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[bioontology-support] parsing error

Holt, Jonathan jonathan.holt at Vanderbilt.Edu
Wed Jan 9 15:43:20 PST 2013

I tried to do the ruby import script with my apikey.  That didn't work so I tried downloading it directly from bio portal and uploading the zip folder . Same result .


Sent from my iPhone.

On Jan 9, 2013, at 5:15 PM, "Paul R Alexander" <palexander at<mailto:palexander at>> wrote:


Can you tell me what file you uploaded for IC9CM? Was it a zip file containing multiple RRF files?


On Jan 9, 2013, at 3:04 PM, "Holt, Jonathan" <jonathan.holt at Vanderbilt.Edu<mailto:jonathan.holt at Vanderbilt.Edu>> wrote:

I have recently tried to get my ncbo virtual appliance back up and running.

So, I tried to import some ontologies from the bioportal to my own hosted vm, but got a parsing error.

I also tried to manually and still got a java error.

see attached.

Any thoughts?


<Screen Shot 2013-01-09 at 4.59.24 PM.png>

<Screen Shot 2013-01-09 at 2.18.41 PM.png><Screen Shot 2013-01-09 at 4.59.08 PM.png>

Jonathan Holt, DO, MS

Assistant Professor of Biomedical Informatics and Medicine
Departments of Biomedical Informatics & Medicine, Division of Genetic Medicine
Vanderbilt University Medical Center
2209 Garland Ave
412 Eskind Biomedical Library
Nashville, TN  37232-8340
Phone:  615-322-8683
Fax: 615-936-1427

jonathan.holt at<mailto:jonathan.holt at>

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