Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2024-12-23 11:42 -0500 (Mon, 23 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4754 |
palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4472 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4426 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4381 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4372 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
Package 1406/2274 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
netZooR 1.11.0 (landing page) Marouen Ben Guebila
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | ERROR | |||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | ERROR | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | ERROR | ||||||||||
To the developers/maintainers of the netZooR package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/netZooR.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: netZooR |
Version: 1.11.0 |
Command: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:netZooR.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings netZooR_1.11.0.tar.gz |
StartedAt: 2024-12-23 03:09:36 -0500 (Mon, 23 Dec 2024) |
EndedAt: 2024-12-23 03:18:42 -0500 (Mon, 23 Dec 2024) |
EllapsedTime: 545.9 seconds |
RetCode: 1 |
Status: ERROR |
CheckDir: netZooR.Rcheck |
Warnings: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:netZooR.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings netZooR_1.11.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'E:/biocbuild/bbs-3.21-bioc/meat/netZooR.Rcheck' * using R Under development (unstable) (2024-10-26 r87273 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'netZooR/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'netZooR' version '1.11.0' * 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 hidden files and directories ... OK * checking for portable file names ... OK * checking whether package 'netZooR' can be installed ... OK * checking installed package size ... INFO installed size is 5.2Mb sub-directories of 1Mb or more: data 1.5Mb extdata 2.8Mb * 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 code 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 dependencies in R code ... NOTE Package in Depends field not imported from: 'matrixcalc' These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE estimatePenaltyParameters: no visible global function definition for 'matrix.trace' runEgret: no visible binding for global variable 'NA12878' show,panda: no visible global function definition for 'print.panda' Undefined global functions or variables: NA12878 matrix.trace print.panda * checking Rd files ... NOTE checkRd: (-1) condorCluster.Rd:39: Lost braces; missing escapes or markup? 39 | in the modularity for each iteration. Default is min(10^{-4},1/(number of edges)), | ^ checkRd: (-1) dragon.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) dragon.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) dragon.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) dragon.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) dragon.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) dragon.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly * checking Rd metadata ... 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 files in 'vignettes' ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'testthat.R' ERROR Running the tests in 'tests/testthat.R' failed. Last 13 lines of output: ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-panda.R:29:4'): panda function works ─────────────────────────── <python.builtin.ModuleNotFoundError/python.builtin.ImportError/python.builtin.Exception/python.builtin.BaseException/python.builtin.object/error/condition> Error in `py_run_file_impl(file, local, convert)`: ModuleNotFoundError: No module named 'scipy' Run `reticulate::py_last_error()` for details. Backtrace: ▆ 1. └─netZooR::pandaPy(...) at test-panda.R:29:4 2. └─reticulate::source_python(pandapath, convert = TRUE) 3. └─reticulate::py_run_file(file, local = FALSE, convert = convert) 4. └─reticulate:::py_run_file_impl(file, local, convert) [ FAIL 1 | WARN 9 | SKIP 1 | PASS 48 ] Error: Test failures Execution halted * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 ERROR, 3 NOTEs See 'E:/biocbuild/bbs-3.21-bioc/meat/netZooR.Rcheck/00check.log' for details.
