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weizhouUMICH / SAIGE

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Error Message: Error in setSAIGEobjInCPP(t_XVX = obj.model$obj.noK$XVX, t_XXVX_inv = obj.model$obj.noK$XXVX_inv #418

Open Jeffleecy opened 1 year ago

Jeffleecy commented 1 year ago

Recently, we used SAIGE-GENE to perform rare variant association testing. We successfully output the association testing results of chromosome 1 to chromosome 12 and chromosome 23. However, when we ran chrom=13, it failed. No matter how we adjusted our input files, the software execution was halted. (it also failed on chromosomes 14 to 22. all with the same error message as below)

The error message is as follows:

Reading bim file.... Reading fam file.... Setting position of samples in PLINK files.... Error in setSAIGEobjInCPP(t_XVX = obj.model$obj.noK$XVX, t_XXVX_inv = obj.model$obj.noK$XXVX_inv, : Not compatible with requested type: [type=NULL; target=double]. Calls: SPAGMMATtest -> setSAIGEobjInCPP Execution halted

Hope you could help us. Thank you!

nm15336 commented 11 months ago

Did you fix this @Jeffleecy ? I have the same issue for chromosomes 16-22, but 1-15 run fine :)

Jeffleecy commented 11 months ago

Not yet, they did not reply me. maybe you could ask them via email again.

On Wed, Aug 2, 2023 at 10:04 AM Nance @.***> wrote:

Did you fix this @Jeffleecy https://github.com/Jeffleecy ? I have the same issue for chromosomes 16-22, but 1-15 run fine :)

— Reply to this email directly, view it on GitHub https://github.com/weizhouUMICH/SAIGE/issues/418#issuecomment-1662273773, or unsubscribe https://github.com/notifications/unsubscribe-auth/ATHP6GJ5EKG5O4ZOLRYCYK3XTJM57ANCNFSM6AAAAAATAQO7A4 . You are receiving this because you were mentioned.Message ID: @.***>