The sample is in the VCF but not assigned in the SETS.txt

[ScooLida]

Hi!
I can't understand. I have file like this.
Why Dsuite can't find sample. SAmple is in same directory as SETS.txt file
1k.sort.bam tanaicus
5k.sort.bam tanaicus
3k.sort.bam tanaicus
SRR10012547.sort.bam europaeus
SRR17908653.sort.bam europaeus
SRR12518920.sort.bam europaeus
SRR17908654.sort.bam europaeus
SRR10011655.sort.bam europaeus
SRR6485265.sort.bam americanus
SRR11020211.sort.bam americanus
..
/mss_users/ltursunova/cow/new2/och.fasta Outgroup

Error
Did not find the sample: "mss_users/ltursunova/cow/new2/och.fasta"
1k,5k,SRR10012547,SRR11020211,SRR17044867,SRR17908655,SRR5949621,SRR5949630,SRR6485240,SRR6485284,3k,SRR10082089,SRR11020300,SRR17908653,SRR5949623,SRR5949632,SRR10011655,SRR10082097,SRR12518920,SRR17908654,SRR17908659,SRR5949624,SRR5949634,SRR6485281
Did not find any samples in the VCF for "Outgroup"
Dsuite: Dsuite_common.cpp:28: void SetInformation::linkSetsAndVCFpositions(const std::vector<std::__cxx11::basic_string >&): Assertion `!spPos.empty()' failed.
Aborted (core dumped)

[wuyh0328]

I have the same problem. Have you solved it?

[ScooLida]

I have the same problem. Have you solved it?

Yes, there is two mistake. Outgroup also must be in .bam file, not .fasta.
And I don't have to write .sort.bam. For list number and group is enough.

1k tanaicus
5k tanaicus

[wuyh0328]

But I don't have either of those mistakes. It still can't find a sample. Do you know how to solve it?

[ScooLida]

But I don't have either of those mistakes. It still can't find a sample. Do you know how to solve it?

Do you have this sample at all(MDe2A)? Cheсk your data

[wuyh0328]

Thank you! YES,You can see it in the sample list below。(I use the module Dquartets).

[ScooLida]

Thank you! YES,You can see it in the sample list below。(I use the module Dquartets).

May be MDe2A appears twice in sets. There's nothing more I can help

[wuyh0328]

Ok, thank you very much. I will check again.

[wuyh0328]

Thank you! YES,You can see it in the sample list below。(I use the module Dquartets).

May be MDe2A appears twice in sets. There's nothing more I can help

I seem to have found the problem. In my SETS.txt file, there are Spaces after the sample ID.