Denes Turei
| Snapshot Date: 2022-03-17 13:55:23 -0400 (Thu, 17 Mar 2022) |
| git_url: https://git.bioconductor.org/packages/OmnipathR |
| git_branch: master |
| git_last_commit: 8677c01 |
| git_last_commit_date: 2022-02-23 18:36:10 -0400 (Wed, 23 Feb 2022) |
| Back to Multiple platform build/check report for BioC 3.15 |
|
This page was generated on 2022-03-18 11:08:13 -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 OmnipathR package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/OmnipathR.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 1338/2090 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| OmnipathR 3.3.20 (landing page) Denes Turei
| 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 | TIMEOUT | OK | |||||||||
| Package: OmnipathR |
| Version: 3.3.20 |
| Command: 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 |
| StartedAt: 2022-03-17 19:46:21 -0400 (Thu, 17 Mar 2022) |
| EndedAt: 2022-03-17 20:09:00 -0400 (Thu, 17 Mar 2022) |
| EllapsedTime: 1359.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: OmnipathR.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### 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
###
##############################################################################
##############################################################################
* 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.
OmnipathR.Rcheck/00install.out
##############################################################################
##############################################################################
###
### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL OmnipathR
###
##############################################################################
##############################################################################
* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'OmnipathR' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'OmnipathR'
finding HTML links ... done
OmnipathR html
all_uniprots html
ancestors html
annotated_network html
annotation_categories html
bioplex1 html
bioplex2 html
bioplex3 html
bioplex_all html
bioplex_hct116_1 html
bma_motif_es html
bma_motif_vs html
consensuspathdb_download html
consensuspathdb_raw_table html
curated_ligand_receptor_interactions html
curated_ligrec_stats html
descendants html
dot-omnipath_options_defaults html
enzsub_graph html
evex_download html
extra_attr_values html
extra_attrs html
extra_attrs_to_cols html
filter_by_resource html
filter_extra_attrs html
filter_intercell html
filter_intercell_network html
find_all_paths html
get_annotation_resources html
get_complex_genes html
get_complex_resources html
get_db html
get_enzsub_resources html
get_interaction_resources html
get_intercell_categories html
get_intercell_generic_categories html
get_intercell_resources html
get_ontology_db html
get_resources html
get_signed_ptms html
giant_component html
go_annot_download html
go_annot_slim html
go_ontology_download html
guide2pharma_download html
harmonizome_download html
has_extra_attrs html
hpo_download html
htridb_download html
import_all_interactions html
import_dorothea_interactions html
REDIRECT:topic Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/help/import_tfregulons_interactions.html
import_intercell_network html
import_kinaseextra_interactions html
REDIRECT:topic Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/help/import_KinaseExtra_Interactions.html
import_ligrecextra_interactions html
REDIRECT:topic Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/help/import_LigrecExtra_Interactions.html
import_lncrna_mrna_interactions html
import_mirnatarget_interactions html
REDIRECT:topic Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/help/import_miRNAtarget_Interactions.html
import_omnipath_annotations html
REDIRECT:topic Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/help/import_Omnipath_annotations.html
REDIRECT:topic Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/help/import_OmniPath_annotations.html
import_omnipath_complexes html
REDIRECT:topic Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/help/import_Omnipath_complexes.html
REDIRECT:topic Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/help/import_OmniPath_complexes.html
import_omnipath_enzsub html
REDIRECT:topic Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/help/import_OmniPath_PTMS.html
import_omnipath_interactions html
REDIRECT:topic Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/help/import_Omnipath_Interactions.html
REDIRECT:topic Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/help/import_OmniPath_Interactions.html
import_omnipath_intercell html
REDIRECT:topic Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/help/import_Omnipath_intercell.html
REDIRECT:topic Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/help/import_OmniPath_intercell.html
import_pathwayextra_interactions html
REDIRECT:topic Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-OmnipathR/00new/OmnipathR/help/import_PathwayExtra_Interactions.html
