If you happen to see a question you know the answer to, please do chime in and help your fellow community members. We encourage our fourm members to be more involved, jump in and help out your fellow researchers with their questions. GATK forum is a community forum and helping each other with using GATK tools and research is the cornerstone of our success as a genomics research community.We appreciate your help!
Test-drive the GATK tools and Best Practices pipelines on Terra
Check out this blog post to learn how you can get started with GATK and try out the pipelines in preconfigured workspaces (with a user-friendly interface!) without having to install anything.
Mutect Error / warning message
I see a warning message (mentioned below) at the end of every mutect run - could someone tell me what it means and if it really affects the mutect run ?
WARN 13:40:19,000 RestStorageService - Error Response: PUT '/GATK_Run_Reports/ATv75XCLzx6dlIqoQfSoVHT34uGT58BE.report.xml.gz' -- ResponseCode: 403, ResponseStatus: Forbidden, Request Headers: [Content-Length: 400, Content-MD5: iBOLwuniyHaSqZwJL5Dy5A==, Content-Type: application/octet-stream, x-amz-meta-md5-hash: 88138bc2e9e2c87692a99c092f90f2e4, Date: Tue, 29 Jul 2014 05:40:17 GMT, Authorization: AWS AKIAJXU7VIHBPDW4TDSQ:BNzzu1dX1hGy38yNCjTGxKEV6Lk=, User-Agent: JetS3t/0.8.1 (Linux/2.6.32-358.2.1.el6.x86_64; amd64; en; JVM 1.6.0_24), Host: s3.amazonaws.com, Expect: 100-continue], Response Headers: [x-amz-request-id: 5411B079C3E90B86, x-amz-id-2: TMNJEETV91DLxw505rJv7bGyo9NxW6ZOon6OvppoNZoJIVX9495ulNyIcw2FpF9G, Content-Type: application/xml, Transfer-Encoding: chunked, Date: Tue, 29 Jul 2014 05:40:18 GMT, Connection: close, Server: AmazonS3]