BioC 3.4: CHECK report for DeepBlueR on moscato1

Package: DeepBlueR

Version: 0.99.2

Command: rm -rf DeepBlueR.buildbin-libdir DeepBlueR.Rcheck && mkdir DeepBlueR.buildbin-libdir DeepBlueR.Rcheck && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=DeepBlueR.buildbin-libdir DeepBlueR_0.99.2.tar.gz >DeepBlueR.Rcheck\00install.out 2>&1 && cp DeepBlueR.Rcheck\00install.out DeepBlueR-install.out && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD check --library=DeepBlueR.buildbin-libdir --install="check:DeepBlueR-install.out" --force-multiarch --no-vignettes --timings DeepBlueR_0.99.2.tar.gz

StartedAt: 2016-09-20 06:56:25 -0700 (Tue, 20 Sep 2016)

EndedAt: 2016-09-20 07:00:36 -0700 (Tue, 20 Sep 2016)

EllapsedTime: 250.2 seconds

RetCode: 0

Status:  OK

CheckDir: DeepBlueR.Rcheck

Warnings: 0

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### Running command:
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###   rm -rf DeepBlueR.buildbin-libdir DeepBlueR.Rcheck && mkdir DeepBlueR.buildbin-libdir DeepBlueR.Rcheck && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=DeepBlueR.buildbin-libdir DeepBlueR_0.99.2.tar.gz >DeepBlueR.Rcheck\00install.out 2>&1 && cp DeepBlueR.Rcheck\00install.out DeepBlueR-install.out  && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD check --library=DeepBlueR.buildbin-libdir --install="check:DeepBlueR-install.out" --force-multiarch --no-vignettes --timings DeepBlueR_0.99.2.tar.gz
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* using log directory 'D:/biocbld/bbs-3.4-bioc/meat/DeepBlueR.Rcheck'
* using R version 3.3.1 (2016-06-21)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'DeepBlueR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'DeepBlueR' version '0.99.2'
* 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 '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
* loading checks for arch 'i386'
** 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 loading without being on the library search path ... OK
* loading checks for arch 'x64'
** 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 loading without being on the library search path ... 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 ... 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 ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... 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: OK

install for i386

* installing *source* package 'DeepBlueR' ...
** R
** demo
** inst
** preparing 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

install for x64

* installing *source* package 'DeepBlueR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'DeepBlueR' as DeepBlueR_0.99.2.zip
* DONE (DeepBlueR)

name	user	system	elapsed
deepblue_aggregate	0.09	0.00	1.63
deepblue_batch_export_results	0.17	0.03	3.07
deepblue_cancel_request	0.02	0.00	0.39
deepblue_chromosomes	0.12	0.00	0.50
deepblue_collection_experiments_count	0.04	0.02	0.42
deepblue_commands	0.85	0.04	2.09
deepblue_count_regions	0.03	0.02	1.03
deepblue_coverage	0.04	0.00	0.91
deepblue_download_request_data	0.08	0.03	2.19
deepblue_echo	0.03	0.00	0.37
deepblue_extend	0.05	0.00	1.08
deepblue_extract_ids	0.01	0.00	0.01
deepblue_extract_names	0	0	0
deepblue_faceting_experiments	0.08	0.00	0.45
deepblue_filter_regions	0.03	0.00	0.53
deepblue_flank	0.05	0.00	1.03
deepblue_get_biosource_children	0.03	0.00	0.39
deepblue_get_biosource_parents	0.02	0.00	0.38
deepblue_get_biosource_related	0.01	0.01	0.39
deepblue_get_biosource_synonyms	0.03	0.00	0.40
deepblue_get_experiments_by_query	0.00	0.00	0.38
deepblue_get_regions	0.03	0.00	0.98
deepblue_get_request_data	0.07	0.02	1.61
deepblue_info	0.06	0.00	0.42
deepblue_input_regions	0.03	0.00	0.51
deepblue_intersection	0.06	0.00	1.53
deepblue_is_biosource	0.00	0.02	0.38
deepblue_list_annotations	0.05	0.00	0.42
deepblue_list_biosources	0.03	0.00	0.37
deepblue_list_column_types	0.12	0.00	0.63
deepblue_list_epigenetic_marks	0.63	0.00	1.56
deepblue_list_experiments	0.09	0.00	0.45
deepblue_list_gene_expressions	0.02	0.00	0.37
deepblue_list_gene_models	0.03	0.00	0.38
deepblue_list_genes	0.14	0.00	0.95
deepblue_list_genomes	0.02	0.01	0.39
deepblue_list_in_use	0.59	0.00	2.00
deepblue_list_projects	0.01	0.00	0.37
deepblue_list_recent_experiments	0.03	0.00	0.39
deepblue_list_requests	0.02	0.00	0.56
deepblue_list_samples	0.20	0.00	0.92
deepblue_list_similar_biosources	0.02	0.00	0.58
deepblue_list_similar_epigenetic_marks	0.04	0.00	0.40
deepblue_list_similar_experiments	0.01	0.00	2.47
deepblue_list_similar_genomes	0.02	0.00	0.40
deepblue_list_similar_projects	0.03	0.00	0.41
deepblue_list_similar_techniques	0.01	0.00	0.37
deepblue_list_techniques	0.05	0.00	0.39
deepblue_merge_queries	0.04	0.00	1.51
deepblue_name_to_id	0.05	0.00	1.17
deepblue_preview_experiment	0.01	0.00	0.37
deepblue_query_cache	0.06	0.00	1.92
deepblue_query_experiment_type	0.05	0.00	0.90
deepblue_score_matrix	0.06	0.00	0.89
deepblue_search	0.09	0.00	0.67
deepblue_select_annotations	0.02	0.00	0.51
deepblue_select_experiments	0.03	0.00	0.50
deepblue_select_gene_expressions	0.03	0.00	0.67
deepblue_select_genes	0.02	0.00	0.69
deepblue_select_regions	0.04	0.00	0.52
deepblue_tiling_regions	0.03	0.00	0.56

