For loop

[ryobon-dev]

Hi,

I put the three vcf files , A. vcf, B.vcf, C.vcf, in one folder and ran fast-lineage-caller.
The command I put was in below.

for i in ls |grep ".vcf"; do
fast-lineage-caller A.vcf --noheader
done >> results.tsv

The obtained result was attached. It showed the result only with A.

I am not familiar with the for loop. Could you please let me know what is the wrong in the loop command ?

[ryobon-dev]

Sorry I forgot to attach the result file.

Hope I can get your response.
results.txt

[ryobon-dev]

Sorry for bothering you but I found another issue.

It seems like that the attached vcf format does not fit the fast-lineage-caller. Could you please check it ?

Anyway, I changed the extension from tsv to txt so that I can attache the file.

C.txt

[ryobon-dev]

Sorry but you can forget my question about vcf format. The file I used was obviously wrong.
With the correct format, fast-lineage-caller worked well !