BioC 3.2: CHECK report for Rcpi on zin1

Package: Rcpi

Version: 1.6.0

Command: /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings Rcpi_1.6.0.tar.gz

StartedAt: 2016-04-23 04:26:53 -0700 (Sat, 23 Apr 2016)

EndedAt: 2016-04-23 04:29:04 -0700 (Sat, 23 Apr 2016)

EllapsedTime: 131.5 seconds

RetCode: 0

Status:  OK

CheckDir: Rcpi.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings Rcpi_1.6.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.2-bioc/meat/Rcpi.Rcheck’
* using R version 3.2.4 Revised (2016-03-16 r70336)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Rcpi/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Rcpi’ 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 ‘Rcpi’ can be installed ... [11s/11s] 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 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 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 ... [12s/12s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘runTests.R’ [6s/6s]
 [7s/6s] 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

* installing *source* package ‘Rcpi’ ...
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (Rcpi)

name	user	system	elapsed
AA2DACOR	0.012	0.004	0.016
AA3DMoRSE	0.001	0.000	0.001
AAACF	0.001	0.000	0.001
AABLOSUM100	0.001	0.000	0.002
AABLOSUM45	0.001	0.000	0.002
AABLOSUM50	0.002	0.000	0.001
AABLOSUM62	0.002	0.000	0.001
AABLOSUM80	0.002	0.000	0.001
AABurden	0.002	0.000	0.001
AACPSA	0.002	0.000	0.001
AAConn	0.001	0.000	0.001
AAConst	0.001	0.000	0.001
AADescAll	0.001	0.000	0.001
AAEdgeAdj	0.001	0.000	0.001
AAEigIdx	0.001	0.000	0.002
AAFGC	0.001	0.000	0.002
AAGETAWAY	0.001	0.000	0.001
AAGeom	0.000	0.000	0.001
AAInfo	0.001	0.000	0.001
AAMOE2D	0.002	0.000	0.001
AAMOE3D	0.002	0.000	0.001
AAMetaInfo	0.001	0.000	0.001
AAMolProp	0.000	0.004	0.001
AAPAM120	0.000	0.000	0.001
AAPAM250	0.001	0.000	0.001
AAPAM30	0.001	0.000	0.001
AAPAM40	0.001	0.000	0.001
AAPAM70	0.001	0.000	0.001
AARDF	0.001	0.000	0.002
AARandic	0.001	0.000	0.002
AATopo	0.001	0.000	0.002
AATopoChg	0.001	0.000	0.001
AAWHIM	0.002	0.000	0.001
AAWalk	0.002	0.000	0.001
AAindex	0.001	0.000	0.001
OptAA3d	0	0	0
Rcpi-package	0.000	0.000	0.001
acc	0.009	0.004	0.013
calcDrugFPSim	0.001	0.000	0.001
calcDrugMCSSim	0.001	0.000	0.000
calcParProtGOSim	0	0	0
calcParProtSeqSim	0.000	0.000	0.001
calcTwoProtGOSim	0.001	0.000	0.001
calcTwoProtSeqSim	0.001	0.000	0.000
checkProt	0.002	0.000	0.002
convMolFormat	0	0	0
extractDrugAIO	0.000	0.000	0.001
extractDrugALOGP	0.001	0.000	0.000
extractDrugAminoAcidCount	0	0	0
extractDrugApol	0	0	0
extractDrugAromaticAtomsCount	0	0	0
extractDrugAromaticBondsCount	0.000	0.000	0.001
extractDrugAtomCount	0.001	0.000	0.001
extractDrugAutocorrelationCharge	0.001	0.000	0.000
extractDrugAutocorrelationMass	0	0	0
extractDrugAutocorrelationPolarizability	0	0	0
extractDrugBCUT	0.000	0.000	0.001
extractDrugBPol	0.001	0.000	0.001
extractDrugBondCount	0.001	0.000	0.000
extractDrugCPSA	0	0	0
extractDrugCarbonTypes	0.000	0.000	0.001
extractDrugChiChain	0.000	0.000	0.001
extractDrugChiCluster	0	0	0
extractDrugChiPath	0	0	0
extractDrugChiPathCluster	0	0	0
extractDrugDescOB	0	0	0
extractDrugECI	0	0	0
extractDrugEstate	0.000	0.000	0.001
extractDrugEstateComplete	0.001	0.000	0.001
