[Bioc-devel] import except on Window Machine

[Dan Tenenbaum]

Karim, What is the sessionInfo() in your R-3.3? It might be too old to have the new feature. It needs to be at svn rev r70426 or newer.

Dan


----- Original Message -----
> From: "Karim Mezhoud" <kmezhoud at gmail.com>
> To: "Lihua Zhu" <Julie.Zhu at umassmed.edu>
> Cc: "Dan Tenenbaum" <dtenenba at fredhutch.org>, "Michael Lawrence" <lawrence.michael at gene.com>, "bioc-devel"
> <bioc-devel at r-project.org>
> Sent: Monday, April 11, 2016 10:03:52 AM
> Subject: Re: [Bioc-devel] import except on Window Machine

> Dear Julie,
> Are you using roxigen2 to edit NAMESPACE file?
> Are you using R 3.4?
> Thanks
> 
> In my case, When I used R 3.3 I get this error:
> 
> 
> ==> R CMD INSTALL --no-multiarch --with-keep.source bioCancer
> 
> * installing to library
> ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library’
> * installing *source* package ‘bioCancer’ ...
> ** R
> ** inst
> ** preparing package for lazy loading
> Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]])
> :
>  there is no package called ‘c("dataTableOutput", "renderDataTable")’
> ERROR: lazy loading failed for package ‘bioCancer’
> * removing
> ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/bioCancer’
> * restoring previous
> ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/bioCancer’
> 
> Exited with status 1
> 
> When I used R 3.4, I get :
> 
> unfortunately,
> 
> Bioconductor version 3.3 (BiocInstaller 1.21.4), ?biocLite for help
> Bioconductor does not yet support R version 3.4.0
> 
> 
> 
> On Mon, Apr 11, 2016 at 5:30 PM, Zhu, Lihua (Julie) <Julie.Zhu at umassmed.edu>
> wrote:
> 
>> Thanks, Dan!
>>
>> Best,
>>
>> Julie
>>
>> On 4/11/16 12:22 PM, "Dan Tenenbaum" <dtenenba at fredhutch.org> wrote:
>>
>> >The windows machine is still running an older version of R that does not
>> >support this NAMESPACE syntax. I will update it this week.
>> >Dan
>> >
>> >
>> >----- Original Message -----
>> >> From: "Lihua Zhu" <Julie.Zhu at umassmed.edu>
>> >> To: "bioc-devel" <bioc-devel at r-project.org>
>> >> Cc: "Michael Lawrence" <lawrence.michael at gene.com>
>> >> Sent: Monday, April 11, 2016 9:18:31 AM
>> >> Subject: [Bioc-devel] import except on Window Machine
>> >
>> >> Michael,
>> >>
>> >> For some reason,  adding except clause in import in the NAMESPACE file
>> >>gives
>> >> error on window server, although it runs fine on Linux and Mac OS X.
>> >>
>> >>
>> https://urldefense.proofpoint.com/v2/url?u=http-3A__bioconductor.org_chec
>> >>kResults_devel_bioc-2DLATEST_CRISPRseek_moscato2-2Dbuildsrc.html&d=BQICaQ
>> >>&c=WJBj9sUF1mbpVIAf3biu3CPHX4MeRjY_w4DerPlOmhQ&r=3IbW-yoIQpGZOKgd4i2bgmPH
>> >>hwHHF5gJMlij5cC5bLU&m=t9rR8WHE_O0PrI0B-0ySt37UGJMdDhnwk0JFoVzS5Cw&s=lEJWy
>> >>zN3zY_O2V1X3QmOZcPD25KidcjhIQMAky52xsA&e=
>> >>
>> >> Here is the line that gives error.
>> >> import(S4Vectors, except=c(fold, values))
>> >>
>> >> Did I miss something? Thank!
>> >>
>> >> Best regards,
>> >>
>> >> Julie
>> >>
>> >>
>> >>
>> >>      [[alternative HTML version deleted]]
>> >>
>> >> _______________________________________________
>> >> Bioc-devel at r-project.org mailing list
>> >>
>> >>
>> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman
>> >>_listinfo_bioc-2Ddevel&d=BQICaQ&c=WJBj9sUF1mbpVIAf3biu3CPHX4MeRjY_w4DerPl
>> >>OmhQ&r=3IbW-yoIQpGZOKgd4i2bgmPHhwHHF5gJMlij5cC5bLU&m=t9rR8WHE_O0PrI0B-0yS
>> >>t37UGJMdDhnwk0JFoVzS5Cw&s=3ZMFBJ4XMwlGXkfXcB5spcBnnzqBDeqk05sf_TSi88g&e=
>>
>> _______________________________________________
>> Bioc-devel at r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/bioc-devel