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### Running command:
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###   D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:OmnipathR.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings OmnipathR_3.3.20.tar.gz
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* using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/OmnipathR.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 'OmnipathR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'OmnipathR' version '3.3.20'
* 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 'OmnipathR' 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
[2022-03-17 19:46:49] [INFO]    [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2022-03-17 19:46:49] [INFO]    [OmnipathR] Welcome to OmnipathR!
[2022-03-17 19:46:49] [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 R/sysdata.rda ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                                       user system elapsed
nichenet_lr_network                  104.72   1.31  106.06
nichenet_networks                     49.19   0.94   53.86
nichenet_remove_orphan_ligands        45.67   0.35   46.51
simplify_intercell_network            45.19   0.73   57.78
nichenet_gr_network_evex              38.88   1.06   40.52
unique_intercell_network              38.11   0.29   38.41
evex_download                         35.40   1.29   68.14
filter_intercell_network              31.15   0.89   32.04
nichenet_signaling_network            27.72   1.91   35.24
curated_ligrec_stats                  25.95   3.04  158.38
annotation_categories                 28.85   0.01   31.20
nichenet_lr_network_omnipath          27.07   1.47   42.56
consensuspathdb_raw_table             17.70   1.44   25.03
bioplex_all                           17.55   1.15   20.18
pivot_annotations                     11.33   1.53   43.23
preppi_filter                          8.38   1.81    7.28
nichenet_build_model                   7.93   0.22   46.92
preppi_download                        6.31   1.80   22.41
curated_ligand_receptor_interactions   6.60   0.87   37.51
pathwaycommons_download                6.08   0.62    8.07
nichenet_signaling_network_evex        5.61   0.55    6.70
filter_extra_attrs                     6.08   0.02    6.68
ancestors                              5.62   0.41    6.03
nichenet_gr_network_omnipath           5.20   0.31    5.51
import_intercell_network               4.17   0.54   12.23
nichenet_gr_network                    4.08   0.23    7.28
nichenet_gr_network_harmonizome        3.83   0.29    5.61
with_extra_attrs                       3.82   0.19    9.30
giant_component                        3.48   0.43    7.93
bioplex3                               2.39   0.29    5.14
guide2pharma_download                  2.24   0.25    5.29
print_interactions                     1.70   0.28    8.57
all_uniprots                           1.57   0.03   35.03
intercell_consensus_filter             1.14   0.19    5.31
trrust_download                        0.77   0.05    5.92
uniprot_full_id_mapping_table          0.78   0.03   12.49
vinayagam_download                     0.60   0.05    5.50
translate_ids                          0.59   0.03   17.25
uniprot_id_mapping_table               0.26   0.05    6.06
* 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: 1 NOTE
See
  'D:/biocbuild/bbs-3.15-bioc/meat/OmnipathR.Rcheck/00check.log'
for details.