BioC experimental data: CHECK report for miRNATarget on petty

Package: miRNATarget

Version: 1.6.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings miRNATarget_1.6.0.tar.gz

StartedAt: 2015-10-07 09:37:27 -0700 (Wed, 07 Oct 2015)

EndedAt: 2015-10-07 09:38:40 -0700 (Wed, 07 Oct 2015)

EllapsedTime: 72.5 seconds

RetCode: 0

Status:  OK

CheckDir: miRNATarget.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings miRNATarget_1.6.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.1-data-experiment/meat/miRNATarget.Rcheck’
* using R version 3.2.2 Patched (2015-08-14 r69078)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘miRNATarget/DESCRIPTION’ ... OK
* this is package ‘miRNATarget’ 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 ... NOTE
Found the following hidden files and directories:
  vignettes/.goutputstream-8N717W
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘miRNATarget’ can be installed ... [4s/6s] OK
* checking installed package size ... NOTE
  installed size is 59.6Mb
  sub-directories of 1Mb or more:
    data  59.3Mb
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... 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 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [19s/20s] 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: 3 NOTEs
See
  ‘/Users/biocbuild/bbs-3.1-data-experiment/meat/miRNATarget.Rcheck/00check.log’
for details.

* installing *source* package ‘miRNATarget’ ...
** data
** inst
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (miRNATarget)

