Error 006

[prashanna balaji]

Hello Fuma team

I am constantly receiving this: 
FUMA an error occurred

This is unfortunate! An error occurred during the process of your job (job ID: 564314).
ERROR:006

Error from lead SNPs and candidate SNPs identification. This error can occur because:

1. Invalid input parameters or
2. Columns are mistakenly labelled wrong.

Please make sure your input file has the correct column names.

I think the column names are correct and so are the input parameters. e.g.: 

chromosome      base_pair_location      effect_allele   other_allele    beta    standard_error  p_value
10      100000012       A       G       0.1719  0.2876  0.5501
10      10000010        T       C       -0.0329 0.0556  0.5536
10      100000122       A       T       -0.0632 0.3363  0.8509
10      10000018        G       A       -0.0088 0.0109  0.4206
10      10000030        C       A       0.0991  0.2386  0.6778
10      10000033        A       G       0.1413  0.2353  0.5483
10      100000554       AT      A       0.0359  0.0211  0.08946
10      100000588       C       T       0.0379  0.2435  0.8764

Can you kindly help me out? 

Regards

[Tanya Phung]

Hello, 

Please send your input file to fuma....@gmail.com so we can take a look at what might be the problem. 

Best,
Tanya

[prashanna balaji]

I've sent the data via google drive. Thank you.

[Tanya Phung]

Hello, 

Thank you for sending. The issue is that when you submitted your file to FUMA, you indicated that the effect allele column is called effect_allele and the non effect allele column is called other_allele. However, for a lot of these variants, the alleles are NA: 

NA is not an accepted values for alleles. 

This question was actually answered previously here: 

https://groups.google.com/g/fuma-gwas-users/c/gllGk4aTc84/m/ne2GR3X1AQAJ

Please make sure that you followed the response I posted there and try your best to fix your file.
Best,
Tanya

[prashanna balaji]

Thanks a ton for promptly getting back on this, Tanya! 

Regards

Balaji

PS: I'm not sure if you guys are already working on this, but it may help to have a user accessible tool to run a pre-check on the input file and report the exact error, instead of you spending time on it.