IndexError: list index out of range for local rg

[nenduru1]

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

[DongshengWu]

Hello, can you provide some guidance on addressing this issue? I've encountered the same question as well.

[Zhangzzzzzy]

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.

[Zhangzzzzzy]

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.

[Zhangzzzzzy]

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.