Hi there, I am trying to use the TwoSampleMR package and ieugwasr for MR analysis and have been trying to clump SNPs using local LD file, but getting this error. I wonder if you know how it can be resolved? Thanks. E

clumped_all_exp_dat<-ld_clump(
    dplyr::tibble(rsid=x[,1], pval=x$pval_beta, id=x$phenotype_id),
    plink_bin = genetics.binaRies::get_plink_binary(),
    bfile = "/path/GWAS/EUR",
clump_r2=0.3
)

Logging to /tmp/Rtmp2j13gV/file93515a195b97.log.
Options in effect:
  --bfile /well/cartography/users/pcz760/PID/GWAS/EUR
  --clump /tmp/Rtmp2j13gV/file93515a195b97
  --clump-kb 10000
  --clump-p1 0.99
  --clump-r2 0.3
  --out /tmp/Rtmp2j13gV/file93515a195b97

385575 MB RAM detected; reserving 192787 MB for main workspace.
Allocated 19299 MB successfully, after larger attempt(s) failed.
8550156 variants loaded from .bim file.
503 people (0 males, 0 females, 503 ambiguous) loaded from .fam.
Ambiguous sex IDs written to /tmp/Rtmp2j13gV/file93515a195b97.nosex .
Using 1 thread (no multithreaded calculations invoked).
Before main variant filters, 503 founders and 0 nonfounders present.
Calculating allele frequencies... done.
8550156 variants and 503 people pass filters and QC.
Note: No phenotypes present.
Warning: No significant --clump results.  Skipping.
Error in file(file, "rt") : cannot open the connection
In addition: Warning messages:
1: In format_data(random_df, type = "exposure", phenotype_col = "phenotype",  :
  The following columns are not present but are helpful for harmonisation
eaf

2: In file(file, "rt") :
  cannot open file '/tmp/Rtmp2j13gV/file93515a195b97.clumped': No such file or directory