Last updated on 2023-09-26 14:04:55 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.0 | 3.82 | 37.11 | 40.93 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 1.0.0 | 3.12 | 29.25 | 32.37 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 1.0.0 | 52.85 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 1.0.0 | 53.07 | ERROR | |||
| r-devel-windows-x86_64 | 1.0.0 | 5.00 | 57.00 | 62.00 | ERROR | |
| r-patched-linux-x86_64 | 1.0.0 | 3.83 | 56.13 | 59.96 | OK | |
| r-release-linux-x86_64 | 1.0.0 | 3.57 | 53.88 | 57.45 | OK | |
| r-release-macos-arm64 | 1.0.0 | 32.00 | OK | |||
| r-release-macos-x86_64 | 1.0.0 | 42.00 | OK | |||
| r-release-windows-x86_64 | 1.0.0 | 6.00 | 70.00 | 76.00 | OK | |
| r-oldrel-macos-arm64 | 1.0.0 | 28.00 | OK | |||
| r-oldrel-macos-x86_64 | 1.0.0 | 38.00 | OK | |||
| r-oldrel-windows-x86_64 | 1.0.0 | 6.00 | 73.00 | 79.00 | OK |
Version: 1.0.0
Check: examples
Result: ERROR
Running examples in ‘ExprNet-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: analysis_ExprNet
> ### Title: Computing and testing AT1 and AT2, and plotting sub-network
> ### Aliases: analysis_ExprNet
>
> ### ** Examples
>
> library(ExprNet)
> network <- network_demo
> data_type1 <- data_LGG_demo
> data_type2 <- data_GBM_demo
> edge_pair_selected <- c("1-8", "1-15", "2-16", "3-16", "5-10",
+ "5-16", "8-11", "8-13", "8-14", "8-15", "13-15")
> # compute AT's
> AT_res <- analysis_ExprNet(data_type1 = data_type1, data_type2 = data_type2, network = network,
+ edge_pair_selected = edge_pair_selected,
+ AT2_perm_test = TRUE, num_perm = 250, num_cores = 2,
+ type1_name = "LGG", type2_name = "GBM",
+ subnet_label = "Demo_GO0006306_DNA_methylation(LGG-GBM)",
+ vertex.label.cex = 1, vertex.size = 10, edge.width = 7)
This graph was created by an old(er) igraph version.
Call upgrade_graph() on it to use with the current igraph version
For now we convert it on the fly...
Data read successfully.
17 features
5 samples for phenotype 1
5 samples for phenotype 2.
Graph imported successfully.
There are 17 vertices and 17 edges in the graph.
---Computing edge length and t statistics---
3 / 17 Edges Computed
6 / 17 Edges Computed
10 / 17 Edges Computed
13 / 17 Edges Computed
17 / 17 Edges Computed
Among 17 edge distances,
4 of them have significant differences at 0.05 level.
5 of them > 0.
12 of them < 0.
The subnetwork consists of 11 edges.
---Computing AT1---
AT1 = 0.67, pval_AT1 = 0.0529
---Computing AT2---
The permutation test may take some time, especially for high dimension. Please stay tuned.
Parallel Computing: 2 cores registered.
Error in { : task 1 failed - "cannot use 'paired' in formula method"
Calls: analysis_ExprNet -> compute_AT -> %dopar% -> <Anonymous>
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc
Version: 1.0.0
Check: examples
Result: ERROR
Running examples in ‘ExprNet-Ex.R’ failed
The error most likely occurred in:
> ### Name: analysis_ExprNet
> ### Title: Computing and testing AT1 and AT2, and plotting sub-network
> ### Aliases: analysis_ExprNet
>
> ### ** Examples
>
> library(ExprNet)
> network <- network_demo
> data_type1 <- data_LGG_demo
> data_type2 <- data_GBM_demo
> edge_pair_selected <- c("1-8", "1-15", "2-16", "3-16", "5-10",
+ "5-16", "8-11", "8-13", "8-14", "8-15", "13-15")
> # compute AT's
> AT_res <- analysis_ExprNet(data_type1 = data_type1, data_type2 = data_type2, network = network,
+ edge_pair_selected = edge_pair_selected,
+ AT2_perm_test = TRUE, num_perm = 250, num_cores = 2,
+ type1_name = "LGG", type2_name = "GBM",
+ subnet_label = "Demo_GO0006306_DNA_methylation(LGG-GBM)",
+ vertex.label.cex = 1, vertex.size = 10, edge.width = 7)
This graph was created by an old(er) igraph version.
Call upgrade_graph() on it to use with the current igraph version
For now we convert it on the fly...
Data read successfully.
17 features
5 samples for phenotype 1
5 samples for phenotype 2.
Graph imported successfully.
There are 17 vertices and 17 edges in the graph.
---Computing edge length and t statistics---
3 / 17 Edges Computed
6 / 17 Edges Computed
10 / 17 Edges Computed
13 / 17 Edges Computed
17 / 17 Edges Computed
Among 17 edge distances,
4 of them have significant differences at 0.05 level.
5 of them > 0.
12 of them < 0.
The subnetwork consists of 11 edges.
---Computing AT1---
AT1 = 0.67, pval_AT1 = 0.0529
---Computing AT2---
The permutation test may take some time, especially for high dimension. Please stay tuned.
Parallel Computing: 2 cores registered.
Error in { : task 1 failed - "cannot use 'paired' in formula method"
Calls: analysis_ExprNet -> compute_AT -> %dopar% -> <Anonymous>
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64