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genepi / imputationserver2

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Unable to find snps-excluded.txt file #27

Closed tlawler2 closed 2 weeks ago

tlawler2 commented 2 weeks ago

Hello,

I am attempting to use the server now that it has finished updates. In my recent attempt, my job failed during the quality control process (expected due to strand flips, allele switches), but I was unable to locate the snps-excluded.txt file. I need this file in order to correct the aberrant SNPs. Is anyone else having this problem? I think that the file was not created. Thank you to anyone who can help.

seppinho commented 2 weeks ago

Thanks for reporting. This is a bug on our side and we are already working on a fix.

seppinho commented 2 weeks ago

We have just deployed a new version. You should now see the QC statistics. Thanks for reporting this issue!

tlawler2 commented 2 weeks ago

It works! Thanks for your attention to this issue.

-Tom

From: Sebastian Schönherr @.> Sent: Friday, September 27, 2024 2:16 PM To: genepi/imputationserver2 @.> Cc: THOMAS PATRICK LAWLER @.>; Author @.> Subject: Re: [genepi/imputationserver2] Unable to find snps-excluded.txt file (Issue #27)

We have just deployed a new version. You should now see the QC statistics. Thanks for reporting this issue!

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seppinho commented 2 weeks ago

Great! If you have scripts for fixing the issues (or using the W. Rayner tool), please let us know so we can share it with the community on our help page.