Back to Multiple platform build/check report for BioC 3.16: simplified long |
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This page was generated on 2023-04-12 11:05:23 -0400 (Wed, 12 Apr 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" | 4282 |
lconway | macOS 12.5.1 Monterey | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4310 |
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 |
To the developers/maintainers of the wppi package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/wppi.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 2165/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
wppi 1.6.0 (landing page) Ana Galhoz
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.5.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
Package: wppi |
Version: 1.6.0 |
Command: /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:wppi.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings wppi_1.6.0.tar.gz |
StartedAt: 2023-04-11 00:51:32 -0400 (Tue, 11 Apr 2023) |
EndedAt: 2023-04-11 00:55:54 -0400 (Tue, 11 Apr 2023) |
EllapsedTime: 261.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: wppi.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:wppi.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings wppi_1.6.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.16-bioc/meat/wppi.Rcheck’ * using R version 4.2.3 (2023-03-15) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * checking for file ‘wppi/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘wppi’ version ‘1.6.0’ * 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 for sufficient/correct file permissions ... OK * checking whether package ‘wppi’ can be installed ... OK * checking installed package size ... 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 ... NOTE [2023-04-11 00:52:08] [INFO] [OmnipathR] Initialized cache: `/home/biocbuild/.cache/OmnipathR`. [2023-04-11 00:52:08] [TRACE] [OmnipathR] Running on a build server, wiping cache. [2023-04-11 00:52:08] [TRACE] [OmnipathR] Cache is at `/home/biocbuild/.cache/OmnipathR`. [2023-04-11 00:52:08] [TRACE] [OmnipathR] Contains 1 files. [2023-04-11 00:52:08] [TRACE] [OmnipathR] Cache is locked: FALSE. [2023-04-11 00:52:08] [SUCCESS] [OmnipathR] Removing all cache contents from `/home/biocbuild/.cache/OmnipathR`. [2023-04-11 00:52:08] [TRACE] [OmnipathR] Pandoc version: `2.7.3`. [2023-04-11 00:52:08] [TRACE] [OmnipathR] Cache locked: FALSE * checking Rd files ... OK * 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 files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed wppi 30.506 0.320 30.826 random_walk 15.431 0.211 15.641 prioritization_genes 15.103 0.369 15.473 score_candidate_genes_from_PPI 14.846 0.056 14.902 weighted_adj 11.149 0.119 11.268 count_genes 8.273 0.643 8.025 wppi_data 6.295 0.076 6.370 filter_annot_with_network 5.923 0.160 6.082 common_neighbors 5.450 0.498 24.474 * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... ‘wppi_workflow.Rmd’ using ‘UTF-8’... OK NONE * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/home/biocbuild/bbs-3.16-bioc/meat/wppi.Rcheck/00check.log’ for details.
wppi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD INSTALL wppi ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.16-bioc/R/site-library’ * installing *source* package ‘wppi’ ... ** using staged installation ** R ** byte-compile and prepare package for lazy loading [2023-04-10 15:24:16] [INFO] [OmnipathR] Initialized cache: `/home/biocbuild/.cache/OmnipathR`. [2023-04-10 15:24:16] [TRACE] [OmnipathR] Running on a build server, wiping cache. [2023-04-10 15:24:16] [TRACE] [OmnipathR] Cache is at `/home/biocbuild/.cache/OmnipathR`. [2023-04-10 15:24:16] [TRACE] [OmnipathR] Contains 1 files. [2023-04-10 15:24:16] [TRACE] [OmnipathR] Cache is locked: FALSE. [2023-04-10 15:24:16] [SUCCESS] [OmnipathR] Removing all cache contents from `/home/biocbuild/.cache/OmnipathR`. [2023-04-10 15:24:16] [TRACE] [OmnipathR] Pandoc version: `2.7.3`. [2023-04-10 15:24:16] [TRACE] [OmnipathR] Cache locked: FALSE Note: wrong number of arguments to '/' ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location [2023-04-10 15:24:19] [INFO] [OmnipathR] Initialized cache: `/home/biocbuild/.cache/OmnipathR`. [2023-04-10 15:24:19] [TRACE] [OmnipathR] Running on a build server, wiping cache. [2023-04-10 15:24:19] [TRACE] [OmnipathR] Cache is at `/home/biocbuild/.cache/OmnipathR`. [2023-04-10 15:24:19] [TRACE] [OmnipathR] Contains 1 files. [2023-04-10 15:24:19] [TRACE] [OmnipathR] Cache is locked: FALSE. [2023-04-10 15:24:19] [SUCCESS] [OmnipathR] Removing all cache contents from `/home/biocbuild/.cache/OmnipathR`. [2023-04-10 15:24:19] [TRACE] [OmnipathR] Pandoc version: `2.7.3`. [2023-04-10 15:24:19] [TRACE] [OmnipathR] Cache locked: FALSE ** testing if installed package can be loaded from final location [2023-04-10 15:24:22] [INFO] [OmnipathR] Initialized cache: `/home/biocbuild/.cache/OmnipathR`. [2023-04-10 15:24:22] [TRACE] [OmnipathR] Running on a build server, wiping cache. [2023-04-10 15:24:22] [TRACE] [OmnipathR] Cache is at `/home/biocbuild/.cache/OmnipathR`. [2023-04-10 15:24:22] [TRACE] [OmnipathR] Contains 1 files. [2023-04-10 15:24:22] [TRACE] [OmnipathR] Cache is locked: FALSE. [2023-04-10 15:24:22] [SUCCESS] [OmnipathR] Removing all cache contents from `/home/biocbuild/.cache/OmnipathR`. [2023-04-10 15:24:22] [TRACE] [OmnipathR] Pandoc version: `2.7.3`. [2023-04-10 15:24:22] [TRACE] [OmnipathR] Cache locked: FALSE ** testing if installed package keeps a record of temporary installation path * DONE (wppi)
wppi.Rcheck/wppi-Ex.timings
name | user | system | elapsed | |
common_neighbors | 5.450 | 0.498 | 24.474 | |
count_genes | 8.273 | 0.643 | 8.025 | |
filter_annot_with_network | 5.923 | 0.160 | 6.082 | |
functional_annot | 1.266 | 0.092 | 2.015 | |
graph_from_op | 3.021 | 0.112 | 3.133 | |
in_omnipath | 3.014 | 0.085 | 3.099 | |
prioritization_genes | 15.103 | 0.369 | 15.473 | |
process_annot | 0.554 | 0.000 | 0.554 | |
random_walk | 15.431 | 0.211 | 15.641 | |
score_candidate_genes_from_PPI | 14.846 | 0.056 | 14.902 | |
subgraph_op | 3.086 | 0.000 | 3.086 | |
weighted_adj | 11.149 | 0.119 | 11.268 | |
wppi | 30.506 | 0.320 | 30.826 | |
wppi_data | 6.295 | 0.076 | 6.370 | |
wppi_go_data | 2.94 | 0.08 | 3.02 | |
wppi_hpo_data | 0.41 | 0.00 | 0.41 | |
wppi_omnipath_data | 2.802 | 0.000 | 2.802 | |