[ensembl-dev] variant effect predictor 2.0 question

[Mark Aquino]

Hi, 

	I've been trying to switch over to the new version of the VEP (2.x) but have been getting some strange output.  Basically, it seems like the normal output is multiplied by 4 or 5 times (or more).  For one run on an output that was 70K lines using the original variant effect predictor I got over 1 million lines of output consisting of the each transcript being analyzed and/or output 10+ times each, and on a subsequent re-run I got 330K lines of output with each being repeated 5 times.  (I checked this by doing a simple grep on the output with line numbers to ensure that there weren't just more transcripts per variation being repeated).  

Has anyone else experienced this issue?


Best,
Mark Aquino