* using log directory ‘/data/gannet/ripley/R/packages/tests-Suggests/ndtv.Rcheck’ * using R Under development (unstable) (2023-05-19 r84451) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc-13 (GCC) 13.1.0 GNU Fortran (GCC) 13.1.0 * running under: Fedora Linux 36 (Workstation Edition) * using session charset: UTF-8 * using option ‘--no-stop-on-test-error’ * checking for file ‘ndtv/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘ndtv’ version ‘0.13.3’ * 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 ‘ndtv’ can be installed ... [12s/30s] 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 startup messages can be suppressed ... OK * checking use of S3 registration ... 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 ... [19s/39s] 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 data for ASCII and uncompressed saves ... OK * checking sizes of PDF files under ‘inst/doc’ ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [27s/54s] ERROR Running examples in ‘ndtv-Ex.R’ failed The error most likely occurred in: > ### Name: render.d3movie > ### Title: Render out a web-based animation of a networkDynamic object > ### using ndtv-d3 player app > ### Aliases: render.d3movie > > ### ** Examples > > # render an interactive SVG animation of short.stergm.sim and open it in a browser > data(short.stergm.sim) > render.d3movie(short.stergm.sim) No slice.par found, using slice parameters: start:0 end:25 interval:1 aggregate.dur:1 rule:latest Calculating layout for network slice from time 0 to 1 Calculating layout for network slice from time 1 to 2 Calculating layout for network slice from time 2 to 3 Calculating layout for network slice from time 3 to 4 Calculating layout for network slice from time 4 to 5 Calculating layout for network slice from time 5 to 6 Calculating layout for network slice from time 6 to 7 Calculating layout for network slice from time 7 to 8 Calculating layout for network slice from time 8 to 9 Calculating layout for network slice from time 9 to 10 Calculating layout for network slice from time 10 to 11 Calculating layout for network slice from time 11 to 12 Calculating layout for network slice from time 12 to 13 Calculating layout for network slice from time 13 to 14 Calculating layout for network slice from time 14 to 15 Calculating layout for network slice from time 15 to 16 Calculating layout for network slice from time 16 to 17 Calculating layout for network slice from time 17 to 18 Calculating layout for network slice from time 18 to 19 Calculating layout for network slice from time 19 to 20 Calculating layout for network slice from time 20 to 21 Calculating layout for network slice from time 21 to 22 Calculating layout for network slice from time 22 to 23 Calculating layout for network slice from time 23 to 24 Calculating layout for network slice from time 24 to 25 Calculating layout for network slice from time 25 to 26 caching 10 properties for slice 0 caching 10 properties for slice 1 caching 10 properties for slice 2 caching 10 properties for slice 3 caching 10 properties for slice 4 caching 10 properties for slice 5 caching 10 properties for slice 6 caching 10 properties for slice 7 caching 10 properties for slice 8 caching 10 properties for slice 9 caching 10 properties for slice 10 caching 10 properties for slice 11 caching 10 properties for slice 12 caching 10 properties for slice 13 caching 10 properties for slice 14 caching 10 properties for slice 15 caching 10 properties for slice 16 caching 10 properties for slice 17 caching 10 properties for slice 18 caching 10 properties for slice 19 caching 10 properties for slice 20 caching 10 properties for slice 21 caching 10 properties for slice 22 caching 10 properties for slice 23 caching 10 properties for slice 24 caching 10 properties for slice 25 wrote animation HTML file to /tmp/RtmpVzqxq9/working_dir/Rtmpb6KkBO/file16779461d91b2c.html browser launching disabled because R is not in interactive mode > > # render interactive widget in rmarkdown or RStudio plot window > render.d3movie(short.stergm.sim,output.mode='htmlWidget') No slice.par found, using slice parameters: start:0 end:25 interval:1 aggregate.dur:1 rule:latest Calculating layout for network slice from time 0 to 1 Calculating layout for network slice from time 1 to 2 Calculating layout for network slice from