| Back to Build/check report for BioC 3.17 |
|
This page was generated on 2023-01-02 09:00:56 -0500 (Mon, 02 Jan 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| palomino5 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-12-25 r83502 ucrt) -- "Unsuffered Consequences" | 4165 |
| 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: Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 2141/2158 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| wppi 1.7.0 (landing page) Ana Galhoz
| palomino5 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ||||||||
| Package: wppi |
| Version: 1.7.0 |
| Command: F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:wppi.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings wppi_1.7.0.tar.gz |
| StartedAt: 2022-12-29 04:33:57 -0500 (Thu, 29 Dec 2022) |
| EndedAt: 2022-12-29 04:37:02 -0500 (Thu, 29 Dec 2022) |
| EllapsedTime: 184.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: wppi.Rcheck |
| Warnings: 0 |
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###
### Running command:
###
### F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:wppi.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings wppi_1.7.0.tar.gz
###
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* using log directory 'F:/biocbuild/bbs-3.17-bioc-rtools43/meat/wppi.Rcheck'
* using R Under development (unstable) (2022-12-25 r83502 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* R was compiled by
gcc.exe (GCC) 10.4.0
GNU Fortran (GCC) 10.4.0
* running under: Windows Server x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'wppi/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'wppi' version '1.7.0'
* 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 '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 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
[2022-12-29 04:34:31] [INFO] [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2022-12-29 04:34:31] [TRACE] [OmnipathR] Running on a build server, wiping cache.
[2022-12-29 04:34:31] [TRACE] [OmnipathR] Cache is at `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2022-12-29 04:34:31] [TRACE] [OmnipathR] Contains 1 files.
[2022-12-29 04:34:31] [TRACE] [OmnipathR] Cache is locked: FALSE.
[2022-12-29 04:34:31] [SUCCESS] [OmnipathR] Removing all cache contents from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2022-12-29 04:34:31] [TRACE] [OmnipathR] Pandoc version: `2.7.3`.
[2022-12-29 04:34:31] [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 25.19 0.25 25.45
score_candidate_genes_from_PPI 13.50 0.12 13.62
prioritization_genes 12.37 0.30 12.68
random_walk 11.73 0.14 11.88
weighted_adj 9.11 0.17 9.28
count_genes 7.75 0.53 7.43
filter_annot_with_network 5.68 0.05 5.71
wppi_data 5.52 0.06 5.58
common_neighbors 5.04 0.22 5.90
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 1 NOTE
See
'F:/biocbuild/bbs-3.17-bioc-rtools43/meat/wppi.Rcheck/00check.log'
for details.
wppi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL wppi ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.17-bioc/R/library' * installing *source* package 'wppi' ... ** using staged installation ** R ** byte-compile and prepare package for lazy loading [2022-12-28 16:03:12] [INFO] [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2022-12-28 16:03:12] [TRACE] [OmnipathR] Running on a build server, wiping cache. [2022-12-28 16:03:12] [TRACE] [OmnipathR] Cache is at `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2022-12-28 16:03:12] [TRACE] [OmnipathR] Contains 1 files. [2022-12-28 16:03:12] [TRACE] [OmnipathR] Cache is locked: FALSE. [2022-12-28 16:03:12] [SUCCESS] [OmnipathR] Removing all cache contents from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2022-12-28 16:03:12] [TRACE] [OmnipathR] Pandoc version: `2.7.3`. [2022-12-28 16:03:12] [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 [2022-12-28 16:03:17] [INFO] [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2022-12-28 16:03:17] [TRACE] [OmnipathR] Running on a build server, wiping cache. [2022-12-28 16:03:17] [TRACE] [OmnipathR] Cache is at `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2022-12-28 16:03:17] [TRACE] [OmnipathR] Contains 1 files. [2022-12-28 16:03:17] [TRACE] [OmnipathR] Cache is locked: FALSE. [2022-12-28 16:03:17] [SUCCESS] [OmnipathR] Removing all cache contents from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2022-12-28 16:03:17] [TRACE] [OmnipathR] Pandoc version: `2.7.3`. [2022-12-28 16:03:17] [TRACE] [OmnipathR] Cache locked: FALSE ** testing if installed package can be loaded from final location [2022-12-28 16:03:20] [INFO] [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2022-12-28 16:03:20] [TRACE] [OmnipathR] Running on a build server, wiping cache. [2022-12-28 16:03:20] [TRACE] [OmnipathR] Cache is at `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2022-12-28 16:03:20] [TRACE] [OmnipathR] Contains 1 files. [2022-12-28 16:03:20] [TRACE] [OmnipathR] Cache is locked: FALSE. [2022-12-28 16:03:20] [SUCCESS] [OmnipathR] Removing all cache contents from `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`. [2022-12-28 16:03:20] [TRACE] [OmnipathR] Pandoc version: `2.7.3`. [2022-12-28 16:03:20] [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 | 5.04 | 0.22 | 5.90 | |
| count_genes | 7.75 | 0.53 | 7.43 | |
| filter_annot_with_network | 5.68 | 0.05 | 5.71 | |
| functional_annot | 2.20 | 0.24 | 2.58 | |
| graph_from_op | 2.91 | 0.01 | 2.92 | |
| in_omnipath | 3.14 | 0.03 | 3.18 | |
| prioritization_genes | 12.37 | 0.30 | 12.68 | |
| process_annot | 1.00 | 0.02 | 1.03 | |
| random_walk | 11.73 | 0.14 | 11.88 | |
| score_candidate_genes_from_PPI | 13.50 | 0.12 | 13.62 | |
| subgraph_op | 3.09 | 0.02 | 3.11 | |
| weighted_adj | 9.11 | 0.17 | 9.28 | |
| wppi | 25.19 | 0.25 | 25.45 | |
| wppi_data | 5.52 | 0.06 | 5.58 | |
| wppi_go_data | 1.90 | 0.05 | 1.96 | |
| wppi_hpo_data | 1.05 | 0.00 | 1.04 | |
| wppi_omnipath_data | 2.8 | 0.0 | 2.8 | |