BioC experimental data: CHECK report for miRNATarget on perceval

Package: miRNATarget

Version: 1.3.1

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch miRNATarget_1.3.1.tar.gz

StartedAt: 2015-04-08 10:18:56 -0700 (Wed, 08 Apr 2015)

EndedAt: 2015-04-08 10:20:37 -0700 (Wed, 08 Apr 2015)

EllapsedTime: 101.5 seconds

RetCode: 0

Status:  OK

CheckDir: miRNATarget.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch miRNATarget_1.3.1.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.0-data-experiment/meat/miRNATarget.Rcheck’
* using R version 3.1.3 (2015-03-09)
* 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 ‘1.3.1’
* 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/19s] 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 ... OK
* 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 ... [22s/24s] 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

NOTE: There were 2 notes.
See
  ‘/Users/biocbuild/bbs-3.0-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	0.033	0.007	0.039
HS_refseq_to_affy_hc_g110	0.008	0.000	0.008
HS_refseq_to_affy_hg_focus	0.026	0.002	0.029
HS_refseq_to_affy_hg_u133_plus_2	0.086	0.006	0.093
HS_refseq_to_affy_hg_u133a	0.076	0.001	0.079
HS_refseq_to_affy_hg_u133a_2	0.049	0.001	0.051
HS_refseq_to_affy_hg_u133b	0.026	0.001	0.028
HS_refseq_to_affy_hg_u95a	0.146	0.002	0.148
HS_refseq_to_affy_hg_u95av2	0.029	0.001	0.030
HS_refseq_to_affy_hg_u95b	0.018	0.001	0.019
HS_refseq_to_affy_hg_u95c	0.015	0.000	0.016
HS_refseq_to_affy_hg_u95d	0.010	0.001	0.010
HS_refseq_to_affy_hg_u95e	0.015	0.001	0.015
HS_refseq_to_affy_huex_1_0_st_v2	2.927	0.072	3.022
HS_refseq_to_affy_hugene_1_0_st_v1	0.070	0.003	0.074
HS_refseq_to_affy_hugenefl	0.020	0.001	0.022
HS_refseq_to_affy_u133_x3p	0.101	0.005	0.105
HS_refseq_to_agilent_cgh_44b	0.020	0.001	0.021
HS_refseq_to_agilent_wholegenome	0.332	0.027	0.360
HS_refseq_to_canonical_transcript_stable_id	0.095	0.007	0.103
HS_refseq_to_ccds	0.049	0.002	0.051
HS_refseq_to_codelink	0.048	0.002	0.050
HS_refseq_to_efg_agilent_sureprint_g3_ge_8x60k	0.003	0.001	0.005
HS_refseq_to_efg_agilent_wholegenome_4x44k_v1	0.004	0.001	0.005
HS_refseq_to_efg_agilent_wholegenome_4x44k_v2	0.004	0.000	0.004
HS_refseq_to_embl	0.969	0.019	0.990
HS_refseq_to_ensembl_exon_id	0.004	0.001	0.005
HS_refseq_to_ensembl_gene_id	0.076	0.001	0.077
HS_refseq_to_ensembl_peptide_id	0.069	0.001	0.070
HS_refseq_to_ensembl_transcript_id	0.269	0.008	0.280
HS_refseq_to_entrezgene	0.076	0.002	0.078
HS_refseq_to_hgnc_id	0.065	0.001	0.068
HS_refseq_to_hgnc_symbol	0.067	0.002	0.070
HS_refseq_to_hgnc_transcript_name	0.076	0.002	0.079
HS_refseq_to_illumina_humanht_12	0.077	0.003	0.081
HS_refseq_to_illumina_humanwg_6_v1	0.065	0.002	0.068
HS_refseq_to_illumina_humanwg_6_v2	0.060	0.002	0.063
HS_refseq_to_illumina_humanwg_6_v3	0.070	0.003	0.074
HS_refseq_to_interpro	0.269	0.014	0.286
HS_refseq_to_ipi	0.267	0.013	0.282
HS_refseq_to_merops	0.008	0.001	0.009
HS_refseq_to_pdb	0.120	0.003	0.125
HS_refseq_to_pfam	0.091	0.003	0.094
HS_refseq_to_phalanx_onearray	0.062	0.001	0.063
HS_refseq_to_protein_id	2.262	0.022	2.299
HS_refseq_to_refseq_dna	0.075	0.024	0.100
HS_refseq_to_refseq_genomic	0.003	0.001	0.003
HS_refseq_to_refseq_peptide	0.123	0.003	0.128
HS_refseq_to_rfam	0.094	0.001	0.095
HS_refseq_to_rfam_gene_name	0.003	0.001	0.003