netZooR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL netZooR ### ############################################################################## ############################################################################## * installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library' * installing *source* package 'netZooR' ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (netZooR)
netZooR.Rcheck/tests/testthat.Rout.fail
R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(testthat) > library(netZooR) Loading required package: igraph Attaching package: 'igraph' The following object is masked from 'package:testthat': compare The following objects are masked from 'package:stats': decompose, spectrum The following object is masked from 'package:base': union Loading required package: reticulate Loading required package: pandaR Loading required package: Biobase Loading required package: BiocGenerics Loading required package: generics Attaching package: 'generics' The following objects are masked from 'package:igraph': components, union The following objects are masked from 'package:base': as.difftime, as.factor, as.ordered, intersect, is.element, setdiff, setequal, union Attaching package: 'BiocGenerics' The following objects are masked from 'package:igraph': normalize, path The following objects are masked from 'package:stats': IQR, mad, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append, as.data.frame, basename, cbind, colnames, dirname, do.call, duplicated, eval, evalq, get, grep, grepl, is.unsorted, lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rownames, sapply, saveRDS, table, tapply, unique, unsplit, 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")'. Loading required package: yarn Setting options('download.file.method.GEOquery'='auto') Setting options('GEOquery.inmemory.gpl'=FALSE) Loading required package: matrixcalc Attaching package: 'matrixcalc' The following object is masked from 'package:igraph': %s% > > #download test data > download.file('https://netzoo.s3.us-east-2.amazonaws.com/netZooR/example_datasets/ppi_medium.txt','testthat/ppi_medium.txt') trying URL 'https://netzoo.s3.us-east-2.amazonaws.com/netZooR/example_datasets/ppi_medium.txt' Content type 'text/plain' length 3674311 bytes (3.5 MB) ================================================== downloaded 3.5 MB > download.file('https://netzoo.s3.us-east-2.amazonaws.com/netZooR/unittest_datasets/testDataset.RData','testthat/testDataset.RData') trying URL 'https://netzoo.s3.us-east-2.amazonaws.com/netZooR/unittest_datasets/testDataset.RData' Content type 'binary/octet-stream' length 15200389 bytes (14.5 MB) ================================================== downloaded 14.5 MB > download.file('https://netzoo.s3.us-east-2.amazonaws.com/netZooR/example_datasets/dragon/dragon_test_get_shrunken_covariance.csv','testthat/dragon_test_get_shrunken_covariance.csv') trying URL 'https://netzoo.s3.us-east-2.amazonaws.com/netZooR/example_datasets/dragon/dragon_test_get_shrunken_covariance.csv' Content type 'text/csv' length 114 bytes ================================================== downloaded 114 bytes > download.file('https://netzoo.s3.us-east-2.amazonaws.com/netZooR/example_datasets/dragon/dragon_layer1.csv','testthat/dragon_layer1.csv') trying URL 'https://netzoo.s3.us-east-2.amazonaws.com/netZooR/example_datasets/dragon/dragon_layer1.csv' Content type 'text/csv' length 2549985 bytes (2.4 MB) ================================================== downloaded 2.4 MB > download.file('https://netzoo.s3.us-east-2.amazonaws.com/netZooR/example_datasets/dragon/dragon_layer2.csv','testthat/dragon_layer2.csv') trying URL 'https://netzoo.s3.us-east-2.amazonaws.com/netZooR/example_datasets/dragon/dragon_layer2.csv' Content