name	user	system	elapsed
HS_conv_id	0.025	0.003	0.028
HS_refseq_to_affy_hc_g110	0.008	0.001	0.008
HS_refseq_to_affy_hg_focus	0.032	0.002	0.033
HS_refseq_to_affy_hg_u133_plus_2	0.092	0.004	0.096
HS_refseq_to_affy_hg_u133a	0.057	0.001	0.059
HS_refseq_to_affy_hg_u133a_2	0.072	0.000	0.073
HS_refseq_to_affy_hg_u133b	0.032	0.000	0.033
HS_refseq_to_affy_hg_u95a	0.036	0.001	0.037
HS_refseq_to_affy_hg_u95av2	0.037	0.002	0.038
HS_refseq_to_affy_hg_u95b	0.045	0.001	0.046
HS_refseq_to_affy_hg_u95c	0.016	0.001	0.016
HS_refseq_to_affy_hg_u95d	0.010	0.001	0.011
HS_refseq_to_affy_hg_u95e	0.016	0.000	0.016
HS_refseq_to_affy_huex_1_0_st_v2	1.627	0.045	1.672
HS_refseq_to_affy_hugene_1_0_st_v1	0.073	0.002	0.075
HS_refseq_to_affy_hugenefl	0.021	0.001	0.022
HS_refseq_to_affy_u133_x3p	0.105	0.003	0.107
HS_refseq_to_agilent_cgh_44b	0.022	0.001	0.023
HS_refseq_to_agilent_wholegenome	0.113	0.021	0.133
HS_refseq_to_canonical_transcript_stable_id	0.099	0.019	0.118
HS_refseq_to_ccds	0.060	0.003	0.063
HS_refseq_to_codelink	0.059	0.002	0.061
HS_refseq_to_efg_agilent_sureprint_g3_ge_8x60k	0.004	0.001	0.005
HS_refseq_to_efg_agilent_wholegenome_4x44k_v1	0.004	0.001	0.004
HS_refseq_to_efg_agilent_wholegenome_4x44k_v2	0.004	0.000	0.005
HS_refseq_to_embl	1.199	0.025	1.226
HS_refseq_to_ensembl_exon_id	0.004	0.001	0.004
HS_refseq_to_ensembl_gene_id	0.079	0.001	0.079
HS_refseq_to_ensembl_peptide_id	0.066	0.001	0.067
HS_refseq_to_ensembl_transcript_id	0.085	0.002	0.087
HS_refseq_to_entrezgene	0.077	0.001	0.078
HS_refseq_to_hgnc_id	0.068	0.001	0.069
HS_refseq_to_hgnc_symbol	0.074	0.002	0.076
HS_refseq_to_hgnc_transcript_name	0.084	0.001	0.086
HS_refseq_to_illumina_humanht_12	0.085	0.002	0.087
HS_refseq_to_illumina_humanwg_6_v1	0.211	0.002	0.212
HS_refseq_to_illumina_humanwg_6_v2	0.065	0.000	0.066
HS_refseq_to_illumina_humanwg_6_v3	0.078	0.001	0.079
HS_refseq_to_interpro	0.194	0.003	0.197
HS_refseq_to_ipi	0.164	0.008	0.171
HS_refseq_to_merops	0.008	0.000	0.008
HS_refseq_to_pdb	0.364	0.005	0.369
HS_refseq_to_pfam	0.098	0.001	0.099
HS_refseq_to_phalanx_onearray	0.058	0.001	0.059
HS_refseq_to_protein_id	1.339	0.010	1.349
HS_refseq_to_refseq_dna	0.083	0.004	0.087
HS_refseq_to_refseq_genomic	0.003	0.000	0.003
HS_refseq_to_refseq_peptide	0.144	0.001	0.145
HS_refseq_to_rfam	0.004	0.000	0.005
HS_refseq_to_rfam_gene_name	0.002	0.001	0.003
HS_refseq_to_rfam_transcript_name	0.003	0.000	0.003
HS_refseq_to_smart	0.059	0.001	0.059
HS_refseq_to_tigrfam	0.009	0.000	0.009
HS_refseq_to_ucsc	0.144	0.002	0.147
HS_refseq_to_unigene	0.105	0.002	0.109
HS_refseq_to_uniprot_genename	0.068	0.001	0.069
HS_refseq_to_uniprot_genename_transcript_name	0.003	0.001	0.004
HS_refseq_to_uniprot_sptrembl	0.003	0.000	0.004
HS_refseq_to_uniprot_swissprot	0.003	0.000	0.004
HS_refseq_to_uniprot_swissprot_accession	0.004	0.001	0.004
HS_refseq_to_wikigene_id	0.004	0.001	0.004
HS_refseq_to_wikigene_name	0.274	0.004	0.278
MM_conv_id	0.004	0.000	0.005
MM_refseq_to_affy_mg_u74a	0.021	0.000	0.022
MM_refseq_to_affy_mg_u74av2	0.021	0.000	0.022
MM_refseq_to_affy_mg_u74b	0.017	0.000	0.017
MM_refseq_to_affy_mg_u74bv2	0.017	0.001	0.018
MM_refseq_to_affy_mg_u74c	0.006	0.001	0.007
MM_refseq_to_affy_mg_u74cv2	0.013	0.001	0.014
MM_refseq_to_affy_moe430a	0.042	0.000	0.042
MM_refseq_to_affy_moe430b	0.021	0.000	0.021
MM_refseq_to_affy_moex_1_0_st_v1	0.526	0.005	0.531
MM_refseq_to_affy_mogene_1_0_st_v1	0.059	0.002	0.061
MM_refseq_to_affy_mouse430_2	0.071	0.001	0.072
MM_refseq_to_affy_mouse430a_2	0.047	0.001	0.048
MM_refseq_to_affy_mu11ksuba	0.019	0.001	0.020
MM_refseq_to_affy_mu11ksubb	0.011	0.000	0.012
MM_refseq_to_agilent_wholegenome	0.079	0.005	0.085
MM_refseq_to_canonical_transcript_stable_id	0.078	0.006	0.083
MM_refseq_to_ccds	0.114	0.004	0.118
MM_refseq_to_codelink	0.042	0.001	0.042
MM_refseq_to_efg_agilent_sureprint_g3_ge_8x60k	0.003	0.001	0.004
MM_refseq_to_efg_agilent_wholegenome_4x44k_v1	0.004	0.001	0.005
MM_refseq_to_efg_agilent_wholegenome_4x44k_v2	0.004	0.000	0.005
MM_refseq_to_embl	0.411	0.005	0.417
MM_refseq_to_ensembl_exon_id	0.003	0.001	0.005
MM_refseq_to_ensembl_gene_id	0.052	0.001	0.053
MM_refseq_to_ensembl_peptide_id	0.052	0.002	0.054
MM_refseq_to_ensembl_transcript_id	0.057	0.002	0.059
MM_refseq_to_entrezgene	0.058	0.002	0.059
MM_refseq_to_fantom	0.303	0.010	0.312
MM_refseq_to_illumina_mousewg_6_v1	0.244	0.002	0.246
MM_refseq_to_illumina_mousewg_6_v2	0.068	0.001	0.069
MM_refseq_to_interpro	0.147	0.003	0.149
MM_refseq_to_ipi	0.002	0.001	0.003
MM_refseq_to_merops	0.005	0.000	0.006
MM_refseq_to_mgi_id	0.049	0.001	0.050
MM_refseq_to_mgi_symbol	0.048	0.001	0.050
MM_refseq_to_mgi_transcript_name	0.051	0.001	0.052
MM_refseq_to_pdb	0.080	0.002	0.081
MM_refseq_to_pfam	0.086	0.001	0.086
MM_refseq_to_phalanx_onearray	0.055	0.001	0.055
MM_refseq_to_protein_id	0.467	0.006	0.473
MM_refseq_to_refseq_dna	0.337	0.025	0.363
MM_refseq_to_refseq_peptide	0.094	0.002	0.096
MM_refseq_to_rfam	0.004	0.000	0.004
MM_refseq_to_rfam_gene_name	0.003	0.000	0.003
MM_refseq_to_rfam_transcript_name	0.003	0.001	0.003
MM_refseq_to_smart	0.039	0.001	0.039
MM_refseq_to_tigrfam	0.007	0.000	0.007
MM_refseq_to_ucsc	0.046	0.001	0.046
MM_refseq_to_unigene	0.063	0.001	0.063
MM_refseq_to_uniprot_genename	0.044	0.001	0.044
MM_refseq_to_uniprot_genename_transcript_name	0.004	0.001	0.004
MM_refseq_to_uniprot_sptrembl	0.004	0.000	0.004
MM_refseq_to_uniprot_swissprot	0.003	0.001	0.004
MM_refseq_to_uniprot_swissprot_accession	0.004	0.001	0.004
MM_refseq_to_wikigene_id	0.003	0.000	0.003
MM_refseq_to_wikigene_name	0.046	0.001	0.047
TBL2	1.289	0.138	1.427
TBL2_HS	2.091	0.286	2.378
TBL2_MM	1.172	0.183	1.355
conv_id	0.004	0.000	0.004
id_conv	0.045	0.001	0.047