qpadm with single sample - is it possible to run?

[Esha Bandyopadhyay]

Hello Dr.Patterson,

I am trying to run qpadm on a single ancient sample (that is pseudohaploid). I am using that as my target.

My .par file looks like this:
genotypename: file.geno
snpname: file.snp
indivname: file.ind
popleft: left.pops
popright: right.pops
allsnps: YES
details: YES
inbreed : YES
oldallsnpsmode: NO

My left and right population files, have one population per line

When I submit this par file for the run, I am getting:

fatalx:
pop: SampleA has sample size 1 and inbreed set
sh: line 1: 96340 Aborted qpfstats -p /tmp/ppp.96308 > /tmp/fslog.96308
/var/spool/torque/mom_priv/jobs/31750267.cri16sc001.SC: line 16: 96308 Segmentation fault

Therefore, I wanted to kindly know if it is possible to run qpadm on a single sample taken as a target?

Thanking You,
Esha

[bumblenick]

Dear Esha qpAdm only uses f4 stats; Code inbreed: NO (although this is kinda a lie) and all should be well. Nick Nick

…

On Fri, Nov 12, 2021 at 1:20 PM Esha Bandyopadhyay ***@***.***> wrote: Hello Dr.Patterson, I am trying to run qpadm on a single ancient sample (that is pseudohaploid). I am using that as my target. My .par file looks like this: genotypename: file.geno snpname: file.snp indivname: file.ind popleft: left.pops popright: right.pops allsnps: YES details: YES inbreed : YES oldallsnpsmode: NO My left and right population files, have one population per line When I submit this par file for the run, I am getting: fatalx: pop: SampleA has sample size 1 and inbreed set sh: line 1: 96340 Aborted qpfstats -p /tmp/ppp.96308 > /tmp/fslog.96308 /var/spool/torque/mom_priv/jobs/31750267.cri16sc001.SC: line 16: 96308 Segmentation fault Therefore, I wanted to kindly know if it is possible to run qpadm on a single sample taken as a target? Thanking You, Esha — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#86>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AEE77B4NPYKUY4DICWSDVX3ULVLFBANCNFSM5H5NIR5A> . Triage notifications on the go with GitHub Mobile for iOS <https://apps.apple.com/app/apple-store/id1477376905?ct=notification-email&mt=8&pt=524675> or Android <https://play.google.com/store/apps/details?id=com.github.android&referrer=utm_campaign%3Dnotification-email%26utm_medium%3Demail%26utm_source%3Dgithub>.

[Esha Bandyopadhyay]

Dear Dr.Patterson,

It worked! Thank you so much.

Sincerely,
Esha