import_post_translational_interactions
html
import_small_molecule_protein_interactions
html
import_tf_mirna_interactions html
import_tf_target_interactions html
import_transcriptional_interactions html
inbiomap_download html
inbiomap_raw html
interaction_graph html
intercell_categories html
intercell_consensus_filter html
is_ontology_id html
kegg_info html
kegg_open html
kegg_pathway_annotations html
kegg_pathway_download html
kegg_pathway_list html
kegg_pathways_download html
kegg_picture html
kegg_process html
load_db html
nichenet_build_model html
nichenet_expression_data html
nichenet_gr_network html
nichenet_gr_network_evex html
nichenet_gr_network_harmonizome html
nichenet_gr_network_htridb html
nichenet_gr_network_omnipath html
nichenet_gr_network_pathwaycommons html
nichenet_gr_network_regnetwork html
nichenet_gr_network_remap html
nichenet_gr_network_trrust html
nichenet_ligand_activities html
nichenet_ligand_target_links html
nichenet_ligand_target_matrix html
nichenet_lr_network html
nichenet_lr_network_guide2pharma html
nichenet_lr_network_omnipath html
nichenet_lr_network_ramilowski html
nichenet_main html
nichenet_networks html
nichenet_optimization html
nichenet_remove_orphan_ligands html
nichenet_results_dir html
nichenet_signaling_network html
nichenet_signaling_network_cpdb html
nichenet_signaling_network_evex html
nichenet_signaling_network_harmonizome
html
nichenet_signaling_network_inbiomap html
nichenet_signaling_network_omnipath html
nichenet_signaling_network_pathwaycommons
html
nichenet_signaling_network_vinayagam html
nichenet_test html
nichenet_workarounds html
obo_parser html
omnipath_cache_autoclean html
omnipath_cache_clean html
omnipath_cache_clean_db html
omnipath_cache_download_ready html
omnipath_cache_filter_versions html
omnipath_cache_get html
omnipath_cache_key html
omnipath_cache_latest_or_new html
omnipath_cache_latest_version html
omnipath_cache_load html
omnipath_cache_move_in html
omnipath_cache_remove html
omnipath_cache_save html
omnipath_cache_search html
omnipath_cache_set_ext html
omnipath_cache_update_status html
omnipath_cache_wipe html
omnipath_get_config_path html
omnipath_load_config html
omnipath_log html
omnipath_logfile html
omnipath_msg html
omnipath_reset_config html
omnipath_save_config html
omnipath_set_cachedir html
omnipath_set_console_loglevel html
omnipath_set_logfile_loglevel html
omnipath_set_loglevel html
omnipath_show_db html
omnipath_unlock_cache_db html
ontology_ensure_id html
ontology_ensure_name html
ontology_name_id html
pathwaycommons_download html
pivot_annotations html
preppi_download html
preppi_filter html
print_bma_motif_es html
print_bma_motif_vs html
print_interactions html
print_path_es html
print_path_vs html
ramilowski_download html
regnetwork_directions html
regnetwork_download html
relations_list_to_table html
relations_table_to_graph html
relations_table_to_list html
remap_dorothea_download html
remap_filtered html
remap_tf_target_download html
resources_colname html
simplify_intercell_network html
swap_relations html
tfcensus_download html
translate_ids html
trrust_download html
uniprot_full_id_mapping_table html
uniprot_id_mapping_table html
unique_intercell_network html
vinayagam_download html
walk_ontology_tree html
with_extra_attrs html
with_references html
zenodo_download html
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
[2022-03-17 15:56:02] [INFO] [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2022-03-17 15:56:02] [INFO] [OmnipathR] Welcome to OmnipathR!
[2022-03-17 15:56:02] [TRACE] [OmnipathR] Cache locked: FALSE
** testing if installed package can be loaded from final location
[2022-03-17 15:56:03] [INFO] [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2022-03-17 15:56:04] [INFO] [OmnipathR] Welcome to OmnipathR!
[2022-03-17 15:56:04] [TRACE] [OmnipathR] Cache locked: FALSE
** testing if installed package keeps a record of temporary installation path
* DONE (OmnipathR)
Making 'packages.html' ...Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
DESCRIPTION file of package 'PoDCall' is missing or broken
done
OmnipathR.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.
> #!/usr/bin/env Rscript
>
> #
> # This file is part of the `OmnipathR` R package
> #
> # Copyright
> # 2018-2022
> # Saez Lab, Uniklinik RWTH Aachen, Heidelberg University
> #
> # File author(s): Alberto Valdeolivas
> # Dénes Türei (turei.denes@gmail.com)
> # Attila Gábor
> #
> # Distributed under the MIT (Expat) License.
> # See accompanying file `LICENSE` or find a copy at
> # https://directory.fsf.org/wiki/License:Expat
> #
> # Website: https://saezlab.github.io/omnipathr
> # Git repo: https://github.com/saezlab/OmnipathR
> #
>
>
> library(testthat)
> library(OmnipathR)
[2022-03-17 20:07:58] [INFO] [OmnipathR] Initialized cache: `C:\Users\biocbuild\AppData\Local\Cache\OmnipathR`.
[2022-03-17 20:07:58] [INFO] [OmnipathR] Welcome to OmnipathR!
