Running examples in ‘incgraph-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: incgraph
> ### Title: IncGraph: incremental graphlet counting for network optimisation
> ### Aliases: incgraph incgraph-package
> 
> ### ** Examples
> 
> # Create a new (empty) network with 4 nodes
> net <- new.incgraph.network(amnt.nodes = 4)
> 
> # Create a new network with 4 nodes and some edges
> net <- new.incgraph.network(links = matrix(c(1, 2, 2, 3, 1, 4), ncol=2))
> 
> # Create a new network with 10 nodes and some edges
> net <- new.incgraph.network(amnt.nodes = 10, links = matrix(c(1, 2, 2, 3, 1, 4), ncol=2))
> 
> # Create a more complex network from a matrix
> mat <- matrix(c(1, 2,
+                 1, 3,
+                 1, 4,
+                 1, 5,
+                 1, 6,
+                 1, 7,
+                 2, 7,
+                 2, 8,
+                 2, 9,
+                 2, 10), ncol=2)
> net <- new.incgraph.network(links=mat)
> # Calculate the initial orbit counts using orca
> orb.counts <- calculate.orbit.counts(net)
> # Modify an edge and calculate the differences in orbit counts
> flip(net, 5, 10) # add (5,10)
> delta1 <- calculate.delta(net, 5, 10)
> # Modify another edge
> flip(net, 6, 10) # add (6, 10)
> delta2 <- calculate.delta(net, 6, 10)
> # And another
> flip(net, 1, 5)  # remove (1, 5)
> delta3 <- calculate.delta(net, 1, 5)
> # Verify that the new orbit counts equals the old orbit counts plus the delta counts
> new.orb.counts.incremental <- orb.counts +
+   delta1$add - delta1$rem +
+   delta2$add - delta2$rem +
+   delta3$add - delta3$rem
> new.orb.counts <- calculate.orbit.counts(net)
> all(new.orb.counts.incremental == new.orb.counts) # TRUE
[1] TRUE
> 
> ## Additional helper functions
> # Transform the network to a matrix
> network.as.matrix(net)
     [,1] [,2]
[1,]    1    2
[2,]    1    5
[3,]    2    7
[4,]    3    7
[5,]    4    8
[6,]    5    9
[7,]    5   10
> # Get all neighbours of a node
> get.neighbours(net, 1)
[1] 1 2 5
> # Does the network contain a specific interaction?
> contains(net, 5, 10)
[1] TRUE
> contains(net, 7, 10)
[1] FALSE
> # Reinitialise to an empty network
> reset(net)
> network.as.matrix(net)
Error in do.call("rbind", sapply(seq_len(amnt.nodes - 1) - 1, function(i) { : 
  second argument must be a list
Calls: network.as.matrix -> do.call
Execution halted