time 2 to 3 Calculating layout for network slice from time 3 to 4 Calculating layout for network slice from time 4 to 5 Calculating layout for network slice from time 5 to 6 Calculating layout for network slice from time 6 to 7 Calculating layout for network slice from time 7 to 8 Calculating layout for network slice from time 8 to 9 Calculating layout for network slice from time 9 to 10 Calculating layout for network slice from time 10 to 11 Calculating layout for network slice from time 11 to 12 Calculating layout for network slice from time 12 to 13 Calculating layout for network slice from time 13 to 14 Calculating layout for network slice from time 14 to 15 Calculating layout for network slice from time 15 to 16 Calculating layout for network slice from time 16 to 17 Calculating layout for network slice from time 17 to 18 Calculating layout for network slice from time 18 to 19 Calculating layout for network slice from time 19 to 20 Calculating layout for network slice from time 20 to 21 Calculating layout for network slice from time 21 to 22 Calculating layout for network slice from time 22 to 23 Calculating layout for network slice from time 23 to 24 Calculating layout for network slice from time 24 to 25 Calculating layout for network slice from time 25 to 26 caching 10 properties for slice 0 caching 10 properties for slice 1 caching 10 properties for slice 2 caching 10 properties for slice 3 caching 10 properties for slice 4 caching 10 properties for slice 5 caching 10 properties for slice 6 caching 10 properties for slice 7 caching 10 properties for slice 8 caching 10 properties for slice 9 caching 10 properties for slice 10 caching 10 properties for slice 11 caching 10 properties for slice 12 caching 10 properties for slice 13 caching 10 properties for slice 14 caching 10 properties for slice 15 caching 10 properties for slice 16 caching 10 properties for slice 17 caching 10 properties for slice 18 caching 10 properties for slice 19 caching 10 properties for slice 20 caching 10 properties for slice 21 caching 10 properties for slice 22 caching 10 properties for slice 23 caching 10 properties for slice 24 caching 10 properties for slice 25 Loading required namespace: htmlwidgets Failed with error: ‘there is no package called ‘htmlwidgets’’ loading ndtv-d3 animation widget... Error in loadNamespace(x) : there is no package called ‘htmlwidgets’ Calls: render.d3movie ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart Execution halted * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘compute.animation_tests.R’ Running ‘d3_animation_tests.R’ [9s/14s] Running ‘effects_tests.R’ [12s/15s] Running ‘filmstrip_tests.R’ Running ‘layout_tests.R’ [9s/15s] Running ‘networkAnimationTest.R’ Running ‘proximity.timeline_test.R’ [9s/12s] Running ‘render.animation_test.R’ [9s/12s] Running ‘timePrisimTest.R’ Running ‘timeline_test.R’ [13s/17s] Running ‘transmissionTimelineTests.R’ Running ‘weighttest.R’ [14s/17s] Running ‘writeFormatTests.R’ [97s/134s] ERROR Running the tests in ‘tests/timePrisimTest.R’ failed. Complete output: > # part of the Statnet suite > # of packages for network analysis, http://statnet.org . > # > # This software is distributed under the GPL-3 license. It is free, > # open source, and has the attribution requirements (GPL Section 7) at > # http://statnet.org/attribution > # > # Copyright 2012-2013 Statnet Commons > ####################################################################### > require(ndtv) Loading required package: ndtv Loading required package: network 'network' 1.18.1 (2023-01-24), part of the Statnet Project * 'news(package="network")' for changes since last version * 'citation("network")' for citation information * 'https://statnet.org' for help, support, and other information Loading required package: networkDynamic 'networkDynamic' 0.11.3 (2023-02-15), part of the Statnet Project * 'news(package="networkDynamic")' for changes since last version * 'citation("networkDynamic")' for citation information * 'https://statnet.org' for help, support, and other information Loading required package: animation Loading required package: sna Loading required package: statnet.common Attaching package: 'statnet.common' The following objects are masked from 'package:base': attr, order sna: Tools for Social Network Analysis Version 2.7-1 created on 2023-01-24. copyright (c) 2005, Carter T. Butts, University of California-Irvine For citation information, type citation("sna"). Type help(package="sna") to get started. 