Felipe Albrecht
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/DeepBlueR |
| Branch: RELEASE_3_9 |
| Last Commit: ea308c6 |
| Last Changed Date: 2019-05-02 11:54:02 -0400 (Thu, 02 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:09:15 -0400 (Wed, 16 Oct 2019).
| Package 404/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| DeepBlueR 1.10.0 Felipe Albrecht
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: DeepBlueR |
| Version: 1.10.0 |
| Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:DeepBlueR.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings DeepBlueR_1.10.0.tar.gz |
| StartedAt: 2019-10-16 01:02:40 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 01:07:22 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 282.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: DeepBlueR.Rcheck |
| Warnings: 0 |
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### Running command:
###
### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:DeepBlueR.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings DeepBlueR_1.10.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/DeepBlueR.Rcheck’
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘DeepBlueR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘DeepBlueR’ version ‘1.10.0’
* 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 ‘DeepBlueR’ 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 ... OK
* checking Rd files ... NOTE
prepare_Rd: deepblue_enrich_regions_fast.Rd:35-38: Dropping empty section \examples
* 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 or elapsed time > 5s
user system elapsed
deepblue_batch_export_results 0.37 0.032 5.122
* 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
‘/home/biocbuild/bbs-3.9-bioc/meat/DeepBlueR.Rcheck/00check.log’
for details.
DeepBlueR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL DeepBlueR ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’ * installing *source* package ‘DeepBlueR’ ... ** using staged installation ** R ** demo ** inst ** byte-compile and prepare package for lazy loading Called method: deepblue_list_column_types Reported status was: okay Called method: deepblue_info Reported status was: okay ** help *** installing help indices ** 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 (DeepBlueR)
DeepBlueR.Rcheck/DeepBlueR-Ex.timings
| name | user | system | elapsed | |
| deepblue_aggregate | 0.074 | 0.012 | 0.847 | |
| deepblue_batch_export_results | 0.370 | 0.032 | 5.122 | |
| deepblue_binning | 0.046 | 0.004 | 0.493 | |
| deepblue_cache_status | 0.003 | 0.000 | 0.003 | |
| deepblue_cancel_request | 0.014 | 0.004 | 0.237 | |
| deepblue_chromosomes | 0.072 | 0.004 | 0.298 | |
| deepblue_clear_cache | 0.001 | 0.000 | 0.002 | |
| deepblue_collection_experiments_count | 0.234 | 0.000 | 0.558 | |
| deepblue_commands | 0.096 | 0.003 | 0.607 | |
| deepblue_count_gene_ontology_terms | 0.217 | 0.001 | 0.542 | |
| deepblue_count_regions | 0.038 | 0.000 | 0.478 | |
| deepblue_coverage | 0.043 | 0.000 | 0.484 | |
| deepblue_delete_request_from_cache | 0.002 | 0.000 | 0.002 | |
| deepblue_diff | 0.130 | 0.024 | 0.633 | |
| deepblue_distinct_column_values | 0.039 | 0.004 | 0.494 | |
| deepblue_download_request_data | 0.252 | 0.020 | 1.741 | |
| deepblue_echo | 0.014 | 0.000 | 0.234 | |
| deepblue_enrich_regions_go_terms | 0.062 | 0.000 | 0.722 | |
