* using log directory ‘/data/blackswan/ripley/R/packages/tests-devel/contact.Rcheck’
* using R Under development (unstable) (2022-10-14 r83104)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* checking for file ‘contact/DESCRIPTION’ ... OK
* this is package ‘contact’ version ‘1.2.8’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘contact’ can be installed ... [23s/23s] OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [51s/51s] OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [67s/67s] OK
* checking examples with --run-donttest ... [95s/99s] ERROR
Running examples in ‘contact-Ex.R’ failed
The error most likely occurred in:

> ### Name: socialEdges
> ### Title: Identify Edges in Social Networks
> ### Aliases: socialEdges
> ### Keywords: network-analysis social-network
> 
> ### ** Examples
> 
> ## No test: 
> data(calves) #load data
> 
> calves.dateTime<-datetime.append(calves, date = calves$date,
+                                  time = calves$time) #add dateTime column
> 
> calves.agg<-tempAggregate(calves.dateTime, id = calves.dateTime$calftag,
+                        dateTime = calves.dateTime$dateTime, point.x = calves.dateTime$x,
+                        point.y = calves.dateTime$y, secondAgg = 300, extrapolate.left = FALSE,
+                        extrapolate.right = FALSE, resolutionLevel = "reduced", parallel = FALSE,
+                        na.rm = TRUE, smooth.type = 1) #aggregate to 5-min timepoints
> 
> calves.dist<-dist2All_df(x = calves.agg, parallel = FALSE,
+                        dataType = "Point", lonlat = FALSE) #calculate  inter-calf distances
> 
> calves.contact.block<-contactDur.all(x = calves.dist, dist.threshold=1,
+                        sec.threshold=10, blocking = TRUE, blockUnit = "hours", blockLength = 1,
+                        equidistant.time = FALSE, parallel = FALSE, reportParameters = TRUE)
> 
> emp.summary <- summarizeContacts(calves.contact.block, 
+                                  importBlocks = TRUE) #empirical contact summ.
> emp.potential <- potentialDurations(calves.dist, blocking = TRUE, 
+                                     blockUnit = "hours", blockLength = 1, 
+                                     distFunction = "dist2All_df") 
> 
> calves.agg.rand<-randomizePaths(x = calves.agg, id = "id",
+                        dateTime = "dateTime", point.x = "x", point.y = "y", poly.xy = NULL,
+                        parallel = FALSE, dataType = "Point", numVertices = 1, blocking = TRUE,
+                        blockUnit = "mins", blockLength = 20, shuffle.type = 0, shuffleUnit = NA,
+                        indivPaths = TRUE, numRandomizations = 2) #randomize calves.agg
> 
> calves.dist.rand<-dist2All_df(x = calves.agg.rand, point.x = "x.rand",
+                        point.y = "y.rand", parallel = FALSE, dataType = "Point", lonlat = FALSE)
> 
> calves.contact.rand<-contactDur.all(x = calves.dist.rand,
+                        dist.threshold=1, sec.threshold=10, blocking = TRUE, blockUnit = "hours",
+                        blockLength = 1, equidistant.time = FALSE, parallel = FALSE,
+                        reportParameters = TRUE) #NULL model contacts (list of 2)
> 
> rand.summary <- summarizeContacts(calves.contact.rand, avg = TRUE,
+                                   importBlocks = TRUE) #NULL contact summary
> rand.potential <- potentialDurations(calves.dist.rand, blocking = TRUE, 
+                                      blockUnit = "hours", blockLength = 1, 
+                                      distFunction = "dist2All_df") 
> 
> CC1 <-contactCompare_chisq(x.summary = emp.summary, y.summary = rand.summary, 
+                      x.potential = emp.potential, y.potential = rand.potential,
+                      importBlocks = FALSE, shuffle.type = 0, 
+                      popLevelOut = TRUE, parallel = FALSE) #no blocking
> 
> socEdges <- socialEdges(x = CC1[[1]], alpha = 0.05, weight = NULL, 
+                      removeDuplicates = TRUE)
Error in { : task 1 failed - "level sets of factors are different"
Calls: socialEdges -> unlist -> %do% -> <Anonymous>
Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking re-building of vignette outputs ... [43s/45s] OK
* checking PDF version of manual ... [9s/13s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* checking for new files in some other directories ... OK
* DONE

Status: 1 ERROR
See
  ‘/data/blackswan/ripley/R/packages/tests-devel/contact.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 5:48.23, 320.29 + 14.65