Entering edit mode
3.5 years ago
wes
▴
90
May I know how to solve the error below?
define_clusters_by_cutting_tree.pl -R fruit_DE_Unigenes.matrix.RData --Ptree 60
CMD: Rscript __tmp_define_clusters.R
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: ‘BiocGenerics’
The following objects are masked from ‘package:parallel’:
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from ‘package:stats’:
IQR, mad, sd, var, xtabs
The following objects are masked from ‘package:base’:
anyDuplicated, append, as.data.frame, basename, cbind, colnames,
dirname, do.call, duplicated, eval, evalq, Filter, Find, get, grep,
grepl, intersect, is.unsorted, lapply, Map, mapply, match, mget,
order, paste, pmax, pmax.int, pmin, pmin.int, Position, rank,
rbind, Reduce, rownames, sapply, setdiff, sort, table, tapply,
union, unique, unsplit, which, which.max, which.min
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Attaching package: ‘fastcluster’
The following object is masked from ‘package:stats’:
hclust
Error in UseMethod("as.dendrogram") :
no applicable method for 'as.dendrogram' applied to an object of class "NULL"
Calls: heatmap.3 -> as.dendrogram
Execution halted
Error, cmd Rscript __tmp_define_clusters.R died with ret 256 at /home/cbr01/anaconda3/envs/wee_bfx/bin/define_clusters_by_cutting_tree.pl line 213
I ran into the same exact error. Did you figure out?, thanks!
The error is caused by R trying to use
as.dendrogram()on a NULL object. Please explain more about the environment in which you are running this command. It looks like conda, granted, but which version of perl? Can you link to the program that you are using? What is the output of: