Florian Auer
| Snapshot Date: 2022-03-17 13:55:23 -0400 (Thu, 17 Mar 2022) |
| git_url: https://git.bioconductor.org/packages/ndexr |
| git_branch: master |
| git_last_commit: ec2b9fb |
| git_last_commit_date: 2021-10-26 12:35:34 -0400 (Tue, 26 Oct 2021) |
| Back to Multiple platform build/check report for BioC 3.15 |
|
This page was generated on 2022-03-18 11:08:09 -0400 (Fri, 18 Mar 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | R Under development (unstable) (2022-02-17 r81757) -- "Unsuffered Consequences" | 4334 |
| riesling1 | Windows Server 2019 Standard | x64 | R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" | 4097 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-02-17 r81757 ucrt) -- "Unsuffered Consequences" | 4083 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2022-03-02 r81842) -- "Unsuffered Consequences" | 4134 |
| 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 ndexr package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ndexr.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1282/2090 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| ndexr 1.17.0 (landing page) Florian Auer
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| riesling1 | Windows Server 2019 Standard / x64 | OK | OK | OK | OK | |||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: ndexr |
| Version: 1.17.0 |
| Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:ndexr.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings ndexr_1.17.0.tar.gz |
| StartedAt: 2022-03-17 19:43:18 -0400 (Thu, 17 Mar 2022) |
| EndedAt: 2022-03-17 19:44:38 -0400 (Thu, 17 Mar 2022) |
| EllapsedTime: 79.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: ndexr.Rcheck |
| Warnings: 0 |
##############################################################################
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###
### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:ndexr.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings ndexr_1.17.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/ndexr.Rcheck'
* using R Under development (unstable) (2021-11-21 r81221)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'ndexr/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ndexr' version '1.17.0'
* 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 'ndexr' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Deprecated license: BSD
* 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 ... NOTE
Package in Depends field not imported from: 'igraph'
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
Unexported object imported by a ':::' call: 'httr:::default_ua'
See the note in ?`:::` about the use of this operator.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
ndex_create_network: no visible global function definition for 'tail'
ndex_rest_DELETE: no visible global function definition for
'packageVersion'
ndex_rest_GET: no visible global function definition for
'packageVersion'
ndex_rest_POST: no visible global function definition for
'packageVersion'
ndex_rest_PUT: no visible global function definition for
'packageVersion'
rcx_fromRCXgraph: no visible binding for global variable 'po'
rcx_toRCXgraph: no visible global function definition for 'V'
rcx_toRCXgraph: no visible global function definition for 'V<-'
rcx_toRCXgraph: no visible global function definition for 'E'
rcx_toRCXgraph: no visible global function definition for 'E<-'
rcxgraph_fromRCX: no visible global function definition for 'V'
rcxgraph_fromRCX: no visible global function definition for 'V<-'
rcxgraph_fromRCX: no visible global function definition for 'E'
rcxgraph_fromRCX: no visible global function definition for 'E<-'
rcxgraph_toRCX: no visible binding for global variable 'po'
Undefined global functions or variables:
E E<- V V<- packageVersion po tail
Consider adding
importFrom("utils", "packageVersion", "tail")
to your NAMESPACE file.
* 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
Running 'testthat.R'
OK
* 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: 3 NOTEs
See
'D:/biocbuild/bbs-3.15-bioc/meat/ndexr.Rcheck/00check.log'
for details.
ndexr.Rcheck/00install.out
##############################################################################
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###
### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL ndexr
###
##############################################################################
##############################################################################
* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'ndexr' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'ndexr'
finding HTML links ... done
listToRCode html
ndex_conf_header html
ndex_config html
ndex_connect html
ndex_create_group html
ndex_create_network html
ndex_create_user html
ndex_delete_group html
ndex_delete_network html
ndex_delete_user html
ndex_find_groups html
ndex_find_networks html
ndex_find_user_byId html
ndex_find_user_byName html
ndex_find_users html
ndex_get_group html
ndex_get_network html
ndex_group_delete_membership html
ndex_group_list_networks html
ndex_group_list_users html
ndex_group_network_get_permission html
ndex_group_set_membership html
ndex_helper_encodeParams html
ndex_helper_getApi html
ndex_helper_httpResponseHandler html
ndex_internal_addAspects html
ndex_network_aspect_get_metadata html
ndex_network_delete_permission html
ndex_network_get_aspect html
ndex_network_get_metadata html
ndex_network_get_permission html
ndex_network_get_provenance html
ndex_network_get_summary html
ndex_network_set_systemProperties html
ndex_network_update_aspect html
ndex_network_update_permission html
ndex_network_update_profile html
ndex_rest_DELETE html
ndex_rest_GET html
ndex_rest_POST html
ndex_rest_PUT html
ndex_update_group html
ndex_update_network html
ndex_update_user html
ndex_user_change_password html
ndex_user_forgot_password html
ndex_user_get_networksummary html
ndex_user_get_showcase html
ndex_user_list_groups html
ndex_user_list_permissions html
ndex_user_mail_password html
ndex_user_show_group html
ndex_user_show_permission html
ndex_verify_user html
ndexr-package html
ngraph_toRCX html
print.NDExConnection html
print.RCX html
rcx_asNewNetwork html
rcx_aspect_toJSON html
rcx_fromJSON html
rcx_new html
rcx_toJSON html
rcx_toNGraph html
rcx_toRCXgraph html
rcx_updateMetaData html
rcxgraph_toRCX html
** 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 (ndexr)
Making 'packages.html' ...Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
DESCRIPTION file of package 'TBSignatureProfiler' is missing or broken
done
ndexr.Rcheck/tests/testthat.Rout
R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)
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(ndexr)
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
>
> test_check("ndexr")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 148 ]
>
> proc.time()
user system elapsed
19.31 0.96 33.17
ndexr.Rcheck/ndexr-Ex.timings
| name | user | system | elapsed | |
| listToRCode | 0 | 0 | 0 | |
| ndex_conf_header | 0 | 0 | 0 | |
| ndex_config | 0 | 0 | 0 | |
| ndex_connect | 0.09 | 0.02 | 0.47 | |
| ndex_create_group | 0 | 0 | 0 | |
| ndex_create_network | 0 | 0 | 0 | |
| ndex_create_user | 0 | 0 | 0 | |
| ndex_delete_group | 0 | 0 | 0 | |
| ndex_delete_network | 0 | 0 | 0 | |
| ndex_delete_user | 0 | 0 | 0 | |
| ndex_find_groups | 0.05 | 0.00 | 0.34 | |
| ndex_find_networks | 0.14 | 0.00 | 0.69 | |
| ndex_find_user_byId | 0.03 | 0.00 | 0.35 | |
| ndex_find_user_byName | 0.02 | 0.00 | 0.23 | |
| ndex_find_users | 0.01 | 0.00 | 0.23 | |
| ndex_get_group | 0.02 | 0.00 | 0.35 | |
| ndex_get_network | 0.28 | 0.03 | 0.64 | |
| ndex_group_delete_membership | 0 | 0 | 0 | |
| ndex_group_list_networks | 0.05 | 0.00 | 0.47 | |
| ndex_group_list_users | 0.01 | 0.00 | 0.28 | |
| ndex_group_network_get_permission | 0.03 | 0.00 | 0.36 | |
| ndex_group_set_membership | 0 | 0 | 0 | |
| ndex_helper_encodeParams | 0 | 0 | 0 | |
| ndex_helper_getApi | 0.00 | 0.00 | 0.11 | |
| ndex_helper_httpResponseHandler | 0.02 | 0.00 | 0.12 | |
| ndex_internal_addAspects | 0 | 0 | 0 | |
| ndex_network_aspect_get_metadata | 0.08 | 0.00 | 0.41 | |
| ndex_network_delete_permission | 0 | 0 | 0 | |
| ndex_network_get_aspect | 0.03 | 0.00 | 0.47 | |
| ndex_network_get_metadata | 0.01 | 0.00 | 0.34 | |
| ndex_network_get_permission | 0 | 0 | 0 | |
| ndex_network_get_provenance | 0.05 | 0.00 | 0.38 | |
| ndex_network_get_summary | 0.02 | 0.00 | 0.34 | |
| ndex_network_set_systemProperties | 0 | 0 | 0 | |
| ndex_network_update_aspect | 0 | 0 | 0 | |
| ndex_network_update_permission | 0 | 0 | 0 | |
| ndex_network_update_profile | 0 | 0 | 0 | |
| ndex_rest_DELETE | 0.00 | 0.00 | 0.11 | |
| ndex_rest_GET | 0.03 | 0.00 | 0.12 | |
| ndex_rest_POST | 0.00 | 0.00 | 0.11 | |
| ndex_rest_PUT | 0.00 | 0.00 | 0.11 | |
| ndex_update_group | 0 | 0 | 0 | |
| ndex_update_network | 0 | 0 | 0 | |
| ndex_update_user | 0 | 0 | 0 | |
| ndex_user_change_password | 0 | 0 | 0 | |
| ndex_user_forgot_password | 0 | 0 | 0 | |
| ndex_user_get_networksummary | 0 | 0 | 0 | |
| ndex_user_get_showcase | 0.03 | 0.00 | 0.36 | |
| ndex_user_list_groups | 0 | 0 | 0 | |
| ndex_user_list_permissions | 0 | 0 | 0 | |
| ndex_user_mail_password | 0 | 0 | 0 | |
| ndex_user_show_group | 0 | 0 | 0 | |
| ndex_user_show_permission | 0 | 0 | 0 | |
| ndex_verify_user | 0 | 0 | 0 | |
| ndexr-package | 0 | 0 | 0 | |
| ngraph_toRCX | 0 | 0 | 0 | |
| print.NDExConnection | 0.00 | 0.00 | 0.22 | |
| print.RCX | 0 | 0 | 0 | |
| rcx_asNewNetwork | 0 | 0 | 0 | |
| rcx_aspect_toJSON | 0 | 0 | 0 | |
| rcx_fromJSON | 0.07 | 0.00 | 0.06 | |
| rcx_new | 0.01 | 0.00 | 0.02 | |
| rcx_toJSON | 0 | 0 | 0 | |
| rcx_toNGraph | 0 | 0 | 0 | |
| rcx_toRCXgraph | 0.00 | 0.01 | 0.02 | |
| rcx_updateMetaData | 0 | 0 | 0 | |
| rcxgraph_toRCX | 0.00 | 0.02 | 0.01 | |