Issue running LD Clumping: Command '['/opt/notebooks/bgen.tgz/build/apps/bgenix', '-g', 'imputed/ukb21008_c1_b0_v1.bgen', '-incl-rsids', 'rs_batch.txt']' died with <Signals.SIGABRT: 6>.

Hi,

2 days ago, I faced with same issue there: https://community.ukbiobank.ac.uk/hc/en-gb/community/posts/19421218777629-FOR-HELP-RUN-LD-Clumping ,then I created new bgen files accroding to the way you provided here :https://community.ukbiobank.ac.uk/hc/en-gb/community/posts/17179207789853-How-to-resolve-REGENIE-errors-with-GEL-and-TOPmed-BGEN-indices

Everything seemed to be going smoothly until this step:

I had all the files I need (includuing bgenix in bgen.tgz):

I have tried to use original .bgen and .bgen.bgi files, still have the same problem:

and

I don't know how to do now, really need your help, thanks!