Marc Carlson
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/UniProt.ws |
| Branch: RELEASE_3_6 |
| Last Commit: 38ad9a7 |
| Last Changed Date: 2017-10-30 12:39:55 -0400 (Mon, 30 Oct 2017) |
| Back to Multiple platform build/check report for BioC 3.6 |
|
This page was generated on 2018-04-12 13:22:16 -0400 (Thu, 12 Apr 2018).
| Package 1438/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| UniProt.ws 2.18.0 Marc Carlson
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: UniProt.ws |
| Version: 2.18.0 |
| Command: rm -rf UniProt.ws.buildbin-libdir UniProt.ws.Rcheck && mkdir UniProt.ws.buildbin-libdir UniProt.ws.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=UniProt.ws.buildbin-libdir UniProt.ws_2.18.0.tar.gz >UniProt.ws.Rcheck\00install.out 2>&1 && cp UniProt.ws.Rcheck\00install.out UniProt.ws-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=UniProt.ws.buildbin-libdir --install="check:UniProt.ws-install.out" --force-multiarch --no-vignettes --timings UniProt.ws_2.18.0.tar.gz |
| StartedAt: 2018-04-12 03:45:33 -0400 (Thu, 12 Apr 2018) |
| EndedAt: 2018-04-12 03:53:35 -0400 (Thu, 12 Apr 2018) |
| EllapsedTime: 481.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: UniProt.ws.Rcheck |
| Warnings: 0 |
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### Running command:
###
### rm -rf UniProt.ws.buildbin-libdir UniProt.ws.Rcheck && mkdir UniProt.ws.buildbin-libdir UniProt.ws.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=UniProt.ws.buildbin-libdir UniProt.ws_2.18.0.tar.gz >UniProt.ws.Rcheck\00install.out 2>&1 && cp UniProt.ws.Rcheck\00install.out UniProt.ws-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=UniProt.ws.buildbin-libdir --install="check:UniProt.ws-install.out" --force-multiarch --no-vignettes --timings UniProt.ws_2.18.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/UniProt.ws.Rcheck'
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'UniProt.ws/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'UniProt.ws' version '2.18.0'
* 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 whether package 'UniProt.ws' 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
* 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 dependencies in R code ... NOTE
Unexported object imported by a ':::' call: 'BiocGenerics:::testPackage'
See the note in ?`:::` about the use of this operator.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
.getSpecfile: no visible binding for global variable 'codes'
Undefined global functions or variables:
codes
* 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
UniProtWS-class 8.11 1.90 42.28
colsAndKeytypes 6.50 1.57 16.56
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
UniProtWS-class 6.20 2.14 37.45
colsAndKeytypes 3.38 1.13 20.61
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'UniProt.ws_unit_tests.R'
OK
** running tests for arch 'x64' ...
Running 'UniProt.ws_unit_tests.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: 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.6-bioc/meat/UniProt.ws.Rcheck/00check.log'
for details.
UniProt.ws.Rcheck/00install.out
install for i386
* installing *source* package 'UniProt.ws' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
converting help for package 'UniProt.ws'
finding HTML links ... done
UniProtWS-class html
colsAndKeytypes html
utilities html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'UniProt.ws' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'UniProt.ws' as UniProt.ws_2.18.0.zip
* DONE (UniProt.ws)
In R CMD INSTALL
In R CMD INSTALL
|
UniProt.ws.Rcheck/tests_i386/UniProt.ws_unit_tests.Rout
R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> BiocGenerics:::testPackage("UniProt.ws")
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, cbind, colMeans, colSums, colnames, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, lengths, mapply, match, mget, order, paste, pmax, pmax.int,
pmin, pmin.int, rank, rbind, rowMeans, rowSums, rownames, sapply,
setdiff, sort, table, tapply, union, unique, unsplit, which,
which.max, which.min
Getting mapping data for P31946 ... and UNIGENE_ID