name	user	system	elapsed
deepblue_aggregate	0.11	0.00	1.58
deepblue_batch_export_results	0.26	0.02	2.74
deepblue_cancel_request	0.03	0.00	0.41
deepblue_chromosomes	0.14	0.00	1.89
deepblue_collection_experiments_count	0.07	0.00	0.43
deepblue_commands	1.10	0.00	2.33
deepblue_count_regions	0.05	0.00	0.90
deepblue_coverage	0.03	0.02	0.92
deepblue_download_request_data	0.17	0.03	2.13
deepblue_echo	0.03	0.00	0.41
deepblue_extend	0.06	0.00	1.01
deepblue_extract_ids	0	0	0
deepblue_extract_names	0	0	0
deepblue_faceting_experiments	0.13	0.00	0.50
deepblue_filter_regions	0.03	0.00	0.57
deepblue_flank	0.03	0.00	0.99
deepblue_get_biosource_children	0.03	0.00	0.39
deepblue_get_biosource_parents	0.03	0.00	0.39
deepblue_get_biosource_related	0.02	0.00	0.38
deepblue_get_biosource_synonyms	0.03	0.01	0.93
deepblue_get_experiments_by_query	0.01	0.00	0.41
deepblue_get_regions	0.04	0.00	0.90
deepblue_get_request_data	0.09	0.00	1.67
deepblue_info	0.08	0.00	0.45
deepblue_input_regions	0.01	0.00	0.50
deepblue_intersection	0.06	0.00	1.63
deepblue_is_biosource	0.00	0.00	0.61
deepblue_list_annotations	0.05	0.00	0.41
deepblue_list_biosources	0.03	0.00	0.40
deepblue_list_column_types	0.17	0.00	0.71
deepblue_list_epigenetic_marks	0.8	0.0	1.9
deepblue_list_experiments	0.09	0.00	0.45
deepblue_list_gene_expressions	0.03	0.00	0.38
deepblue_list_gene_models	0.00	0.00	0.39
deepblue_list_genes	0.15	0.00	0.96
deepblue_list_genomes	0.03	0.01	0.39
deepblue_list_in_use	0.71	0.00	2.25
deepblue_list_projects	0.00	0.02	0.36
deepblue_list_recent_experiments	0.02	0.00	0.38
deepblue_list_requests	0.03	0.00	0.64
deepblue_list_samples	0.23	0.00	0.93
deepblue_list_similar_biosources	0.06	0.00	0.61
deepblue_list_similar_epigenetic_marks	0.07	0.00	0.42
deepblue_list_similar_experiments	0.03	0.00	2.44
deepblue_list_similar_genomes	0.03	0.00	0.40
deepblue_list_similar_projects	0.01	0.00	0.38
deepblue_list_similar_techniques	0.03	0.00	0.40
deepblue_list_techniques	0.05	0.00	0.42
deepblue_merge_queries	0.06	0.00	1.50
deepblue_name_to_id	0.08	0.00	1.17
deepblue_preview_experiment	0.03	0.00	0.41
deepblue_query_cache	0.08	0.00	2.01
deepblue_query_experiment_type	0.07	0.00	0.90
deepblue_score_matrix	0.05	0.00	0.92
deepblue_search	0.11	0.00	0.70
deepblue_select_annotations	0.02	0.00	0.50
deepblue_select_experiments	0.01	0.00	0.50
deepblue_select_gene_expressions	0.03	0.00	0.70
deepblue_select_genes	0.03	0.00	0.69
deepblue_select_regions	0.04	0.00	0.53
deepblue_tiling_regions	0.03	0.00	0.53