BioC experimental data: CHECK report for miRNATarget on perceval

Package: miRNATarget

Version: 1.7.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings miRNATarget_1.7.0.tar.gz

StartedAt: 2015-08-22 09:38:39 -0700 (Sat, 22 Aug 2015)

EndedAt: 2015-08-22 09:40:10 -0700 (Sat, 22 Aug 2015)

EllapsedTime: 90.5 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 miRNATarget_1.7.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.2-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 ‘1.7.0’
* 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/5s] 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 ... [20s/26s] 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-3.2-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	0.027	0.004	0.031
HS_refseq_to_affy_hc_g110	0.007	0.001	0.007
HS_refseq_to_affy_hg_focus	0.025	0.002	0.027
HS_refseq_to_affy_hg_u133_plus_2	0.085	0.006	0.117
HS_refseq_to_affy_hg_u133a	0.069	0.002	0.090
HS_refseq_to_affy_hg_u133a_2	0.050	0.002	0.066
HS_refseq_to_affy_hg_u133b	0.028	0.001	0.048
HS_refseq_to_affy_hg_u95a	0.063	0.001	0.102
HS_refseq_to_affy_hg_u95av2	0.030	0.001	0.031
HS_refseq_to_affy_hg_u95b	0.021	0.001	0.049
HS_refseq_to_affy_hg_u95c	0.016	0.001	0.025
HS_refseq_to_affy_hg_u95d	0.010	0.001	0.010
HS_refseq_to_affy_hg_u95e	0.016	0.002	0.020
HS_refseq_to_affy_huex_1_0_st_v2	1.941	0.062	2.524
HS_refseq_to_affy_hugene_1_0_st_v1	0.071	0.003	0.093
HS_refseq_to_affy_hugenefl	0.021	0.001	0.023
HS_refseq_to_affy_u133_x3p	0.105	0.005	0.189
HS_refseq_to_agilent_cgh_44b	0.020	0.001	0.040
HS_refseq_to_agilent_wholegenome	0.105	0.015	0.128
HS_refseq_to_canonical_transcript_stable_id	0.105	0.013	0.195
HS_refseq_to_ccds	0.054	0.003	0.090
HS_refseq_to_codelink	0.058	0.003	0.060
HS_refseq_to_efg_agilent_sureprint_g3_ge_8x60k	0.005	0.001	0.014
HS_refseq_to_efg_agilent_wholegenome_4x44k_v1	0.004	0.001	0.004
HS_refseq_to_efg_agilent_wholegenome_4x44k_v2	0.004	0.001	0.016
HS_refseq_to_embl	1.337	0.036	1.701
HS_refseq_to_ensembl_exon_id	0.004	0.001	0.004
HS_refseq_to_ensembl_gene_id	0.075	0.002	0.085
HS_refseq_to_ensembl_peptide_id	0.067	0.002	0.070
HS_refseq_to_ensembl_transcript_id	0.080	0.002	0.101
HS_refseq_to_entrezgene	0.072	0.002	0.102
HS_refseq_to_hgnc_id	0.066	0.002	0.072
HS_refseq_to_hgnc_symbol	0.067	0.002	0.085
HS_refseq_to_hgnc_transcript_name	0.084	0.002	0.107
HS_refseq_to_illumina_humanht_12	0.087	0.003	0.115
HS_refseq_to_illumina_humanwg_6_v1	0.283	0.004	0.336
HS_refseq_to_illumina_humanwg_6_v2	0.063	0.001	0.124
HS_refseq_to_illumina_humanwg_6_v3	0.073	0.002	0.116
HS_refseq_to_interpro	0.179	0.004	0.227
HS_refseq_to_ipi	0.168	0.025	0.207
HS_refseq_to_merops	0.008	0.001	0.008
HS_refseq_to_pdb	0.458	0.008	0.680
HS_refseq_to_pfam	0.086	0.001	0.088
HS_refseq_to_phalanx_onearray	0.055	0.001	0.090
HS_refseq_to_protein_id	1.504	0.019	1.839
HS_refseq_to_refseq_dna	0.080	0.007	0.095
HS_refseq_to_refseq_genomic	0.003	0.001	0.013
HS_refseq_to_refseq_peptide	0.138	0.002	0.184
HS_refseq_to_rfam	0.004	0.001	0.005
HS_refseq_to_rfam_gene_name	0.003	0.000	0.003
HS_refseq_to_rfam_transcript_name	0.003	0.001	0.003
HS_refseq_to_smart	0.050	0.001	0.059
HS_refseq_to_tigrfam	0.008	0.001	0.009