Getting mapping data for P31946 ... and PDB_ID
Getting extra data for P31946,P62258,Q04917
'select()' returned 1:many mapping between keys and columns
Getting mapping data for 1 ... and ACC
Getting mapping data for P04217 ... and UNIGENE_ID
Getting mapping data for P04217 ... and PDB_ID
Getting extra data for P04217,V9HWD8,P01023,F5H5R8,P18440,Q400J6
'select()' returned 1:many mapping between keys and columns
Getting extra data for P31946,P62258,Q04917
'select()' returned 1:1 mapping between keys and columns
Getting mapping data for 1 ... and ACC
Getting mapping data for P04217 ... and PDB_ID
Getting extra data for P04217,V9HWD8,P01023,F5H5R8,P18440,Q400J6
'select()' returned 1:many mapping between keys and columns
Getting extra data for L0R819,P98196,P50993,Q13733,P05026,O14983
Getting extra data for Q14790,O14958,Q9NQ75,Q8WTX7,P14091,P43235
Getting extra data for Q3C1V1,C9JXX5,Q96S95,Q8N6U2,Q96C57,Q8N7H1
'select()' returned 1:1 mapping between keys and columns
Getting extra data for P04217,P30443
Getting extra data for P13368,P20806,Q9UM73,P97793,Q17192
Getting extra data for P13368,P20806,Q9UM73,P97793,Q17192
Getting mapping data for P13368 ... and P_REFSEQ_AC
Getting mapping data for 1 ... and ACC
Getting mapping data for P04217 ... and UNIGENE_ID
RUNIT TEST PROTOCOL -- Thu Apr 12 03:51:10 2018
***********************************************
Number of test functions: 20
Number of errors: 0
Number of failures: 0
1 Test Suite :
UniProt.ws RUnit Tests - 20 test functions, 0 errors, 0 failures
Number of test functions: 20
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
22.95 3.59 113.34
|
UniProt.ws.Rcheck/tests_x64/UniProt.ws_unit_tests.Rout
R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> BiocGenerics:::testPackage("UniProt.ws")
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, cbind, colMeans, colSums, colnames, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, lengths, mapply, match, mget, order, paste, pmax, pmax.int,
pmin, pmin.int, rank, rbind, rowMeans, rowSums, rownames, sapply,
setdiff, sort, table, tapply, union, unique, unsplit, which,
which.max, which.min
Getting mapping data for P31946 ... and UNIGENE_ID
Getting mapping data for P31946 ... and PDB_ID
Getting extra data for P31946,P62258,Q04917
'select()' returned 1:many mapping between keys and columns
Getting mapping data for 1 ... and ACC
Getting mapping data for P04217 ... and UNIGENE_ID
Getting mapping data for P04217 ... and PDB_ID
Getting extra data for P04217,V9HWD8,P01023,F5H5R8,P18440,Q400J6
'select()' returned 1:many mapping between keys and columns
Getting extra data for P31946,P62258,Q04917
'select()' returned 1:1 mapping between keys and columns
Getting mapping data for 1 ... and ACC
Getting mapping data for P04217 ... and PDB_ID
Getting extra data for P04217,V9HWD8,P01023,F5H5R8,P18440,Q400J6
'select()' returned 1:many mapping between keys and columns
Getting extra data for L0R819,P98196,P50993,Q13733,P05026,O14983
Getting extra data for Q14790,O14958,Q9NQ75,Q8WTX7,P14091,P43235
Getting extra data for Q3C1V1,C9JXX5,Q96S95,Q8N6U2,Q96C57,Q8N7H1
'select()' returned 1:1 mapping between keys and columns
Getting extra data for P04217,P30443
Getting extra data for P13368,P20806,Q9UM73,P97793,Q17192
Getting extra data for P13368,P20806,Q9UM73,P97793,Q17192
Getting mapping data for P13368 ... and P_REFSEQ_AC
Getting mapping data for 1 ... and ACC
Getting mapping data for P04217 ... and UNIGENE_ID
RUNIT TEST PROTOCOL -- Thu Apr 12 03:53:30 2018
***********************************************
Number of test functions: 20
Number of errors: 0
Number of failures: 0
1 Test Suite :
UniProt.ws RUnit Tests - 20 test functions, 0 errors, 0 failures
Number of test functions: 20
Number of errors: 0
Number of failures: 0
Warning message:
In file(file, "rt") : InternetOpenUrl failed: 'The operation timed out'
>
> proc.time()
user system elapsed
19.35 3.46 138.81
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UniProt.ws.Rcheck/examples_i386/UniProt.ws-Ex.timings
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UniProt.ws.Rcheck/examples_x64/UniProt.ws-Ex.timings
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