Dear Liam and the phylo community, I was able to solve the problem by first writing the tree to a file and then importing it back into R. The error may have occurred because I ladderized the tree at some point. Although the simmap worked, the ltt did not. The problem is solved temporarily.
Best wishes Ting-Wen -- Ph.D. Ting-Wen Chen Animal Ecology (AG Scheu) J.F. Blumenbach Institute of Zoology and Anthropology Georg August Universität Göttingen Untere Karspüle 2 D-37073 Göttingen, Germany https://www.uni-goettingen.de/en/348915.html Liam J. Revell <[email protected]> 於 24.09.2024 02:13 寫道： Dear Ting-Wen. Can you send me a minimal reproducible example of this error? Feel free to do so off-list. All the best, Liam Liam J. Revell Professor of Biology, University of Massachusetts Boston Web: http://faculty.umb.edu/liam.revell/ Book: Phylogenetic Comparative Methods in R<https://press.princeton.edu/books/phylogenetic-comparative-methods-in-r> (Princeton University Press, 2022) On 9/23/2024 7:37 PM, Chen, Ting-Wen wrote: [You don't often get email from [email protected]<mailto:[email protected]>. Learn why this is important at https://aka.ms/LearnAboutSenderIdentification ] CAUTION: EXTERNAL SENDER Dear colleagues, I am plotting a lineages-through-time figure from 100 stochastic character maps (i.e. simmap) using the ltt() function of the phytools package, to show the reconstructed accumulation of lineages in different habitats (regimes). However, I am getting an error: “Error in while (currnode != rt) { : argument is of length zero”. Could anyone please give me some hints where the error is and how to solve the problem? Thanks a lot and have a nice day! All the best Ting-Wen -- Ph.D. Ting-Wen Chen Animal Ecology (AG Scheu) J.F. Blumenbach Institute of Zoology and Anthropology Georg August Universität Göttingen Untere Karspüle 2 D-37073 Göttingen, Germany https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.uni-goettingen.de%2Fen%2F348915.html&data=05%7C02%7Cliam.revell%40umb.edu%7Cbf953894ee5a4ba59b6908dcdc28b0a5%7Cb97188711ee94425953c1ace1373eb38%7C0%7C0%7C638627314545954910%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C0%7C%7C%7C&sdata=QaFlZsY%2BdiwNJ1rLZstqNmRr2xh%2F%2BWLZ5tV402tlv40%3D&reserved=0<https://www.uni-goettingen.de/en/348915.html> [[alternative HTML version deleted]] _______________________________________________ R-sig-phylo mailing list - [email protected]<mailto:[email protected]> https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fr-sig-phylo&data=05%7C02%7Cliam.revell%40umb.edu%7Cbf953894ee5a4ba59b6908dcdc28b0a5%7Cb97188711ee94425953c1ace1373eb38%7C0%7C0%7C638627314545969888%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C0%7C%7C%7C&sdata=d9m1yVS3%2B0y2X7WRaDH9qkenYDMKpo0ErGMeSuYCAcU%3D&reserved=0<https://stat.ethz.ch/mailman/listinfo/r-sig-phylo> Searchable archive at https://nam10.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.mail-archive.com%2Fr-sig-phylo%40r-project.org%2F&data=05%7C02%7Cliam.revell%40umb.edu%7Cbf953894ee5a4ba59b6908dcdc28b0a5%7Cb97188711ee94425953c1ace1373eb38%7C0%7C0%7C638627314545977191%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C0%7C%7C%7C&sdata=AVb1hHLnVysHivILh0g%2FW2atqTnI75XMiRAjPemyOpE%3D&reserved=0<http://www.mail-archive.com/[email protected]/> [[alternative HTML version deleted]] _______________________________________________ R-sig-phylo mailing list - [email protected] https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://www.mail-archive.com/[email protected]/