[2022-03-17 20:07:58] [TRACE] [OmnipathR] Cache locked: FALSE
>
> test_check('OmnipathR')
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 34 ]
>
> proc.time()
user system elapsed
10.32 2.26 48.87
OmnipathR.Rcheck/OmnipathR-Ex.timings
| name | user | system | elapsed | |
| OmnipathR | 0 | 0 | 0 | |
| all_uniprots | 1.57 | 0.03 | 35.03 | |
| ancestors | 5.62 | 0.41 | 6.03 | |
| annotated_network | 0.28 | 0.02 | 1.46 | |
| annotation_categories | 28.85 | 0.01 | 31.20 | |
| bioplex1 | 1.60 | 0.11 | 2.40 | |
| bioplex2 | 1.61 | 0.20 | 2.86 | |
| bioplex3 | 2.39 | 0.29 | 5.14 | |
| bioplex_all | 17.55 | 1.15 | 20.18 | |
| bioplex_hct116_1 | 0.13 | 0.00 | 0.12 | |
| bma_motif_es | 0.09 | 0.00 | 0.70 | |
| bma_motif_vs | 0.08 | 0.00 | 0.68 | |
| consensuspathdb_download | 0 | 0 | 0 | |
| consensuspathdb_raw_table | 17.70 | 1.44 | 25.03 | |
| curated_ligand_receptor_interactions | 6.60 | 0.87 | 37.51 | |
| curated_ligrec_stats | 25.95 | 3.04 | 158.38 | |
| descendants | 0.75 | 0.06 | 0.81 | |
| enzsub_graph | 0.50 | 0.04 | 1.14 | |
| evex_download | 35.40 | 1.29 | 68.14 | |
| extra_attr_values | 3.35 | 0.03 | 3.41 | |
| extra_attrs | 2.47 | 0.00 | 2.47 | |
| extra_attrs_to_cols | 4 | 0 | 4 | |
| filter_by_resource | 0.95 | 0.04 | 1.00 | |
| filter_extra_attrs | 6.08 | 0.02 | 6.68 | |
| filter_intercell | 1.72 | 0.22 | 1.96 | |
| filter_intercell_network | 31.15 | 0.89 | 32.04 | |
| find_all_paths | 2.39 | 0.81 | 3.21 | |
| get_annotation_resources | 0.04 | 0.00 | 0.61 | |
| get_complex_genes | 0.26 | 0.00 | 0.26 | |
| get_complex_resources | 0.02 | 0.00 | 0.61 | |
| get_db | 0.53 | 0.05 | 0.78 | |
| get_enzsub_resources | 0.01 | 0.00 | 0.61 | |
| get_interaction_resources | 0.03 | 0.00 | 0.61 | |
| get_intercell_categories | 0.02 | 0.01 | 0.03 | |
| get_intercell_generic_categories | 0.02 | 0.00 | 0.02 | |
| get_intercell_resources | 0.09 | 0.00 | 0.67 | |
| get_ontology_db | 0.42 | 0.00 | 0.42 | |
| get_resources | 0.03 | 0.00 | 0.61 | |
| get_signed_ptms | 0.85 | 0.00 | 1.42 | |
| giant_component | 3.48 | 0.43 | 7.93 | |
| go_annot_download | 1.47 | 0.14 | 1.61 | |
| go_annot_slim | 0 | 0 | 0 | |
| go_ontology_download | 0.09 | 0.01 | 0.10 | |
| guide2pharma_download | 2.24 | 0.25 | 5.29 | |
| harmonizome_download | 0.47 | 0.02 | 0.87 | |
| has_extra_attrs | 2.23 | 0.00 | 2.24 | |
| hpo_download | 0.69 | 0.00 | 0.69 | |
| htridb_download | 1.30 | 0.14 | 3.76 | |
| import_all_interactions | 0.89 | 0.15 | 4.95 | |
| import_dorothea_interactions | 1.45 | 0.15 | 4.57 | |
| import_intercell_network | 4.17 | 0.54 | 12.23 | |
| import_kinaseextra_interactions | 0.94 | 0.10 | 4.33 | |
| import_ligrecextra_interactions | 0.55 | 0.17 | 3.08 | |
| import_lncrna_mrna_interactions | 0.53 | 0.11 | 1.92 | |
| import_mirnatarget_interactions | 0.64 | 0.14 | 3.17 | |
| import_omnipath_annotations | 0.52 | 0.04 | 1.91 | |
| import_omnipath_complexes | 0.07 | 0.00 | 0.65 | |
