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BioC 3.4: CHECK report for Rcpi on tokay1

This page was generated on 2017-04-15 16:18:36 -0400 (Sat, 15 Apr 2017).

Package 1014/1296HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rcpi 1.10.6
Nan Xiao
Snapshot Date: 2017-04-14 17:17:13 -0400 (Fri, 14 Apr 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_4/madman/Rpacks/Rcpi
Last Changed Rev: 125518 / Revision: 128728
Last Changed Date: 2016-12-29 20:52:51 -0500 (Thu, 29 Dec 2016)
malbec1 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: Rcpi
Version: 1.10.6
Command: rm -rf Rcpi.buildbin-libdir Rcpi.Rcheck && mkdir Rcpi.buildbin-libdir Rcpi.Rcheck && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=Rcpi.buildbin-libdir Rcpi_1.10.6.tar.gz >Rcpi.Rcheck\00install.out 2>&1 && cp Rcpi.Rcheck\00install.out Rcpi-install.out && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD check --library=Rcpi.buildbin-libdir --install="check:Rcpi-install.out" --force-multiarch --no-vignettes --timings Rcpi_1.10.6.tar.gz
StartedAt: 2017-04-15 00:23:12 -0400 (Sat, 15 Apr 2017)
EndedAt: 2017-04-15 00:26:46 -0400 (Sat, 15 Apr 2017)
EllapsedTime: 213.9 seconds
RetCode: 0
Status:  OK  
CheckDir: Rcpi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf Rcpi.buildbin-libdir Rcpi.Rcheck && mkdir Rcpi.buildbin-libdir Rcpi.Rcheck && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=Rcpi.buildbin-libdir Rcpi_1.10.6.tar.gz >Rcpi.Rcheck\00install.out 2>&1 && cp Rcpi.Rcheck\00install.out Rcpi-install.out  && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD check --library=Rcpi.buildbin-libdir --install="check:Rcpi-install.out" --force-multiarch --no-vignettes --timings Rcpi_1.10.6.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.4-bioc/meat/Rcpi.Rcheck'
* using R version 3.3.3 (2017-03-06)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Rcpi/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'Rcpi' version '1.10.6'
* 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 'Rcpi' 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'runTests.R'
 OK
** running tests for arch 'x64' ...
  Running 'runTests.R'
 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

Rcpi.Rcheck/00install.out:


install for i386

* 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

install for x64

* installing *source* package 'Rcpi' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Rcpi' as Rcpi_1.10.6.zip
* DONE (Rcpi)

Rcpi.Rcheck/examples_i386/Rcpi-Ex.timings:

