Question: Sg-Adviser Exception In Thread "Pool-2-Thread-1" Java.Lang.Arrayindexoutofboundsexception
0
gravatar for vlad1
6.0 years ago by
vlad10
United States
vlad10 wrote:

it returns error when I try to open native genome annotation file with suggested coding and splising variant filter

C:\Users\vmorozov>java -showversion java version "1.7.0_06" Java(TM) SE Runtime Environment (build 1.7.0_06-b24) Java HotSpot(TM) 64-Bit Server VM (build 23.2-b09, mixed mode)

C:\downloads\SG-Adviser_UI\SG-Adviser_UI>java -Xmx6g -jar SG-ADVISER_UI_1.6_5.ja r File size is: 981963108352 SG-Adviser UI_1.6_5 Filelenght is: 5619251200 File lenght in gb is 5.0 Filelenght is: 5619251200 Exception in thread "pool-2-thread-1" java.lang.ArrayIndexOutOfBoundsException: 12 at ScrippsGenomeAdviserUI.FilterFunctions.prefilter(FilterFunctions.java :1465) at ScrippsGenomeAdviserUI.FilterFunctions.run(FilterFunctions.java:2211)

    at java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source)
    at java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source)
    at java.lang.Thread.run(Unknown Source)
• 3.9k views
ADD COMMENTlink modified 6.0 years ago by Biostar ♦♦ 20 • written 6.0 years ago by vlad10
2
gravatar for galina.erikson
6.0 years ago by
Salk Institute, La Jolla
galina.erikson70 wrote:

Hi vmmorozov,

I'm the developer of the SG-ADVISER UI and I will attempt to help you with this problem. The tool is created to accept only SG Adviser annotated files. One of the problems might be that you tried to insert something else other then a file annotated by SG Adviser (vcf, masterVar). Can you please sent me the header line plus the first few lines in the file you attempted to insert into the tool? To annotate your file using sg-adviser you will have to create an username and upload the file through the web. If you don't have a *.edu email address please PM me your email and I can create an account for you. Once you get the SG Adviser annotated file you can then use the UI to filter and analyze your file.

Thank you,

-Galina

ADD COMMENTlink written 6.0 years ago by galina.erikson70
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 2643 users visited in the last hour