I’m getting this mismatch error with summary.single, remove.groups and sub.smaple. Interestingly, when I use the count.groups, it says the samer error, hwoever, when I go down the list to the V3.1 it says the sample contains 0 seqs. Not sure what to do!
mothur > count.groups(shared = seville_af.good.pick.unique.good.filter.unique.precluster.denovo.vsearch.pick.pick.opti_mcc.shared)
[ERROR] : group V3.1 contains otu data for 149415 otus, but your sharedfile indicates you have 138121 otus. Please correct.
mothur > summary.single(shared = seville_af.good.pick.unique.good.filter.unique.precluster.denovo.vsearch.pick.pick.opti_mcc.shared, calc=nseqs-coverage-sobs-shannon, subsample=1413)
[ERROR] : group V3.1 contains otu data for 149415 otus, but your sharedfile indicates you have 138121 otus. Please correct.
Cneg1PFP contains 950. Eliminating.
Cneg4PFP contains 31. Eliminating.
PCRneg1 contains 80. Eliminating.
PCRneg2 contains 32. Eliminating.
PCRneg3 contains 31. Eliminating.
PCRneg4 contains 420. Eliminating.
Q4 contains 480. Eliminating.
V3.1 contains 0. Eliminating.
[ERROR]: requesting groups not present in files, aborting.
mothur > sub.sample(shared=seville_af.shared, size=1413)
[ERROR] : group V3.1 contains otu data for 149415 otus, but your sharedfile indicates you have 138121 otus. Please correct.