downloaded the needed header files from 'mimic3wdb', and copied over to the corresponding 'mimic3wdb-matched' directory. After that rdsamp() seems to work.

Description of the issue, including:

  • what you have tried
  • references to similar issues
  • queries demonstrating your question (if applicable)

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First steps

  1. Read the whole issue, then the project's contributing guide.
  2. Comment on the issue to say you are picking it up — it saves two people doing the same work.
  3. Fork the repository and make your change on a branch.
  4. Open a pull request that references the issue number.

Research direction

Compare the listed numerics path in mimic3wdb-matched with the corresponding directory in mimic3wdb, focusing on the missing 3606239n.hea file. Check the online MIMIC documentation and use the reported rdsamp() failure to verify the mismatch. Done means the matched database contains the required header files, or the documentation clearly explains why they are absent.

Written by the indexing model from the issue text.

Assessment

Domain
databases
Issue type
Bug
Difficulty
4/5
Estimated time
3-5 days
Activity status
Stale
Clarity
Mostly clear
Newbie friendliness
30/100

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