GATK 4.1.1.0 GenomicsDBImport error : Duplicate fields exist in vid attribute "fields" and The provided VCF file is malformed at approximately and there aren't enough columns for line

Comments

13 comments

  • Sushma Chaluvadi

    Hello Wonton!

    This looks like a GATK question that is best posted on the GATK forum so you can get the appropriate help!

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  • Wonton

    Dear Sushma Chaluvadi,

    Thank you. Yes, it is a GATK question. But I and my colleagues can not find where to post question on GATK forum recently. Would you please tell us if the question page is ok and where is it? Thank you very much.

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  • Sushma Chaluvadi

    Hello,

    Here is the link to the forum. You may need to sign in and/or register if you have not done so before. https://gatkforums.broadinstitute.org/gatk/categories/ask-the-team

     

     

    In the above screenshot you can see there is a "Ask a Question" button on the left-hand side where you can click to post your question.

    Hope this helps.

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  • Wonton

    Dear Sushma Chaluvadi,

    Thank you very much for your quickly help. My page is different that there is no "Ask a Question" button while I have signed in. My account is a new one but my colleagues' have been used for a long time. Is it possiblly because we are in Macau?

    Thank you very much for you kindly help.

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  • Sushma Chaluvadi

    Hello,

    You should be able to post now - I manually accepted your new application to post on the forum :)

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  • Wonton

    Hello,

    Thank you. I received the "Membership Approved" email. But the page on the GATK forum is same without "Ask a Question". By the way, I tryed re-sign in. Thank you very much for your help.

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  • Wonton

    Hello,

    By the way, I tried with two browers including Google Chrome and there is also no ""Ask a Question". Thank you very much.

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  • Sushma Chaluvadi

    No problem, I can post your question for you if you are unable to post it yourself within a few hours and you should get a reply from one of the GATK team members soon!

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  • Wonton

    Dear Sushma Chaluvadi,

    I understand. Thank you very much for your kindly help. :)

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  • Bhanu Gandham

    Hi Wonton,

     

    Are you still seeing this error? If yes, would you please post this question in the GATK forum, in order to enable the GATK dev team to view this error.

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  • Wonton

    Dear Bhanu Gandham,

    Yes, the error is still there. And I can't post question in the GATK forum through my GATK account because there is no "Ask a Question" button after I log in. Thank you.

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  • Bhanu Gandham

    Hi Wonton,

     

    Can you try again now please.

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  • Wonton

    Dear Bhanu Gandham,

    Thank you. I can post question through my account in the GATK forum now. I posted this question to it. Thank you very much for your hlep. :)

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