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[bioontology-support] Help for the NCBO Virtual Appliance

王玥 wangyue at
Wed Mar 18 19:49:38 PDT 2015

Hi, there

I have already installed vmware and my own ncbo virtual appliance in my local server.
My local server is (1) 6 CPU (2) 12GB RAM (3) 1TB hard disk.
The vmware is about 26GB hard disk space.
And I also manually parsed the ontology, DOID, in the vmware and I can access the web page "http://the_vmware_offered_ip/annotator".
All the steps above is succeed.
But, when I use the NCBO virtual appliance to find DOID terms from mass text data using my java code request the "http://the_vmware_offered_ip/annotator", something went wrong.
Over a period of time (one day or more), the "http://the_vmware_offered_ip/annotator" could not get annotations, but the vmware looks like normal. 
However, I checked the disk capacity of vmware, it shows the 26GB hard disk space is fully used. 
What's more, when I first parsed the DOID into the vmware, it shows only 4.1GB of hard disk space is used.
Also, I find the unicorn.stderr.log, as an example, is 11GB in the path of "/var/log/unicorn"(the attachment is part of the unicorn.stderr.log), which came out when running my code.
I don't know what's wrong.
This problem confused me for few days, and it really affecting my work schedule.
So please help me. And I hope the NCBO virtual appliance can work all the time.
If you have something confused, let me know. Please keep in touch.
Thank you!


Yue Wang
School of Electronic Information and Communications
Huazhong University of Science and Technology
1037 Luoyu Road 
Wuhan, Hubei 430030, China
Emailwangyue at
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