Segmentation fault in bcftools while changing the sample names

Question

[kumar.vinod81]

Hi, Actually I've a .vcf file containing 800 samples but the sample's names in the file are very long so I want to change them with a new file containing the new name in a txt file with following command:

bcftools reheader --samples sample_id.txt filtered_uncomp.vcf -o filtered_name_changed.vcf

but it return the following

Segmentation fault

Sample name are saved in a .txt file with one sample name in each line.

Any suggestion!

Thanks,

[Istvan Albert]

try renaming fewer (or even a single sample first) - see how that works out, if it does work then one of you names causes problems and will need to find which

[Pierre Lindenbaum]

what's the version of bcftools ?

[Alewa]

please try reorder arguments to see if it works?

bcftools reheader --samples sample_id.txt -o filtered_name_changed.vcf filtered_uncomp.vcf

Answer 1

[kumar.vinod81]

Thanks all, actually there was a white space in one of the names in sample_id.txt, I removed it and it worked fine. Even I tried to remove the post just after 5 minutes of posting it but I could not find a delete button. Thanks,