| deepblue_enrich_regions_overlap | 0.532 | 0.012 | 3.359 | |
| deepblue_export_bed | 0.980 | 0.004 | 2.713 | |
| deepblue_export_meta_data | 0.060 | 0.000 | 0.377 | |
| deepblue_export_tab | 0.113 | 0.000 | 1.114 | |
| deepblue_extend | 0.052 | 0.000 | 0.493 | |
| deepblue_extract_ids | 0.001 | 0.000 | 0.001 | |
| deepblue_extract_names | 0.001 | 0.000 | 0.001 | |
| deepblue_faceting_experiments | 0.036 | 0.000 | 0.482 | |
| deepblue_filter_regions | 0.027 | 0.000 | 0.248 | |
| deepblue_find_motif | 0.030 | 0.000 | 0.251 | |
| deepblue_flank | 0.051 | 0.000 | 0.504 | |
| deepblue_get_biosource_children | 0.021 | 0.000 | 0.246 | |
| deepblue_get_biosource_parents | 0.018 | 0.000 | 0.254 | |
| deepblue_get_biosource_related | 0.021 | 0.000 | 0.248 | |
| deepblue_get_biosource_synonyms | 0.02 | 0.00 | 0.24 | |
| deepblue_get_experiments_by_query | 0.017 | 0.000 | 0.238 | |
| deepblue_get_regions | 0.045 | 0.000 | 0.486 | |
| deepblue_get_request_data | 0.073 | 0.004 | 0.929 | |
| deepblue_info | 0.037 | 0.003 | 0.261 | |
| deepblue_input_regions | 0.020 | 0.001 | 0.225 | |
| deepblue_intersection | 0.061 | 0.000 | 0.715 | |
| deepblue_is_biosource | 0.015 | 0.000 | 0.240 | |
| deepblue_liftover | 0.505 | 0.023 | 3.327 | |
| deepblue_list_annotations | 0.026 | 0.000 | 0.248 | |
| deepblue_list_biosources | 0.019 | 0.001 | 0.239 | |
| deepblue_list_cached_requests | 0.002 | 0.000 | 0.002 | |
| deepblue_list_column_types | 0.136 | 0.000 | 0.403 | |
| deepblue_list_epigenetic_marks | 0.557 | 0.007 | 1.041 | |
| deepblue_list_experiments | 0.232 | 0.016 | 0.721 | |
| deepblue_list_expressions | 0.265 | 0.017 | 0.560 | |
| deepblue_list_gene_models | 0.015 | 0.003 | 0.238 | |
| deepblue_list_genes | 0.348 | 0.031 | 0.928 | |
| deepblue_list_genomes | 0.017 | 0.000 | 0.238 | |
| deepblue_list_in_use | 0.605 | 0.004 | 1.499 | |
| deepblue_list_projects | 0.019 | 0.000 | 0.239 | |
| deepblue_list_recent_experiments | 0.030 | 0.004 | 0.254 | |
| deepblue_list_requests | 0.019 | 0.000 | 0.239 | |
| deepblue_list_samples | 0.176 | 0.003 | 0.619 | |
| deepblue_list_similar_biosources | 0.029 | 0.000 | 0.361 | |
| deepblue_list_similar_epigenetic_marks | 0.025 | 0.000 | 0.234 | |
| deepblue_list_similar_experiments | 0.019 | 0.000 | 0.761 | |
| deepblue_list_similar_genomes | 0.017 | 0.000 | 0.237 | |
| deepblue_list_similar_projects | 0.018 | 0.000 | 0.238 | |
| deepblue_list_similar_techniques | 0.022 | 0.000 | 0.242 | |
| deepblue_list_techniques | 0.030 | 0.000 | 0.251 | |
| deepblue_merge_queries | 0.063 | 0.000 | 0.729 | |
| deepblue_meta_data_to_table | 0.115 | 0.000 | 0.635 | |
| deepblue_name_to_id | 0.053 | 0.004 | 0.717 | |
| deepblue_overlap | 0.078 | 0.000 | 0.745 | |
| deepblue_preview_experiment | 0.015 | 0.000 | 0.242 | |
| deepblue_query_cache | 0.068 | 0.004 | 0.993 | |
| deepblue_query_experiment_type | 0.056 | 0.000 | 1.004 | |
| deepblue_reset_options | 0.001 | 0.000 | 0.000 | |
| deepblue_score_matrix | 0.053 | 0.000 | 0.529 | |
| deepblue_search | 0.048 | 0.004 | 0.544 | |
| deepblue_select_annotations | 0.023 | 0.004 | 0.250 | |
| deepblue_select_column | 0.428 | 0.004 | 0.931 | |
| deepblue_select_experiments | 0.018 | 0.000 | 0.239 | |
| deepblue_select_expressions | 0.033 | 0.000 | 0.391 | |
| deepblue_select_genes | 0.030 | 0.000 | 0.397 | |
| deepblue_select_regions | 0.033 | 0.000 | 0.301 | |
| deepblue_tiling_regions | 0.018 | 0.004 | 0.289 | |