type 'text/csv' length 12749793 bytes (12.2 MB) ================================================== downloaded 12.2 MB > download.file('https://netzoo.s3.us-east-2.amazonaws.com/netZooR/example_datasets/dragon/dragon_python_cov.csv','testthat/dragon_python_cov.csv') trying URL 'https://netzoo.s3.us-east-2.amazonaws.com/netZooR/example_datasets/dragon/dragon_python_cov.csv' Content type 'text/csv' length 9179450 bytes (8.8 MB) ================================================== downloaded 8.8 MB > download.file('https://netzoo.s3.us-east-2.amazonaws.com/netZooR/example_datasets/dragon/dragon_python_prec.csv','testthat/dragon_python_prec.csv') trying URL 'https://netzoo.s3.us-east-2.amazonaws.com/netZooR/example_datasets/dragon/dragon_python_prec.csv' Content type 'text/csv' length 9179450 bytes (8.8 MB) ================================================== downloaded 8.8 MB > download.file('https://netzoo.s3.us-east-2.amazonaws.com/netZooR/example_datasets/dragon/dragon_python_parcor.csv','testthat/dragon_python_parcor.csv') trying URL 'https://netzoo.s3.us-east-2.amazonaws.com/netZooR/example_datasets/dragon/dragon_python_parcor.csv' Content type 'text/csv' length 9179576 bytes (8.8 MB) ================================================== downloaded 8.8 MB > download.file('https://netzoo.s3.us-east-2.amazonaws.com/netZooR/example_datasets/dragon/risk_grid_netzoopy.csv','testthat/risk_grid_netzoopy.csv') trying URL 'https://netzoo.s3.us-east-2.amazonaws.com/netZooR/example_datasets/dragon/risk_grid_netzoopy.csv' Content type 'text/csv' length 255025 bytes (249 KB) ================================================== downloaded 249 KB > > test_check("netZooR") [1] "Detecting communities in control network..." [1] "modularity of projected graph 0.0223684210526325" [1] "Q = 0.0263157894736842" [1] "Q = 0.0263157894736842" [1] "Computing differential modularity matrix..." [1] "Computing differential modules..." [1] "Merging 100 communities" [1] 1 [1] 2 [1] 3 [1] "Merging 2 communities" [1] 1 [1] "Computing node scores..." [1] 1 [1] 2 [1] "modularity of projected graph 0.227272727272727" [1] "Q = 0.231404958677686" [1] "Q = 0.231404958677686" [1] "modularity of projected graph 0" [1] "Q = 0" [1] "Q = 0.132231404958678" [1] "Q = 0.148760330578512" [1] "Q = 0.148760330578512" [1] 0.231405 0.231405 [1] "Q = 0.198347107438017" [1] "Q = 0.231404958677686" [1] "Q = 0.231404958677686" [1] "Q = 0.140495867768595" [1] "Q = 0.140495867768595" [1] "modularity of projected graph 0.227272727272727" [1] "Q = 0.231404958677686" [1] "Q = 0.231404958677686" [1] "modularity of projected graph 0.525346928655047" [1] "Q = 0.52666696475026" [1] "Q = 0.52666696475026" [1] 0.79 0.00 final value 375.120000 converged [1] 0.31 0.29 final value 36.897493 converged % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 355 100 355 0 0 1997 0 --:--:-- --:--:-- --:--:-- 2052 % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 569 100 569 0 0 4001 0 --:--:-- --:--:-- --:--:-- 4123 100 569 100 569 0 0 3994 0 --:--:-- --:--:-- --:--:-- 4123 % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 840 100 840 0 0 5123 0 --:--:-- --:--:-- --:--:-- 5490 % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 3242 100 3242 0 0 23527 0 --:--:-- --:--:-- --:--:-- 24194 % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 410 100 410 0 0 2760 0 --:--:-- --:--:-- --:--:-- 2867 % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 222 100 222 0 0 1661 0 --:--:-- --:--:-- --:--:-- 1790 % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 48 1438k 48 698k 0 0 2699k 0 --:--:-- --:--:-- --:--:-- 2727k 100 1438k 100 1438k 0 0 5104k 0 --:--:-- --:--:-- --:--:-- 5154k % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 578 100 578 0 0 3770 0 --:--:-- --:--:-- --:--:-- 3986 [1] "Initializing and validating" [1] "Verified sufficient samples" [1] "Normalizing networks..." [1] "Learning Network..." [1] "Using tanimoto similarity" [1] "Initializing and validating" [1] "Verified sufficient samples" [1] "Normalizing networks..." [1] "Learning Network..." [1] "Using tanimoto similarity" % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 27822 100 27822 0 0 173k 0 --:--:-- --:--:-- --:--:-- 178k [1] "Computing network for sample 1" [1] "Computing network for sample 2" [1] "Computing network for sample 3" [1] "Computing network for sample 4" % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 28 1079k 28 307k 0 0 1337k 0 --:--:-- --:--:-- --:--:-- 1359k 100 1079k 100 1079k 0 0 3921k 0 --:--:-- --:--:-- --:--:-- 3968k Time difference of 3.004074e-05 secs Time difference of 1.497363 secs Time difference of 0.65238 secs .123456 .12345 .12345 .12345 .12345 .123456 .12345 .12345 .12345 .123456 .12345 .12345 .12345 .12345 .12345 .123456 .1234 .12345 .12345 .12345 .1234 .12345 .123456 .12345 .12345 .1234 .1234 .12345 .12345 .12345 .12345 .12345 .123456 .12345 .12345 .123456 .12345 .12345 .12345 .12345 .12345 .12345 .1234 .12345 .12345 .12345 .12345 .12345 .12345 .12345 .1234 .12345 .12345 MONSTER object 2555 genes 20 baseline samples 20 final samples Transition driven by 53 transcription factors Run with 10 randomized permutations. % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 27822 100 27822 0 0 169k 0 --:--:-- --:--:-- --:--:-- 174k [1] "Detecting communities in control network..." [1] "modularity of projected graph 0.471004488691679" [1] "Q = 0.471024100010188" [1] "Q = 0.471024100010188" [1] "Computing differential modularity matrix..." [1] "Computing differential modules..." [1] "Merging 386 communities" [1] 1 [1] 2 [1] "Merging 201 communities" [1] 1 [1] "Computing node scores..." [1] 1 [1] 2 [1] 3 [1] 4 [1] 5 [1] 6 [1] 7 [1] 8 [1] 9 [1] 10 [1] 11 [1] 12 [1] 13 [1] 14 [1] 15 [1] 16 [1] 17 [1] 18 [1] 19 [1] 20 [1] 21 [1] 22 [1] 23 [1] 24 [1] 25 [1] 26 [1] 27 [1] 28 [1] 29 [1] 30 [1] 31 [1] 32 [1] 33 [1] 34 [1] 35 [1] 36 [1] 37 [1] 38 [1] 39 [1] 40 [1] 41 [1] 42 [1] 43 [1] 44 [1] 45 [1] 46 [1] 47 [1] 48 [1] 49 [1] 50 [1] 51 [1] 52 [1] 53 [1] 54 [1] 55 [1] 56 [1] 57 [1] 58 [1] 59 [1] 60 [1] 61 [1] 62 [1] 63 [1] 64 [1] 65 [1] 66 [1] 67 [1] 68 [1] 69 [1] 70 [1] 71 [1] 72 [1] 73 [1] 74 [1] 75 [1] 76 [1] 77 [1] 78 [1] 79 [1] 80 [1] 81 [1] 82 [1] 83 [1] 84 [1] 85 [1] 86 [1] 87 [1] 88 [1] 89 [1] 90 [1] 91 [1] 92 [1] 93 [1] 94 [1] 95 [1] 96 [1] 97 [1] 98 [1] 99 [1] 100 [1] 101 [1] 102 [1] 103 [1] 104 [1] 105 [1] 106 [1] 107 [1] 108 [1] 109 [1] 110 [1] 111 [1] 112 [1] 113 [1] 114 [1] 115 [1] 116 [1] 117 [1] 118 [1] 119 [1] 120 [1] 121 [1] 122 [1] 123 [1] 124 [1] 125 [1] 126 [1] 127 [1] 128 [1] 129 [1] 130 [1] 131 [1] 132 [1] 133 [1] 134 [1] 135 [1] 136 [1] 137 [1] 138 [1] 139 [1] 140 [1] 141 [1] 142 [1] 143 [1] 144 [1] 145 [1] 146 [1] 147 [1] 148 [1] 149 [1] 150 [1] 151 [1] 152 [1] 153 [1] 154 [1] 155 [1] 156 [1] 157 [1] 158 [1] 159 [1] 160 [1] 161 [1] 162 [1] 163 [1] 164 [1] 165 [1] 166 [1] 167 [1] 168 [1] 169 [1] 170 [1] 171 [1] 172 [1] 173 [1] 174 [1] 175 [1] 176 [1] 177 [1] 178 [1] 179 [1] 180 [1] 181 [1] 182 [1] 183 [1] 184 [1] 185 [1] 186 [1] 187 [1] 188 [1] 189 [1] 190 [1] 191 [1] 192 [1] 193 [1] 194 [1] 195 [1] 196 [1] 197 [1] 198 [1] 199 [1] 200 [1] 201 Read 7424 items WARNING: Score threshold is not specified. We will be using medium stringency cut-off of 400. trying URL 'https://stringdb-downloads.org/download/protein.aliases.v11.0/83332.protein.aliases.v11.0.txt.gz' Content type 'application/octet-stream' length 