flowCL 1.7.0
Justin Meskas
| Snapshot Date: 2015-08-19 16:24:33 -0700 (Wed, 19 Aug 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowCL | | Last Changed Rev: 102594 / Revision: 107602 | | Last Changed Date: 2015-04-16 13:02:44 -0700 (Thu, 16 Apr 2015) |
| zin1 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | NotNeeded | OK | OK | |  |
| moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | [ ERROR ] | OK | |
| perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | NotNeeded | OK | OK | OK | |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | ERROR | OK | |
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### Running command:
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### rm -rf flowCL.buildbin-libdir flowCL.Rcheck && mkdir flowCL.buildbin-libdir flowCL.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=flowCL.buildbin-libdir flowCL_1.7.0.tar.gz >flowCL.Rcheck\00install.out 2>&1 && cp flowCL.Rcheck\00install.out flowCL-install.out && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=flowCL.buildbin-libdir --install="check:flowCL-install.out" --force-multiarch --no-vignettes --timings flowCL_1.7.0.tar.gz
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* using log directory 'D:/biocbld/bbs-3.2-bioc/meat/flowCL.Rcheck'
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'flowCL/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'flowCL' 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 ... OK
* checking for portable file names ... OK
* checking whether package 'flowCL' 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 ... NOTE
'library' or 'require' call to 'RUnit' in package code.
Please use :: or requireNamespace() instead.
See section 'Suggested packages' in the 'Writing R Extensions' manual.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
test.flowCL.connection: no visible global function definition for
'defineTestSuite'
test.flowCL.connection: no visible global function definition for
'runTestSuite'
test.flowCL.connection: no visible global function definition for
'printTextProtocol'
treeDiagram: no visible global function definition for 'addEdge'
* 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' ... ERROR
Running examples in 'flowCL-Ex.R' failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: flowCL-package
> ### Title: Semantic labelling of flow cytometric cell populations.
> ### Aliases: flowCL-package
> ### Keywords: FlowCytData
>
> ### ** Examples
>
>
> # Load a pre-loaded archive. Skipping this chuck will cause flowCL to
> ## slowly build a new one.
> flowCL("archive")
Archive created in "D:/biocbld/bbs-3.2-bioc/meat/flowCL.Rcheck/examples_i386/flowCL_results"
>
> # Simple two marker example
> Res <- flowCL("CCR7+CD45RA+")
ExpMrkrLst was not defined. Defining ExpMrkrLst as MarkerList.
Error in function (type, msg, asError = TRUE) :
Failed to connect to cell.ctde.net port 8080: Timed out
Calls: flowCL ... <Anonymous> -> curlPerform -> .Call -> <Anonymous> -> fun
Execution halted
** running examples for arch 'x64' ... ERROR
Running examples in 'flowCL-Ex.R' failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: flowCL-package
> ### Title: Semantic labelling of flow cytometric cell populations.
> ### Aliases: flowCL-package
> ### Keywords: FlowCytData
>
> ### ** Examples
>
>
> # Load a pre-loaded archive. Skipping this chuck will cause flowCL to
> ## slowly build a new one.
> flowCL("archive")
Archive created in "D:/biocbld/bbs-3.2-bioc/meat/flowCL.Rcheck/examples_x64/flowCL_results"
>
> # Simple two marker example
> Res <- flowCL("CCR7+CD45RA+")
ExpMrkrLst was not defined. Defining ExpMrkrLst as MarkerList.
Error in function (type, msg, asError = TRUE) :
Failed to connect to cell.ctde.net port 8080: Timed out
Calls: flowCL ... <Anonymous> -> curlPerform -> .Call -> <Anonymous> -> fun
Execution halted
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'flowCL_unit_tests.R' [2s]
[2s] OK
** running tests for arch 'x64' ...
Running 'flowCL_unit_tests.R' [2s]
[2s] 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 ERRORs, 2 NOTEs
See
'D:/biocbld/bbs-3.2-bioc/meat/flowCL.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'flowCL' ...
** R
** data
** 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 'flowCL' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'flowCL' as flowCL_1.7.0.zip
* DONE (flowCL)