| import_omnipath_enzsub | 0.28 | 0.00 | 0.88 | |
| import_omnipath_interactions | 0.05 | 0.02 | 0.65 | |
| import_omnipath_intercell | 0.49 | 0.08 | 2.13 | |
| import_pathwayextra_interactions | 0.67 | 0.11 | 3.19 | |
| import_post_translational_interactions | 0.78 | 0.08 | 3.25 | |
| import_small_molecule_protein_interactions | 0.59 | 0.15 | 1.58 | |
| import_tf_mirna_interactions | 0.72 | 0.10 | 2.82 | |
| import_tf_target_interactions | 0.78 | 0.09 | 3.80 | |
| import_transcriptional_interactions | 1.14 | 0.12 | 4.44 | |
| inbiomap_download | 0 | 0 | 0 | |
| inbiomap_raw | 0 | 0 | 0 | |
| interaction_graph | 0.14 | 0.00 | 0.72 | |
| intercell_categories | 0.04 | 0.00 | 0.03 | |
| intercell_consensus_filter | 1.14 | 0.19 | 5.31 | |
| is_ontology_id | 0 | 0 | 0 | |
| kegg_info | 0.65 | 0.02 | 4.20 | |
| kegg_open | 0 | 0 | 0 | |
| kegg_pathway_annotations | 0 | 0 | 0 | |
| kegg_pathway_download | 1.14 | 0.00 | 3.00 | |
| kegg_pathway_list | 0.49 | 0.01 | 3.30 | |
| kegg_pathways_download | 0 | 0 | 0 | |
| kegg_picture | 0.12 | 0.02 | 1.67 | |
| kegg_process | 0.11 | 0.00 | 0.11 | |
| load_db | 0.22 | 0.00 | 0.22 | |
| nichenet_build_model | 7.93 | 0.22 | 46.92 | |
| nichenet_expression_data | 1.28 | 0.00 | 1.28 | |
| nichenet_gr_network | 4.08 | 0.23 | 7.28 | |
| nichenet_gr_network_evex | 38.88 | 1.06 | 40.52 | |
| nichenet_gr_network_harmonizome | 3.83 | 0.29 | 5.61 | |
| nichenet_gr_network_htridb | 0.06 | 0.00 | 0.06 | |
| nichenet_gr_network_omnipath | 5.20 | 0.31 | 5.51 | |
| nichenet_gr_network_pathwaycommons | 1.74 | 0.11 | 1.86 | |
| nichenet_gr_network_regnetwork | 1.09 | 0.22 | 1.30 | |
| nichenet_gr_network_remap | 0 | 0 | 0 | |
| nichenet_gr_network_trrust | 0.09 | 0.00 | 0.11 | |
| nichenet_ligand_activities | 0 | 0 | 0 | |
| nichenet_ligand_target_links | 0 | 0 | 0 | |
| nichenet_ligand_target_matrix | 0 | 0 | 0 | |
| nichenet_lr_network | 104.72 | 1.31 | 106.06 | |
| nichenet_lr_network_guide2pharma | 0.35 | 0.00 | 0.35 | |
| nichenet_lr_network_omnipath | 27.07 | 1.47 | 42.56 | |
| nichenet_lr_network_ramilowski | 0.14 | 0.00 | 0.16 | |
| nichenet_main | 0 | 0 | 0 | |
| nichenet_networks | 49.19 | 0.94 | 53.86 | |
| nichenet_optimization | 0 | 0 | 0 | |
| nichenet_remove_orphan_ligands | 45.67 | 0.35 | 46.51 | |
| nichenet_results_dir | 0 | 0 | 0 | |
| nichenet_signaling_network | 27.72 | 1.91 | 35.24 | |
| nichenet_signaling_network_cpdb | 0 | 0 | 0 | |
| nichenet_signaling_network_evex | 5.61 | 0.55 | 6.70 | |
| nichenet_signaling_network_harmonizome | 0.20 | 0.00 | 0.22 | |
| nichenet_signaling_network_inbiomap | 0 | 0 | 0 | |
| nichenet_signaling_network_omnipath | 4.45 | 0.00 | 4.45 | |
| nichenet_signaling_network_pathwaycommons | 1.50 | 0.09 | 1.60 | |
| nichenet_signaling_network_vinayagam | 0.44 | 0.03 | 0.58 | |
| nichenet_test | 0 | 0 | 0 | |
| nichenet_workarounds | 0 | 0 | 0 | |
| obo_parser | 0.22 | 0.00 | 0.39 | |
