Nested communityPGLMM error in random effects about pez HOT 3 OPEN

______________ Anthony R. Ives UW-Madison 459 Birge Hall 608-262-1519 From: Kelly Speer <[email protected]> Reply-To: willpearse/pez <[email protected]> Date: Monday, March 25, 2019 at 2:30 PM To: willpearse/pez <[email protected]> Cc: Subscribed <[email protected]> Subject: [willpearse/pez] Nested communityPGLMM error in random effects (#70) Hi! I'm trying to run a PGLMM using 5 random effects, one of which is nested. However, I keep receiving the below error: Error in chol.default(re.i[[3]]) : the leading minor of order 3 is not positive definite After sequentially removing the other random effects, the single nested random effect is the one causing the error (it is the 3rd in the list of 5, which is what I assume re.i[[3]] indicates). I looked through stack overflow and found that this error can mean that the matrix you provided is not square. The random effect is below: r.intercept.bacphy_bf<-list(1, sp=dat$Genus, covar=Vphy, site=dat$Sample) There is no missing data and I checked that sp and site are the same length, so I don't see why they asymmetrical. Is there some other meaning to this error? Or am I missing something about the input format required for nested random effects? Thanks for any insight! Kelly — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub<#70>, or mute the thread<https://github.com/notifications/unsubscribe-auth/ALF_LL5Q7AFFn9MkhII8fInp7P5hej4Rks5vaSPagaJpZM4cIoYR>.