Felipe Albrecht
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/DeepBlueR |
| Branch: RELEASE_3_7 |
| Last Commit: 1692b08 |
| Last Changed Date: 2018-04-30 10:35:43 -0400 (Mon, 30 Apr 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:29:11 -0400 (Wed, 17 Oct 2018).
| Package 359/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| DeepBlueR 1.6.0 Felipe Albrecht
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: DeepBlueR |
| Version: 1.6.0 |
| Command: /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:DeepBlueR.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings DeepBlueR_1.6.0.tar.gz |
| StartedAt: 2018-10-15 23:42:23 -0400 (Mon, 15 Oct 2018) |
| EndedAt: 2018-10-15 23:46:45 -0400 (Mon, 15 Oct 2018) |
| EllapsedTime: 262.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: DeepBlueR.Rcheck |
| Warnings: 0 |
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### Running command:
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### /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:DeepBlueR.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings DeepBlueR_1.6.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.7-bioc/meat/DeepBlueR.Rcheck’
* using R version 3.5.1 Patched (2018-07-12 r74967)
* 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 ‘1.6.0’
* 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_enrich_regions_overlap 0.640 0.016 7.157
deepblue_liftover 0.468 0.024 6.307
deepblue_batch_export_results 0.336 0.008 9.953
deepblue_export_bed 0.172 0.016 5.084
* 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-3.7-bioc/meat/DeepBlueR.Rcheck/00check.log’
for details.
DeepBlueR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD INSTALL DeepBlueR ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.7-bioc/R/library’ * installing *source* package ‘DeepBlueR’ ... ** 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 * DONE (DeepBlueR)
DeepBlueR.Rcheck/DeepBlueR-Ex.timings
| name | user | system | elapsed | |
| deepblue_aggregate | 0.116 | 0.016 | 3.725 | |
| deepblue_batch_export_results | 0.336 | 0.008 | 9.953 | |
| deepblue_binning | 0.048 | 0.000 | 0.968 | |
| deepblue_cache_status | 0.000 | 0.000 | 0.002 | |
| deepblue_cancel_request | 0.016 | 0.000 | 0.295 | |
| deepblue_chromosomes | 0.044 | 0.004 | 0.392 | |
| deepblue_clear_cache | 0.000 | 0.000 | 0.001 | |
| deepblue_collection_experiments_count | 0.076 | 0.000 | 0.596 | |
| deepblue_commands | 0.128 | 0.000 | 0.754 | |
| deepblue_count_gene_ontology_terms | 0.428 | 0.000 | 1.193 | |
| deepblue_count_regions | 0.028 | 0.004 | 0.627 | |
| deepblue_coverage | 0.040 | 0.000 | 0.955 | |
| deepblue_delete_request_from_cache | 0.004 | 0.000 | 0.003 | |
| deepblue_diff | 0.116 | 0.000 | 0.925 | |
| deepblue_distinct_column_values | 0.044 | 0.000 | 1.981 | |
| deepblue_download_request_data | 0.744 | 0.000 | 2.874 | |
| deepblue_echo | 0.008 | 0.004 | 0.291 | |
| deepblue_enrich_regions_go_terms | 0.060 | 0.004 | 3.609 | |
| deepblue_enrich_regions_overlap | 0.640 | 0.016 | 7.157 | |
| deepblue_export_bed | 0.172 | 0.016 | 5.084 | |
| deepblue_export_meta_data | 0.076 | 0.004 | 0.505 | |
| deepblue_export_tab | 0.084 | 0.008 | 3.861 | |