extractDrugExtended	0.001	0.000	0.001
extractDrugExtendedComplete	0.001	0.000	0.000
extractDrugFMF	0	0	0
extractDrugFragmentComplexity	0	0	0
extractDrugGraph	0	0	0
extractDrugGraphComplete	0	0	0
extractDrugGravitationalIndex	0.001	0.000	0.001
extractDrugHBondAcceptorCount	0.001	0.000	0.001
extractDrugHBondDonorCount	0.001	0.000	0.000
extractDrugHybridization	0.001	0.000	0.000
extractDrugHybridizationComplete	0	0	0
extractDrugHybridizationRatio	0	0	0
extractDrugIPMolecularLearning	0.000	0.000	0.001
extractDrugKR	0.001	0.000	0.001
extractDrugKRComplete	0.001	0.000	0.001
extractDrugKappaShapeIndices	0.001	0.000	0.000
extractDrugKierHallSmarts	0	0	0
extractDrugLargestChain	0	0	0
extractDrugLargestPiSystem	0	0	0
extractDrugLengthOverBreadth	0.000	0.000	0.001
extractDrugLongestAliphaticChain	0.001	0.000	0.001
extractDrugMACCS	0.001	0.000	0.001
extractDrugMACCSComplete	0.001	0.000	0.000
extractDrugMDE	0	0	0
extractDrugMannholdLogP	0	0	0
extractDrugMomentOfInertia	0	0	0
extractDrugOBFP2	0	0	0
extractDrugOBFP3	0.001	0.000	0.001
extractDrugOBFP4	0.001	0.000	0.001
extractDrugOBMACCS	0.001	0.000	0.000
extractDrugPetitjeanNumber	0.001	0.000	0.000
extractDrugPetitjeanShapeIndex	0	0	0
extractDrugPubChem	0	0	0
extractDrugPubChemComplete	0.000	0.000	0.001
extractDrugRotatableBondsCount	0.001	0.000	0.001
extractDrugRuleOfFive	0	0	0
extractDrugShortestPath	0	0	0
extractDrugShortestPathComplete	0	0	0
extractDrugStandard	0.000	0.000	0.001
extractDrugStandardComplete	0.001	0.000	0.001
extractDrugTPSA	0.001	0.000	0.000
extractDrugVABC	0	0	0
extractDrugVAdjMa	0	0	0
extractDrugWHIM	0	0	0
extractDrugWeight	0	0	0
extractDrugWeightedPath	0.000	0.000	0.001
extractDrugWienerNumbers	0.001	0.000	0.001
extractDrugXLogP	0.001	0.000	0.001
extractDrugZagrebIndex	0	0	0
extractPCMBLOSUM	0.011	0.000	0.011
extractPCMDescScales	0.012	0.000	0.012
extractPCMFAScales	0.017	0.004	0.021
extractPCMMDSScales	0.010	0.000	0.011
extractPCMPropScales	0.012	0.000	0.012
extractPCMScales	0.02	0.00	0.02
extractProtAAC	0.003	0.000	0.003
extractProtAPAAC	2.014	0.008	2.035
extractProtCTDC	0.006	0.000	0.007
extractProtCTDD	0.006	0.000	0.005
extractProtCTDT	0.01	0.00	0.01
extractProtCTriad	0.212	0.004	0.218
extractProtDC	0.003	0.004	0.007
extractProtGeary	0.182	0.008	0.190
extractProtMoran	0.184	0.008	0.191
extractProtMoreauBroto	0.185	0.000	0.184
extractProtPAAC	0.727	0.004	0.730
extractProtPSSM	0.001	0.000	0.001
extractProtPSSMAcc	0.001	0.000	0.000
extractProtPSSMFeature	0.001	0.000	0.000
extractProtQSO	1.086	0.000	1.085
extractProtSOCN	1.134	0.004	1.138
extractProtTC	0.048	0.028	0.075
getCPI	0.004	0.000	0.003
getDrug	0	0	0
getFASTAFromKEGG	0.001	0.000	0.001
getFASTAFromUniProt	0	0	0
getMolFromCAS	0	0	0
getMolFromChEMBL	0.001	0.000	0.001
getMolFromDrugBank	0	0	0
getMolFromKEGG	0.000	0.000	0.001
getMolFromPubChem	0.001	0.000	0.000
getPDBFromRCSBPDB	0	0	0
getPPI	0.004	0.000	0.004
getProt	0	0	0
getSeqFromKEGG	0.001	0.000	0.001
getSeqFromRCSBPDB	0	0	0
getSeqFromUniProt	0.000	0.000	0.001
getSmiFromChEMBL	0.001	0.000	0.000
getSmiFromDrugBank	0	0	0
getSmiFromKEGG	0.001	0.000	0.000
getSmiFromPubChem	0	0	0
readFASTA	0.001	0.000	0.002
readMolFromSDF	0.001	0.000	0.000
readMolFromSmi	0	0	0
readPDB	1.300	0.011	1.313
searchDrug	0.001	0.000	0.000
segProt	0.003	0.000	0.002