| omnipath_cache_autoclean | 0 | 0 | 0 | |
| omnipath_cache_clean | 0 | 0 | 0 | |
| omnipath_cache_clean_db | 0.15 | 0.00 | 0.16 | |
| omnipath_cache_download_ready | 1.00 | 0.11 | 1.31 | |
| omnipath_cache_filter_versions | 0.05 | 0.03 | 0.17 | |
| omnipath_cache_get | 0.03 | 0.02 | 0.05 | |
| omnipath_cache_key | 0 | 0 | 0 | |
| omnipath_cache_latest_or_new | 0.02 | 0.01 | 0.03 | |
| omnipath_cache_load | 0.42 | 0.04 | 2.30 | |
| omnipath_cache_move_in | 0.11 | 0.03 | 0.39 | |
| omnipath_cache_remove | 0.06 | 0.00 | 0.19 | |
| omnipath_cache_save | 0.14 | 0.00 | 0.48 | |
| omnipath_cache_search | 0 | 0 | 0 | |
| omnipath_cache_set_ext | 0.09 | 0.00 | 0.19 | |
| omnipath_cache_update_status | 0.05 | 0.00 | 0.04 | |
| omnipath_cache_wipe | 0 | 0 | 0 | |
| omnipath_get_config_path | 0 | 0 | 0 | |
| omnipath_load_config | 0 | 0 | 0 | |
| omnipath_log | 0 | 0 | 0 | |
| omnipath_logfile | 0.02 | 0.00 | 0.02 | |
| omnipath_msg | 0 | 0 | 0 | |
| omnipath_reset_config | 0 | 0 | 0 | |
| omnipath_save_config | 0 | 0 | 0 | |
| omnipath_set_cachedir | 0.01 | 0.00 | 0.02 | |
| omnipath_set_console_loglevel | 0 | 0 | 0 | |
| omnipath_set_logfile_loglevel | 0.02 | 0.00 | 0.01 | |
| omnipath_set_loglevel | 0 | 0 | 0 | |
| omnipath_show_db | 0.08 | 0.00 | 0.08 | |
| omnipath_unlock_cache_db | 0 | 0 | 0 | |
| ontology_ensure_id | 0.03 | 0.00 | 0.03 | |
| ontology_ensure_name | 0.01 | 0.00 | 0.02 | |
| ontology_name_id | 0.05 | 0.00 | 0.04 | |
| pathwaycommons_download | 6.08 | 0.62 | 8.07 | |
| pivot_annotations | 11.33 | 1.53 | 43.23 | |
| preppi_download | 6.31 | 1.80 | 22.41 | |
| preppi_filter | 8.38 | 1.81 | 7.28 | |
| print_bma_motif_es | 0.26 | 0.14 | 1.86 | |
| print_bma_motif_vs | 0.07 | 0.00 | 0.64 | |
| print_interactions | 1.70 | 0.28 | 8.57 | |
| print_path_es | 0.45 | 0.13 | 3.18 | |
| print_path_vs | 1.07 | 0.05 | 4.88 | |
| ramilowski_download | 0.26 | 0.03 | 2.97 | |
| regnetwork_directions | 0.30 | 0.00 | 0.53 | |
| regnetwork_download | 1.17 | 0.15 | 2.00 | |
| relations_list_to_table | 0.25 | 0.00 | 0.42 | |
| relations_table_to_graph | 0.09 | 0.00 | 0.09 | |
| relations_table_to_list | 0.14 | 0.02 | 0.22 | |
| remap_dorothea_download | 0.19 | 0.00 | 0.88 | |
| remap_filtered | 0 | 0 | 0 | |
| remap_tf_target_download | 0 | 0 | 0 | |
| resources_colname | 0.56 | 0.05 | 3.61 | |
| simplify_intercell_network | 45.19 | 0.73 | 57.78 | |
| swap_relations | 0.14 | 0.00 | 0.22 | |
| tfcensus_download | 0.38 | 0.00 | 0.76 | |
| translate_ids | 0.59 | 0.03 | 17.25 | |
| trrust_download | 0.77 | 0.05 | 5.92 | |
| uniprot_full_id_mapping_table | 0.78 | 0.03 | 12.49 | |
| uniprot_id_mapping_table | 0.26 | 0.05 | 6.06 | |
| unique_intercell_network | 38.11 | 0.29 | 38.41 | |
| vinayagam_download | 0.60 | 0.05 | 5.50 | |
| walk_ontology_tree | 0.26 | 0.05 | 0.31 | |
| with_extra_attrs | 3.82 | 0.19 | 9.30 | |
| with_references | 0.39 | 0.12 | 2.76 | |
| zenodo_download | 0 | 0 | 0 | |