HS_refseq_to_rfam_transcript_name	0.004	0.001	0.004
HS_refseq_to_smart	0.049	0.001	0.050
HS_refseq_to_tigrfam	0.009	0.001	0.009
HS_refseq_to_ucsc	0.070	0.004	0.074
HS_refseq_to_unigene	0.439	0.022	0.469
HS_refseq_to_uniprot_genename	0.060	0.002	0.066
HS_refseq_to_uniprot_genename_transcript_name	0.005	0.001	0.005
HS_refseq_to_uniprot_sptrembl	0.004	0.001	0.004
HS_refseq_to_uniprot_swissprot	0.004	0.001	0.005
HS_refseq_to_uniprot_swissprot_accession	0.004	0.001	0.005
HS_refseq_to_wikigene_id	0.004	0.001	0.006
HS_refseq_to_wikigene_name	0.066	0.002	0.069
MM_conv_id	0.005	0.001	0.004
MM_refseq_to_affy_mg_u74a	0.022	0.001	0.023
MM_refseq_to_affy_mg_u74av2	0.022	0.001	0.022
MM_refseq_to_affy_mg_u74b	0.017	0.001	0.018
MM_refseq_to_affy_mg_u74bv2	0.019	0.000	0.019
MM_refseq_to_affy_mg_u74c	0.007	0.000	0.008
MM_refseq_to_affy_mg_u74cv2	0.01	0.00	0.01
MM_refseq_to_affy_moe430a	0.041	0.001	0.043
MM_refseq_to_affy_moe430b	0.019	0.001	0.021
MM_refseq_to_affy_moex_1_0_st_v1	0.509	0.009	0.522
MM_refseq_to_affy_mogene_1_0_st_v1	0.054	0.004	0.058
MM_refseq_to_affy_mouse430_2	0.063	0.003	0.066
MM_refseq_to_affy_mouse430a_2	0.047	0.002	0.051
MM_refseq_to_affy_mu11ksuba	0.017	0.002	0.018
MM_refseq_to_affy_mu11ksubb	0.011	0.001	0.013
MM_refseq_to_agilent_wholegenome	0.077	0.023	0.100
MM_refseq_to_canonical_transcript_stable_id	0.078	0.025	0.103
MM_refseq_to_ccds	0.042	0.002	0.044
MM_refseq_to_codelink	0.043	0.002	0.045
MM_refseq_to_efg_agilent_sureprint_g3_ge_8x60k	0.004	0.001	0.005
MM_refseq_to_efg_agilent_wholegenome_4x44k_v1	0.004	0.001	0.005
MM_refseq_to_efg_agilent_wholegenome_4x44k_v2	0.004	0.001	0.005
MM_refseq_to_embl	0.515	0.017	0.532
MM_refseq_to_ensembl_exon_id	0.004	0.001	0.005
MM_refseq_to_ensembl_gene_id	0.052	0.001	0.053
MM_refseq_to_ensembl_peptide_id	0.052	0.001	0.053
MM_refseq_to_ensembl_transcript_id	0.055	0.003	0.059
MM_refseq_to_entrezgene	0.045	0.001	0.047
MM_refseq_to_fantom	0.124	0.004	0.129
MM_refseq_to_illumina_mousewg_6_v1	0.251	0.003	0.255
MM_refseq_to_illumina_mousewg_6_v2	0.066	0.002	0.069
MM_refseq_to_interpro	0.144	0.004	0.148
MM_refseq_to_ipi	0.003	0.000	0.003
MM_refseq_to_merops	0.006	0.000	0.007
MM_refseq_to_mgi_id	0.053	0.001	0.055
MM_refseq_to_mgi_symbol	0.051	0.002	0.052
MM_refseq_to_mgi_transcript_name	0.056	0.001	0.058
MM_refseq_to_pdb	0.014	0.001	0.016
MM_refseq_to_pfam	0.080	0.001	0.081
MM_refseq_to_phalanx_onearray	0.051	0.001	0.053
MM_refseq_to_protein_id	0.836	0.042	0.879
MM_refseq_to_refseq_dna	0.062	0.008	0.070
MM_refseq_to_refseq_peptide	0.087	0.001	0.089
MM_refseq_to_rfam	0.003	0.001	0.004
MM_refseq_to_rfam_gene_name	0.003	0.001	0.004
MM_refseq_to_rfam_transcript_name	0.003	0.001	0.003
MM_refseq_to_smart	0.038	0.001	0.040
MM_refseq_to_tigrfam	0.007	0.000	0.007
MM_refseq_to_ucsc	0.051	0.001	0.053
MM_refseq_to_unigene	0.059	0.002	0.061
MM_refseq_to_uniprot_genename	0.043	0.002	0.045
MM_refseq_to_uniprot_genename_transcript_name	0.003	0.000	0.004
MM_refseq_to_uniprot_sptrembl	0.004	0.000	0.004
MM_refseq_to_uniprot_swissprot	0.004	0.001	0.005
MM_refseq_to_uniprot_swissprot_accession	0.004	0.001	0.005
MM_refseq_to_wikigene_id	0.004	0.001	0.005
MM_refseq_to_wikigene_name	0.045	0.002	0.048
TBL2	1.375	0.209	1.590
TBL2_HS	1.831	0.435	2.272
TBL2_MM	1.002	0.272	1.285
conv_id	0.004	0.000	0.005
id_conv	0.044	0.001	0.045