'ndtv' 0.13.3 (2022-11-20), part of the Statnet Project * 'news(package="ndtv")' for changes since last version * 'citation("ndtv")' for citation information * 'https://statnet.org' for help, support, and other information > require(testthat) Loading required package: testthat > > data("short.stergm.sim") > compute.animation(short.stergm.sim) No slice.par found, using slice parameters: start:0 end:25 interval:1 aggregate.dur:1 rule:latest Calculating layout for network slice from time 0 to 1 Calculating layout for network slice from time 1 to 2 Calculating layout for network slice from time 2 to 3 Calculating layout for network slice from time 3 to 4 Calculating layout for network slice from time 4 to 5 Calculating layout for network slice from time 5 to 6 Calculating layout for network slice from time 6 to 7 Calculating layout for network slice from time 7 to 8 Calculating layout for network slice from time 8 to 9 Calculating layout for network slice from time 9 to 10 Calculating layout for network slice from time 10 to 11 Calculating layout for network slice from time 11 to 12 Calculating layout for network slice from time 12 to 13 Calculating layout for network slice from time 13 to 14 Calculating layout for network slice from time 14 to 15 Calculating layout for network slice from time 15 to 16 Calculating layout for network slice from time 16 to 17 Calculating layout for network slice from time 17 to 18 Calculating layout for network slice from time 18 to 19 Calculating layout for network slice from time 19 to 20 Calculating layout for network slice from time 20 to 21 Calculating layout for network slice from time 21 to 22 Calculating layout for network slice from time 22 to 23 Calculating layout for network slice from time 23 to 24 Calculating layout for network slice from time 24 to 25 Calculating layout for network slice from time 25 to 26 > timePrism(short.stergm.sim,at=c(1,10,20), + displaylabels=TRUE, + label.cex=0.5) Loading required namespace: scatterplot3d Failed with error: 'there is no package called 'scatterplot3d'' Error in loadNamespace(x) : there is no package called 'scatterplot3d' Calls: timePrism ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart Execution halted Running the tests in ‘tests/transmissionTimelineTests.R’ failed. Complete output: > # tests for transmission timeline > require(testthat) Loading required package: testthat > require(ndtv) Loading required package: ndtv Loading required package: network 'network' 1.18.1 (2023-01-24), part of the Statnet Project * 'news(package="network")' for changes since last version * 'citation("network")' for citation information * 'https://statnet.org' for help, support, and other information Loading required package: networkDynamic 'networkDynamic' 0.11.3 (2023-02-15), part of the Statnet Project * 'news(package="networkDynamic")' for changes since last version * 'citation("networkDynamic")' for citation information * 'https://statnet.org' for help, support, and other information Loading required package: animation Loading required package: sna Loading required package: statnet.common Attaching package: 'statnet.common' The following objects are masked from 'package:base': attr, order sna: Tools for Social Network Analysis Version 2.7-1 created on 2023-01-24. copyright (c) 2005, Carter T. Butts, University of California-Irvine For citation information, type citation("sna"). Type help(package="sna") to get started. 'ndtv' 0.13.3 (2022-11-20), part of the Statnet Project * 'news(package="ndtv")' for changes since last version * 'citation("ndtv")' for citation information * 'https://statnet.org' for help, support, and other information > #require(tsna) > #data(moodyContactSim) > #v10path<-tPath(moodyContactSim,v=10,start=0) > #v11path<-tPath(moodyContactSim,v=11,start=0) > #v12path<-tPath(moodyContactSim,v=12,start=0) > > # creating v10 path via structure for now so don't bring in tsna dep > v10path<-structure(list(tdist = c(583, 494, 634, 40, 712, 701, 224, 719, 674, 0, 749, 621, 453, 665, 709, 575), previous = c(16, 13, 13, 10, 13, 16, 10, 13, 1, 0, 8, 1, 4, 4, 2, 2), gsteps = c(5, 3, 3, 1, 3, 5, 1, 3, 6, 0, 4, 6, 2, 2, 4, 