614783 bytes (600 KB) ================================================== downloaded 600 KB trying URL 'https://stringdb-downloads.org/download/protein.info.v11.0/83332.protein.info.v11.0.txt.gz' Content type 'application/octet-stream' length 442274 bytes (431 KB) ================================================== downloaded 431 KB trying URL 'https://stringdb-downloads.org/download/protein.links.v11.0/83332.protein.links.v11.0.txt.gz' Content type 'application/octet-stream' length 7455726 bytes (7.1 MB) ================================================== downloaded 7.1 MB [ FAIL 1 | WARN 9 | SKIP 1 | PASS 48 ] ══ Skipped tests (1) ═══════════════════════════════════════════════════════════ • empty test (1): 'test-lioness.R:44:1' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-panda.R:29:4'): panda function works ─────────────────────────── <python.builtin.ModuleNotFoundError/python.builtin.ImportError/python.builtin.Exception/python.builtin.BaseException/python.builtin.object/error/condition> Error in `py_run_file_impl(file, local, convert)`: ModuleNotFoundError: No module named 'scipy' Run `reticulate::py_last_error()` for details. Backtrace: ▆ 1. └─netZooR::pandaPy(...) at test-panda.R:29:4 2. └─reticulate::source_python(pandapath, convert = TRUE) 3. └─reticulate::py_run_file(file, local = FALSE, convert = convert) 4. └─reticulate:::py_run_file_impl(file, local, convert) [ FAIL 1 | WARN 9 | SKIP 1 | PASS 48 ] Error: Test failures Execution halted
netZooR.Rcheck/netZooR-Ex.timings
name | user | system | elapsed | |
alpaca | 0.42 | 0.01 | 0.45 | |
alpacaCommunityStructureRotation | 0 | 0 | 0 | |
alpacaComputeDWBMmatmScale | 0 | 0 | 0 | |
alpacaComputeWBMmat | 0 | 0 | 0 | |
alpacaCrane | 0 | 0 | 0 | |
alpacaDeltaZAnalysis | 0 | 0 | 0 | |
alpacaDeltaZAnalysisLouvain | 0 | 0 | 0 | |
alpacaExtractTopGenes | 0.64 | 0.00 | 0.64 | |
alpacaGOtabtogenes | 0 | 0 | 0 | |
alpacaGenLouvain | 0 | 0 | 0 | |
alpacaGoToGenes | 0 | 0 | 0 | |
alpacaListToGo | 0 | 0 | 0 | |
alpacaMetaNetwork | 0 | 0 | 0 | |
alpacaNodeToGene | 0 | 0 | 0 | |
alpacaRotationAnalysis | 0 | 0 | 0 | |
alpacaRotationAnalysisLouvain | 0 | 0 | 0 | |
alpacaSimulateNetwork | 0 | 0 | 0 | |
alpacaTestNodeRank | 0 | 0 | 0 | |
alpacaTidyConfig | 0 | 0 | 0 | |
alpacaTopEnsembltoTopSym | 0 | 0 | 0 | |
alpacaWBMlouvain | 0 | 0 | 0 | |
condorCluster | 1.29 | 0.00 | 1.30 | |
condorCoreEnrich | 2.33 | 0.12 | 2.45 | |
condorMatrixModularity | 0.02 | 0.00 | 0.02 | |
condorModularityMax | 0.04 | 0.00 | 0.05 | |
condorPlotCommunities | 1.36 | 0.00 | 1.35 | |
condorPlotHeatmap | 0.30 | 0.04 | 0.35 | |
condorQscore | 1.26 | 0.00 | 1.27 | |
craneBipartite | 0 | 0 | 0 | |
createCondorObject | 0.02 | 0.00 | 0.02 | |
createPandaStyle | 0 | 0 | 0 | |
lioness | 3.59 | 0.07 | 3.89 | |
lionessPy | 0 | 0 | 0 | |
monster | 0.00 | 0.03 | 0.03 | |
monsterBereFull | 3.58 | 0.34 | 3.92 | |
monsterCalculateTmPValues | 0.01 | 0.02 | 0.04 | |
monsterCheckDataType | 0.50 | 0.22 | 0.71 | |
monsterGetTm | 0.02 | 0.00 | 0.02 | |
monsterHclHeatmapPlot | 0.47 | 0.03 | 0.50 | |
monsterMonsterNI | 3.69 | 0.06 | 3.75 | |
monsterPlotMonsterAnalysis | 0.03 | 0.00 | 0.03 | |
monsterPrintMonsterAnalysis | 0.03 | 0.02 | 0.05 | |
monsterTransformationMatrix | 0.92 | 0.08 | 1.00 | |
monsterTransitionNetworkPlot | 0.33 | 0.00 | 0.39 | |
monsterTransitionPCAPlot | 0.22 | 0.01 | 0.23 | |
monsterdTFIPlot | 0.39 | 0.00 | 0.41 | |
otter | 0 | 0 | 0 | |
pandaDiffEdges | 0.00 | 0.02 | 0.02 | |
pandaPy | 0 | 0 | 0 | |
pandaToAlpaca | 0.00 | 0.01 | 0.01 | |
pandaToCondorObject | 0 | 0 | 0 | |
runEgret | 0.03 | 0.02 | 0.09 | |
sambar | 2.33 | 0.26 | 2.61 | |
sourcePPI | 0.01 | 0.00 | 0.05 | |
spider | 0.02 | 0.00 | 0.02 | |
visPandaInCytoscape | 0 | 0 | 0 | |