segmentation fault with syncToSynapse


Reported running:

"The upload starts but randomly stops and return : Segmentation fault (core dumped)"


operating system : linux(ubuntu)
client: python3
Synapse client 1.7.2


Kenneth Daily
August 17, 2017, 6:06 PM


"I want to stress again that the upload starts but unexpectedly and randomly stops.
I haven't tried yet with python2. I will try later today. I think the easiest would be to split the manifest in smaller chunks.

My guess is the connection reset after a certain amount of time, that's why I am getting the segmentation fault. Keep in mind that I am uploading 1TB of data just for EpiMap."

Larsson Omberg
August 17, 2017, 5:33 PM

Do you have any more information?

It sounds like a missconfigured install of underlying package (e.g. pandas or numpy). I have seen this when numpy is compiled against the wrong lapack library for example. Can you have them perform a simple import and from python

If that fails, they need to get their sys-admin to reinstall pandas.

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Jordan Kiang


Kenneth Daily