4), start = 0, end = Inf, direction = "fwd", type = "earliest.arrive"), .Names = c("tdist", "previous", "gsteps", "start", "end", "direction", "type"), class = c("tPath", "list")) > > transmissionTimeline(v10path) Loading required namespace: tsna Failed with error: 'there is no package called 'tsna'' Error in if (matrix.type == "edgelist") { : missing value where TRUE/FALSE needed Calls: transmissionTimeline ... as.network -> as.network.default -> as.network.matrix Execution halted * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking re-building of vignette outputs ... [18s/20s] ERROR Error(s) in re-building vignettes: --- re-building ‘ndtv.Rnw’ using Sweave Loading required package: network ‘network’ 1.18.1 (2023-01-24), part of the Statnet Project * ‘news(package="network")’ for changes since last version * ‘citation("network")’ for citation information * ‘https://statnet.org’ for help, support, and other information Loading required package: networkDynamic ‘networkDynamic’ 0.11.3 (2023-02-15), part of the Statnet Project * ‘news(package="networkDynamic")’ for changes since last version * ‘citation("networkDynamic")’ for citation information * ‘https://statnet.org’ for help, support, and other information Loading required package: animation Loading required package: sna Loading required package: statnet.common Attaching package: ‘statnet.common’ The following objects are masked from ‘package:base’: attr, order sna: Tools for Social Network Analysis Version 2.7-1 created on 2023-01-24. copyright (c) 2005, Carter T. Butts, University of California-Irvine For citation information, type citation("sna"). Type help(package="sna") to get started. ‘ndtv’ 0.13.3 (2022-11-20), part of the Statnet Project * ‘news(package="ndtv")’ for changes since last version * ‘citation("ndtv")’ for citation information * ‘https://statnet.org’ for help, support, and other information No slice.par found, using Calculating layout for network slice from time 1 to 2 Calculating layout for network slice from time 2 to 3 Calculating layout for network slice from time 3 to 4 Calculating layout for network slice from time 4 to 5 Calculating layout for network slice from time 5 to 6 Calculating layout for network slice from time 6 to 7 Calculating layout for network slice from time 7 to 8 Calculating layout for network slice from time 8 to 9 Calculating layout for network slice from time 9 to 10 Calculating layout for network slice from time 10 to 11 Calculating layout for network slice from time 11 to 12 Calculating layout for network slice from time 12 to 13 rendering 10 frames for slice 0 rendering 10 frames for slice 1 rendering 10 frames for slice 2 rendering 10 frames for slice 3 rendering 10 frames for slice 4 rendering 10 frames for slice 5 rendering 10 frames for slice 6 rendering 10 frames for slice 7 rendering 10 frames for slice 8 rendering 10 frames for slice 9 rendering 10 frames for slice 10 rendering 10 frames for slice 11 Loading required package: tergm Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, : there is no package called ‘tergm’ Loading required package: ergm Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, : there is no package called ‘ergm’ Loading required package: tergm Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, : there is no package called ‘tergm’ Loading required package: tergm Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, : there is no package called ‘tergm’ Calculating layout for network slice from time 75 to 76 Calculating layout for network slice from time 76 to 77 Calculating layout for network slice from time 77 to 78 Calculating layout for network slice from time 78 to 79 Calculating layout for network slice from time 79 to 80 Calculating layout for network slice from time 80 to 81 Calculating layout for network slice from time 81 to 82 Calculating layout for network slice from time 82 to 83 Calculating layout for network slice from time 83 to 84 Calculating layout for network slice from time 84 to 85 Calculating layout for network slice from time 85 to 86 Calculating layout for network slice from time 86 to 87 Calculating layout for network slice from time 87 to 88 Calculating layout for network slice from time 88 to 89 Calculating layout for network slice from time 89 to 90 Calculating layout for network slice from time 90 to 