IndexError: list index out of range for local rg
nenduru1 opened this issue · 4 comments
Hi,
for some chromosomes i ma getting the below error for local rg. please provide your input.
[INFO] 204309 SNPs read from reference panel
[INFO] Loaded 286860 SNPs with rs IDs and single-letter alleles on chromosome 19 from the GWAS summary data file
[INFO] 160989 SNPs left after filtering
Traceback (most recent call last):
File "/data2/nenduru/software/hess-0.5.4-beta/hess-0.5.4-beta/hess.py", line 217, in
main()
File "/data2/nenduru/software/hess-0.5.4-beta/hess-0.5.4-beta/hess.py", line 45, in main
argmap['out'])
File "/data2/nenduru/software/hess-0.5.4-beta/hess-0.5.4-beta/src/estimation.py", line 391, in local_rhog_step1
sumstats2 = SumStats(sumstats_fnm[1], chrom)
File "/data2/nenduru/software/hess-0.5.4-beta/hess-0.5.4-beta/src/sumstats.py", line 113, in init
idx = idx_map[name]; val = cols[idx]
IndexError: list index out of range
thanks,
Nitesh
Hello, can you provide some guidance on addressing this issue? I've encountered the same question as well.
Hello, can you provide some guidance on addressing this issue? I've encountered the same question as well.
Have you found a solution yet? I have the same problem.
Hi, for some chromosomes i ma getting the below error for local rg. please provide your input.
[INFO] 204309 SNPs read from reference panel [INFO] Loaded 286860 SNPs with rs IDs and single-letter alleles on chromosome 19 from the GWAS summary data file [INFO] 160989 SNPs left after filtering Traceback (most recent call last): File "/data2/nenduru/software/hess-0.5.4-beta/hess-0.5.4-beta/hess.py", line 217, in main() File "/data2/nenduru/software/hess-0.5.4-beta/hess-0.5.4-beta/hess.py", line 45, in main argmap['out']) File "/data2/nenduru/software/hess-0.5.4-beta/hess-0.5.4-beta/src/estimation.py", line 391, in local_rhog_step1 sumstats2 = SumStats(sumstats_fnm[1], chrom) File "/data2/nenduru/software/hess-0.5.4-beta/hess-0.5.4-beta/src/sumstats.py", line 113, in init idx = idx_map[name]; val = cols[idx] IndexError: list index out of range
thanks, Nitesh
Have you found a solution yet? I have the same problem.
Hi, for some chromosomes i ma getting the below error for local rg. please provide your input.
[INFO] 204309 SNPs read from reference panel [INFO] Loaded 286860 SNPs with rs IDs and single-letter alleles on chromosome 19 from the GWAS summary data file [INFO] 160989 SNPs left after filtering Traceback (most recent call last): File "/data2/nenduru/software/hess-0.5.4-beta/hess-0.5.4-beta/hess.py", line 217, in main() File "/data2/nenduru/software/hess-0.5.4-beta/hess-0.5.4-beta/hess.py", line 45, in main argmap['out']) File "/data2/nenduru/software/hess-0.5.4-beta/hess-0.5.4-beta/src/estimation.py", line 391, in local_rhog_step1 sumstats2 = SumStats(sumstats_fnm[1], chrom) File "/data2/nenduru/software/hess-0.5.4-beta/hess-0.5.4-beta/src/sumstats.py", line 113, in init idx = idx_map[name]; val = cols[idx] IndexError: list index out of range
thanks, Nitesh
Have you found a solution yet? I have the same problem.