[ensembl-dev] "Use of uninitialized value in split at .vep/Plugins/LoF.pm" Error Messages

Konrad Karczewski konradk at broadinstitute.org
Thu Mar 10 17:05:56 GMT 2016

Hi Wei,

We've had this issue sporadically as well, but we have not yet been able to pinpoint the variants that cause this error. It's on our todo list to fix, but it seems rare enough and hasn't been prominent enough to get noticed in any manual inspections that we do.

On that note, Ensembl dev folk/Will, is there a way in VEP to provide a bit more error logging? I should have asked this a long time ago, but it would be great to have a logging level that would print which variant an error happens on.


On March 10, 2016 at 11:57:21 AM, Wei Zhao (mikezhaow at gmail.com) wrote:

Dear LOFTEE plugin developers,

I met with this error message when I was using the LOFTEE plugin:

"Use of uninitialized value in split at .vep/Plugins/LoF.pm line 378"

Both VEP and LOFTEE ran smoothly without a problem.  But I just saw this error message in the error files returned by our clusters' queuing system.  Just want to know if this is something I should worry about.  Thank you for your kind help!

I am currently using VEP v83 and Perl v5.20.1.

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