| deepblue_extend | 0.032 | 0.008 | 0.634 | |
| deepblue_extract_ids | 0.000 | 0.000 | 0.001 | |
| deepblue_extract_names | 0.004 | 0.000 | 0.002 | |
| deepblue_faceting_experiments | 0.024 | 0.004 | 0.623 | |
| deepblue_filter_regions | 0.016 | 0.004 | 2.599 | |
| deepblue_find_motif | 0.028 | 0.000 | 0.293 | |
| deepblue_flank | 0.040 | 0.000 | 0.591 | |
| deepblue_get_biosource_children | 0.020 | 0.004 | 0.315 | |
| deepblue_get_biosource_parents | 0.016 | 0.000 | 0.299 | |
| deepblue_get_biosource_related | 0.016 | 0.004 | 0.295 | |
| deepblue_get_biosource_synonyms | 0.016 | 0.004 | 0.366 | |
| deepblue_get_experiments_by_query | 0.016 | 0.000 | 0.304 | |
| deepblue_get_regions | 0.072 | 0.000 | 1.048 | |
| deepblue_get_request_data | 0.072 | 0.000 | 1.706 | |
| deepblue_info | 0.040 | 0.000 | 0.325 | |
| deepblue_input_regions | 0.024 | 0.000 | 0.530 | |
| deepblue_intersection | 0.056 | 0.000 | 2.013 | |
| deepblue_is_biosource | 0.016 | 0.000 | 0.294 | |
| deepblue_liftover | 0.468 | 0.024 | 6.307 | |
| deepblue_list_annotations | 0.028 | 0.000 | 0.372 | |
| deepblue_list_biosources | 0.012 | 0.008 | 0.320 | |
| deepblue_list_cached_requests | 0.000 | 0.000 | 0.003 | |
| deepblue_list_column_types | 0.072 | 0.000 | 0.441 | |
| deepblue_list_epigenetic_marks | 0.468 | 0.004 | 1.775 | |
| deepblue_list_experiments | 0.176 | 0.000 | 0.779 | |
| deepblue_list_expressions | 0.100 | 0.004 | 0.575 | |
| deepblue_list_gene_models | 0.016 | 0.000 | 0.260 | |
| deepblue_list_genes | 0.300 | 0.000 | 2.179 | |
| deepblue_list_genomes | 0.016 | 0.000 | 0.318 | |
| deepblue_list_in_use | 0.348 | 0.008 | 1.949 | |
| deepblue_list_projects | 0.020 | 0.000 | 0.324 | |
| deepblue_list_recent_experiments | 0.024 | 0.000 | 0.284 | |
| deepblue_list_requests | 0.016 | 0.000 | 0.270 | |
| deepblue_list_samples | 0.164 | 0.004 | 1.010 | |
| deepblue_list_similar_biosources | 0.028 | 0.000 | 0.411 | |
| deepblue_list_similar_epigenetic_marks | 0.028 | 0.000 | 0.311 | |
| deepblue_list_similar_experiments | 0.016 | 0.004 | 0.856 | |
| deepblue_list_similar_genomes | 0.012 | 0.000 | 0.266 | |
| deepblue_list_similar_projects | 0.016 | 0.000 | 0.277 | |
| deepblue_list_similar_techniques | 0.020 | 0.004 | 0.273 | |
| deepblue_list_techniques | 0.028 | 0.000 | 0.283 | |
| deepblue_merge_queries | 0.048 | 0.000 | 0.861 | |
| deepblue_meta_data_to_table | 0.076 | 0.004 | 0.847 | |
| deepblue_name_to_id | 0.048 | 0.004 | 1.207 | |
| deepblue_overlap | 0.076 | 0.000 | 0.977 | |
| deepblue_preview_experiment | 0.016 | 0.000 | 0.273 | |
| deepblue_query_cache | 0.088 | 0.000 | 1.214 | |
| deepblue_query_experiment_type | 0.044 | 0.004 | 2.819 | |
| deepblue_reset_options | 0.004 | 0.000 | 0.000 | |
| deepblue_score_matrix | 0.04 | 0.00 | 1.03 | |
| deepblue_search | 0.036 | 0.000 | 0.577 | |
| deepblue_select_annotations | 0.020 | 0.000 | 0.291 | |
| deepblue_select_column | 0.276 | 0.000 | 1.438 | |
| deepblue_select_experiments | 0.020 | 0.000 | 0.295 | |
| deepblue_select_expressions | 0.024 | 0.000 | 0.425 | |
| deepblue_select_genes | 0.024 | 0.000 | 0.412 | |
| deepblue_select_regions | 0.036 | 0.000 | 2.291 | |
| deepblue_tiling_regions | 0.028 | 0.000 | 0.306 | |