HS_refseq_to_ucsc	0.177	0.003	0.269
HS_refseq_to_unigene	0.094	0.003	0.115
HS_refseq_to_uniprot_genename	0.066	0.002	0.071
HS_refseq_to_uniprot_genename_transcript_name	0.004	0.001	0.004
HS_refseq_to_uniprot_sptrembl	0.004	0.000	0.004
HS_refseq_to_uniprot_swissprot	0.003	0.000	0.004
HS_refseq_to_uniprot_swissprot_accession	0.003	0.001	0.004
HS_refseq_to_wikigene_id	0.003	0.001	0.004
HS_refseq_to_wikigene_name	0.341	0.004	0.463
MM_conv_id	0.004	0.000	0.004
MM_refseq_to_affy_mg_u74a	0.021	0.001	0.021
MM_refseq_to_affy_mg_u74av2	0.021	0.001	0.022
MM_refseq_to_affy_mg_u74b	0.016	0.001	0.017
MM_refseq_to_affy_mg_u74bv2	0.017	0.001	0.018
MM_refseq_to_affy_mg_u74c	0.007	0.000	0.007
MM_refseq_to_affy_mg_u74cv2	0.009	0.001	0.017
MM_refseq_to_affy_moe430a	0.038	0.000	0.041
MM_refseq_to_affy_moe430b	0.018	0.001	0.019
MM_refseq_to_affy_moex_1_0_st_v1	0.496	0.009	0.697
MM_refseq_to_affy_mogene_1_0_st_v1	0.053	0.002	0.056
MM_refseq_to_affy_mouse430_2	0.063	0.002	0.084
MM_refseq_to_affy_mouse430a_2	0.047	0.002	0.070
MM_refseq_to_affy_mu11ksuba	0.016	0.001	0.017
MM_refseq_to_affy_mu11ksubb	0.012	0.001	0.013
MM_refseq_to_agilent_wholegenome	0.085	0.009	0.143
MM_refseq_to_canonical_transcript_stable_id	0.077	0.008	0.115
MM_refseq_to_ccds	0.156	0.006	0.186
MM_refseq_to_codelink	0.042	0.001	0.052
MM_refseq_to_efg_agilent_sureprint_g3_ge_8x60k	0.004	0.000	0.004
MM_refseq_to_efg_agilent_wholegenome_4x44k_v1	0.004	0.000	0.004
MM_refseq_to_efg_agilent_wholegenome_4x44k_v2	0.004	0.001	0.005
MM_refseq_to_embl	0.405	0.009	0.512
MM_refseq_to_ensembl_exon_id	0.003	0.001	0.004
MM_refseq_to_ensembl_gene_id	0.052	0.001	0.064
MM_refseq_to_ensembl_peptide_id	0.050	0.003	0.102
MM_refseq_to_ensembl_transcript_id	0.056	0.003	0.073
MM_refseq_to_entrezgene	0.047	0.002	0.069
MM_refseq_to_fantom	0.356	0.013	0.470
MM_refseq_to_illumina_mousewg_6_v1	0.342	0.004	0.407
MM_refseq_to_illumina_mousewg_6_v2	0.065	0.001	0.067
MM_refseq_to_interpro	0.141	0.005	0.217
MM_refseq_to_ipi	0.003	0.000	0.003
MM_refseq_to_merops	0.006	0.000	0.006
MM_refseq_to_mgi_id	0.050	0.002	0.053
MM_refseq_to_mgi_symbol	0.050	0.001	0.098
MM_refseq_to_mgi_transcript_name	0.049	0.001	0.057
MM_refseq_to_pdb	0.134	0.002	0.156
MM_refseq_to_pfam	0.076	0.001	0.125
MM_refseq_to_phalanx_onearray	0.044	0.001	0.059
MM_refseq_to_protein_id	0.533	0.009	0.696
MM_refseq_to_refseq_dna	0.494	0.034	0.687
MM_refseq_to_refseq_peptide	0.089	0.002	0.132
MM_refseq_to_rfam	0.004	0.001	0.003
MM_refseq_to_rfam_gene_name	0.003	0.001	0.003
MM_refseq_to_rfam_transcript_name	0.003	0.001	0.014
MM_refseq_to_smart	0.037	0.001	0.066
MM_refseq_to_tigrfam	0.007	0.001	0.014
MM_refseq_to_ucsc	0.046	0.001	0.092
MM_refseq_to_unigene	0.061	0.002	0.111
MM_refseq_to_uniprot_genename	0.042	0.001	0.043
MM_refseq_to_uniprot_genename_transcript_name	0.004	0.001	0.003
MM_refseq_to_uniprot_sptrembl	0.003	0.000	0.003
MM_refseq_to_uniprot_swissprot	0.004	0.001	0.004
MM_refseq_to_uniprot_swissprot_accession	0.003	0.001	0.004
MM_refseq_to_wikigene_id	0.004	0.001	0.004
MM_refseq_to_wikigene_name	0.046	0.002	0.068
TBL2	1.171	0.215	1.751
TBL2_HS	1.774	0.418	2.816
TBL2_MM	1.017	0.276	1.598
conv_id	0.004	0.001	0.004
id_conv	0.041	0.001	0.045