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brown-bnc / xnat-tools

BNC Tools for accessing and processing data from XNAT
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Set up logger for Heudiconv related functions #36

Open mirestrepo opened 4 years ago

mirestrepo commented 4 years ago

Should we be using the logger for this stuff? Why are we printing instead?

Originally posted by @broarr in https://github.com/brown-bnc/xnat-tools/diffs

broarr commented 4 years ago

I want this one! I'm gonna take a crack at it this afternoon

broarr commented 4 years ago

38 is my first attempt. The heudiconv functions look a little ugly, but it does work

broarr commented 4 years ago

It's double printing things from heudiconv. Not sure why. I'll take a peek at a later point

mirestrepo commented 4 years ago

Also, I was running with Fae today and saw that logs are not printed until the processing has finished. I don't recall that behavior when I run the tests, but we should get them streaming... I wonder if there is anything different in the stdout in Oscar...

broarr commented 4 years ago

This is likely a buffering behavior from the terminal. Different OSs will do different things when it comes to buffering output. You can try export PYTHONUNBUFFERED=1

https://docs.python.org/3/using/cmdline.html#envvar-PYTHONUNBUFFERED

On Thu, Jul 16, 2020 at 5:43 PM Maria Isabel Restrepo < notifications@github.com> wrote:

Also, I was running with Fae today and saw that logs are not printed until the processing has finished. I don't recall that behavior when I run the tests, but we should get them streaming... I wonder if there is anything different in the stdout in Oscar...

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Senior Research Software Engineer Data & Visualization Center for Computation and Visualization Brown University | CIS