91 Calculating layout for network slice from time 91 to 92 Calculating layout for network slice from time 92 to 93 Calculating layout for network slice from time 93 to 94 Calculating layout for network slice from time 94 to 95 Calculating layout for network slice from time 95 to 96 Calculating layout for network slice from time 96 to 97 Calculating layout for network slice from time 97 to 98 Calculating layout for network slice from time 98 to 99 Calculating layout for network slice from time 99 to 100 Calculating layout for network slice from time 100 to 101 rendering 5 frames for slice 0 rendering 5 frames for slice 1 rendering 5 frames for slice 2 rendering 5 frames for slice 3 rendering 5 frames for slice 4 rendering 5 frames for slice 5 rendering 5 frames for slice 6 rendering 5 frames for slice 7 rendering 5 frames for slice 8 rendering 5 frames for slice 9 rendering 5 frames for slice 10 rendering 5 frames for slice 11 rendering 5 frames for slice 12 rendering 5 frames for slice 13 rendering 5 frames for slice 14 rendering 5 frames for slice 15 rendering 5 frames for slice 16 rendering 5 frames for slice 17 rendering 5 frames for slice 18 rendering 5 frames for slice 19 rendering 5 frames for slice 20 rendering 5 frames for slice 21 rendering 5 frames for slice 22 rendering 5 frames for slice 23 rendering 5 frames for slice 24 rendering 5 frames for slice 25 sh: line 1: ffmpeg: command not found Error in system(paste(ffmpeg, "-version"), intern = TRUE) : error in running command Warning in saveVideo(ani.replay(), video.name = "stergm.sim.1.mp4", other.opts = "-b 5000k", : The command "'ffmpeg'" is not available in your system. Please install FFmpeg or avconv first: http://ffmpeg.org/download.html caching 5 properties for slice 0 caching 5 properties for slice 1 caching 5 properties for slice 2 caching 5 properties for slice 3 caching 5 properties for slice 4 caching 5 properties for slice 5 caching 5 properties for slice 6 caching 5 properties for slice 7 caching 5 properties for slice 8 caching 5 properties for slice 9 caching 5 properties for slice 10 caching 5 properties for slice 11 caching 5 properties for slice 12 caching 5 properties for slice 13 caching 5 properties for slice 14 caching 5 properties for slice 15 caching 5 properties for slice 16 caching 5 properties for slice 17 caching 5 properties for slice 18 caching 5 properties for slice 19 caching 5 properties for slice 20 caching 5 properties for slice 21 caching 5 properties for slice 22 caching 5 properties for slice 23 caching 5 properties for slice 24 caching 5 properties for slice 25 wrote animation HTML file to stergm.sim1.html browser launching disabled because R is not in interactive mode caching 5 properties for slice 0 caching 5 properties for slice 1 caching 5 properties for slice 2 caching 5 properties for slice 3 caching 5 properties for slice 4 caching 5 properties for slice 5 caching 5 properties for slice 6 caching 5 properties for slice 7 caching 5 properties for slice 8 caching 5 properties for slice 9 caching 5 properties for slice 10 caching 5 properties for slice 11 caching 5 properties for slice 12 caching 5 properties for slice 13 caching 5 properties for slice 14 caching 5 properties for slice 15 caching 5 properties for slice 16 caching 5 properties for slice 17 caching 5 properties for slice 18 caching 5 properties for slice 19 caching 5 properties for slice 20 caching 5 properties for slice 21 caching 5 properties for slice 22 caching 5 properties for slice 23 caching 5 properties for slice 24 caching 5 properties for slice 25 Loading required namespace: htmlwidgets Failed with error: ‘there is no package called ‘htmlwidgets’’ loading ndtv-d3 animation widget... Error: processing vignette 'ndtv.Rnw' failed with diagnostics: chunk 15 (label = view_Rstudio) Error in loadNamespace(x) : there is no package called ‘htmlwidgets’ --- failed re-building ‘ndtv.Rnw’ SUMMARY: processing the following file failed: ‘ndtv.Rnw’ Error: Vignette re-building failed. Execution halted * checking PDF version of manual ... OK * checking HTML version of manual ... OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * DONE Status: 3 ERRORs See ‘/data/gannet/ripley/R/packages/tests-Suggests/ndtv.Rcheck/00check.log’ for details. Command exited with non-zero status 1 Time 6:48.42, 216.35 + 17.11