nameusersystemelapsed
AA2DACOR0.010.000.02
AA3DMoRSE0.020.000.01
AAACF000
AABLOSUM100000
AABLOSUM45000
AABLOSUM50000
AABLOSUM62000
AABLOSUM800.000.020.01
AABurden000
AACPSA0.000.010.02
AAConn000
AAConst0.010.000.02
AADescAll000
AAEdgeAdj000
AAEigIdx0.000.020.01
AAFGC000
AAGETAWAY000
AAGeom000
AAInfo0.000.010.02
AAMOE2D000
AAMOE3D000
AAMetaInfo000
AAMolProp0.000.020.01
AAPAM120000
AAPAM250000
AAPAM300.020.000.02
AAPAM40000
AAPAM70000
AARDF000
AARandic0.000.010.01
AATopo000
AATopoChg000
AAWHIM000
AAWalk0.010.000.02
AAindex000
OptAA3d000
acc0.020.000.02
calcDrugFPSim0.870.081.37
calcDrugMCSSim0.020.000.02
calcParProtGOSim000
calcParProtSeqSim000
calcTwoProtGOSim0.010.000.01
calcTwoProtSeqSim000
checkProt000
convMolFormat000
extractDrugAIO000
extractDrugALOGP000
extractDrugAminoAcidCount000
extractDrugApol000
extractDrugAromaticAtomsCount000
extractDrugAromaticBondsCount0.020.000.01
extractDrugAtomCount000
extractDrugAutocorrelationCharge000
extractDrugAutocorrelationMass000
extractDrugAutocorrelationPolarizability000
extractDrugBCUT000
extractDrugBPol000
extractDrugBondCount000
extractDrugCPSA000
extractDrugCarbonTypes000
extractDrugChiChain000
extractDrugChiCluster000
extractDrugChiPath000
extractDrugChiPathCluster000
extractDrugDescOB0.000.020.02
extractDrugECI000
extractDrugEstate000
extractDrugEstateComplete000
extractDrugExtended000
extractDrugExtendedComplete000
extractDrugFMF0.020.000.01
extractDrugFragmentComplexity000
extractDrugGraph000
extractDrugGraphComplete000
extractDrugGravitationalIndex0.010.000.02
extractDrugHBondAcceptorCount000
extractDrugHBondDonorCount000
extractDrugHybridization000
extractDrugHybridizationComplete000
extractDrugHybridizationRatio0.020.000.01
extractDrugIPMolecularLearning000
extractDrugKR000
extractDrugKRComplete000
extractDrugKappaShapeIndices000
extractDrugKierHallSmarts0.010.000.02
extractDrugLargestChain000
extractDrugLargestPiSystem000
extractDrugLengthOverBreadth000
extractDrugLongestAliphaticChain000
extractDrugMACCS0.020.000.01
extractDrugMACCSComplete000
extractDrugMDE000
extractDrugMannholdLogP000
extractDrugMomentOfInertia000
extractDrugOBFP2000
extractDrugOBFP30.010.000.01
extractDrugOBFP4000
extractDrugOBMACCS0.020.000.02
extractDrugPetitjeanNumber000
extractDrugPetitjeanShapeIndex000
extractDrugPubChem000
extractDrugPubChemComplete0.010.000.02
extractDrugRotatableBondsCount000
extractDrugRuleOfFive000
extractDrugShortestPath000
extractDrugShortestPathComplete000
extractDrugStandard000
extractDrugStandardComplete000
extractDrugTPSA0.020.000.01
extractDrugVABC000
extractDrugVAdjMa000
extractDrugWHIM000
extractDrugWeight0.010.000.02
extractDrugWeightedPath000
extractDrugWienerNumbers000
extractDrugXLogP000
extractDrugZagrebIndex0.020.000.01
extractPCMBLOSUM0.020.000.02
extractPCMDescScales0.010.000.01
extractPCMFAScales0.020.000.02
extractPCMMDSScales0.000.010.02
extractPCMPropScales0.010.000.01
extractPCMScales0.030.000.03
extractProtAAC000
extractProtAPAAC2.030.002.03
extractProtCTDC000
extractProtCTDD0.020.000.02
extractProtCTDT000
extractProtCTriad0.110.020.12
extractProtDC000
extractProtGeary0.110.000.11
extractProtMoran0.140.030.18
extractProtMoreauBroto0.190.000.18
extractProtPAAC0.560.000.57
extractProtPSSM000
extractProtPSSMAcc000
extractProtPSSMFeature000
extractProtQSO0.730.020.75
extractProtSOCN0.820.000.81
extractProtTC0.060.000.06
getCPI000
getDrug000
getFASTAFromKEGG000
getFASTAFromUniProt000
getMolFromCAS000
getMolFromChEMBL000
getMolFromDrugBank000
getMolFromKEGG000
getMolFromPubChem000
getPDBFromRCSBPDB000
getPPI000
getProt000
getSeqFromKEGG000
getSeqFromRCSBPDB000
getSeqFromUniProt000
getSmiFromChEMBL000
getSmiFromDrugBank000
getSmiFromKEGG000
getSmiFromPubChem000
readFASTA000
readMolFromSDF000
readMolFromSmi000
readPDB1.470.001.47
searchDrug000
segProt000

Rcpi.Rcheck/examples_x64/Rcpi-Ex.timings:

nameusersystemelapsed
AA2DACOR0.010.000.02
AA3DMoRSE000
AAACF0.020.000.01
AABLOSUM100000
AABLOSUM45000
AABLOSUM50000
AABLOSUM620.000.010.02
AABLOSUM80000
AABurden000
AACPSA000
AAConn0.000.020.01
AAConst000
AADescAll000
AAEdgeAdj000
AAEigIdx0.020.000.02
AAFGC000
AAGETAWAY000
AAGeom000
AAInfo0.000.010.01
AAMOE2D000
AAMOE3D000
AAMetaInfo000
AAMolProp0.000.020.02
AAPAM120000
AAPAM250000
AAPAM30000
AAPAM400.010.000.02
AAPAM70000
AARDF000
AARandic000
AATopo000
AATopoChg0.020.000.01
AAWHIM000
AAWalk000
AAindex000
OptAA3d000
acc0.010.000.02
calcDrugFPSim1.910.120.76
calcDrugMCSSim000
calcParProtGOSim000
calcParProtSeqSim000
calcTwoProtGOSim000
calcTwoProtSeqSim0.020.000.01
checkProt000
convMolFormat000
extractDrugAIO000
extractDrugALOGP000
extractDrugAminoAcidCount000
extractDrugApol000
extractDrugAromaticAtomsCount0.020.000.02
extractDrugAromaticBondsCount000
extractDrugAtomCount000
extractDrugAutocorrelationCharge000
extractDrugAutocorrelationMass000
extractDrugAutocorrelationPolarizability000
extractDrugBCUT000
extractDrugBPol000
extractDrugBondCount000
extractDrugCPSA000
extractDrugCarbonTypes000
extractDrugChiChain000
extractDrugChiCluster000
extractDrugChiPath000
extractDrugChiPathCluster000
extractDrugDescOB000
extractDrugECI000
extractDrugEstate000
extractDrugEstateComplete000
extractDrugExtended000
extractDrugExtendedComplete000
extractDrugFMF000
extractDrugFragmentComplexity000
extractDrugGraph000
extractDrugGraphComplete000
extractDrugGravitationalIndex000
extractDrugHBondAcceptorCount000
extractDrugHBondDonorCount000
extractDrugHybridization000
extractDrugHybridizationComplete000
extractDrugHybridizationRatio000
extractDrugIPMolecularLearning000
extractDrugKR000
extractDrugKRComplete000
extractDrugKappaShapeIndices000
extractDrugKierHallSmarts000
extractDrugLargestChain000
extractDrugLargestPiSystem000
extractDrugLengthOverBreadth000
extractDrugLongestAliphaticChain000
extractDrugMACCS0.010.000.02
extractDrugMACCSComplete000
extractDrugMDE000
extractDrugMannholdLogP000
extractDrugMomentOfInertia000
extractDrugOBFP2000
extractDrugOBFP30.020.000.01
extractDrugOBFP4000
extractDrugOBMACCS000
extractDrugPetitjeanNumber000
extractDrugPetitjeanShapeIndex000
extractDrugPubChem000
extractDrugPubChemComplete000
extractDrugRotatableBondsCount000
extractDrugRuleOfFive000
extractDrugShortestPath000
extractDrugShortestPathComplete000
extractDrugStandard000
extractDrugStandardComplete0.020.000.01
extractDrugTPSA000
extractDrugVABC000
extractDrugVAdjMa000
extractDrugWHIM000
extractDrugWeight000
extractDrugWeightedPath000
extractDrugWienerNumbers000
extractDrugXLogP0.020.000.02
extractDrugZagrebIndex000
extractPCMBLOSUM0.010.000.02
extractPCMDescScales000
extractPCMFAScales0.020.000.02
extractPCMMDSScales0.010.000.01
extractPCMPropScales0.020.000.02
extractPCMScales0.010.000.01
extractProtAAC000
extractProtAPAAC2.180.002.17
extractProtCTDC000
extractProtCTDD0.010.000.02
extractProtCTDT000
extractProtCTriad0.130.040.15
extractProtDC0.000.010.02
extractProtGeary0.170.000.17
extractProtMoran0.140.020.16
extractProtMoreauBroto0.140.000.14
extractProtPAAC0.720.000.72
extractProtPSSM0.010.000.01
extractProtPSSMAcc000
extractProtPSSMFeature000
extractProtQSO1.020.001.02
extractProtSOCN1.330.001.33
extractProtTC0.000.040.04
getCPI000
getDrug000
getFASTAFromKEGG000
getFASTAFromUniProt000
getMolFromCAS000
getMolFromChEMBL000
getMolFromDrugBank000
getMolFromKEGG000
getMolFromPubChem000
getPDBFromRCSBPDB000
getPPI000
getProt000
getSeqFromKEGG000
getSeqFromRCSBPDB000
getSeqFromUniProt000
getSmiFromChEMBL000
getSmiFromDrugBank000
getSmiFromKEGG000
getSmiFromPubChem000
readFASTA000
readMolFromSDF000
readMolFromSmi000
readPDB1.080.001.07
searchDrug000
segProt000