On 11/11/2016 12:09 PM, Jurat Shayidin wrote:
sorry for this simple question. why use R vanilla ? not familiar enough
with this term.
It's not R vanilla, but R --vanilla; see
R --help
On Fri, Nov 11, 2016 at 5:51 PM, Martin Morgan <
martin.mor...@roswellpark.org> wrote:
On 11/11/2016 11:42 AM, Jurat Shayidin wrote:
I'll keep this in mind. Thanks for reminding. Could you please elaborate
your answer on my doubt ? Thanks
On Fri, Nov 11, 2016 at 5:27 PM, Martin Morgan <
martin.mor...@roswellpark.org> wrote:
Please respond on the mailing list, so that others in similar situations
can benefit / contribute.
On 11/11/2016 10:39 AM, Jurat Shayidin wrote:
Dear Martin :
Thanks for your prompt hit . I used to have R release version, so after
I installed devel version of R, I removed R released version, while only
keep devel version instead. Is this correct ? I didn't clean R session,
this is not related to your original question. I personally need both a
release and devel version of R and have both installed.
how can I make it happen on windows? Plus, How to make R session
vanilla ? What's right configuration both R devel and Bioc devel before
open a Windows shell ('cmd') and type
R --vanilla
or perhaps
Rgui --vanilla
building my packages ? Could you elaborate your answer please? Thank you
again, this isn't related to your original question. See the section
'Which version of R?' in
http://bioconductor.org/developers/how-to/useDevel/
Martin
very much
Best regards :
On Fri, Nov 11, 2016 at 4:04 PM, Martin Morgan
<martin.mor...@roswellpark.org <mailto:martin.mor...@roswellpark.org>>
wrote:
On 11/11/2016 09:44 AM, Jurat Shayidin wrote:
Dear BiocDevel:
I ran into the issue after installed devel version of R and Bioc
3.4.
Because my packages depends on some packages from CRAN
repository, now I
failed to installed paclages from CRAN. I don't have problem
when I used
released version of R. Because new packages must coordinate with
devel
version of Bioc and R, so I did it. But can't installl packages
from CRAN
like dplyr. How can I overcome this issue ? Any quick solution
? I got
error as follow:
BiocInstaller::useDevel()
Error: 'devel' version already in use
install.packages("dplyr")
Error in install.packages : missing value where TRUE/FALSE
needed
this does not happen for me; you'll need to debug on your end,
minimally, reporting the output of traceback() after the error
occurs.
are you in a clean R session with no .RData or other objects loaded
that might interfere with R?
R --vanilla
Martin
PS -- please do not 'close' questions that have been answered on
support.bioconductor.org <http://support.bioconductor.org>.
sessionInfo()
R Under development (unstable) (2016-11-09 r71642)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows >= 8 x64 (build 9200)
locale:
[1] LC_COLLATE=English_United States.1252
[2] LC_CTYPE=English_United States.1252
[3] LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C
[5] LC_TIME=English_United States.1252
attached base packages:
[1] parallel stats4 stats graphics grDevices
[6] utils datasets methods base
other attached packages:
[1] SummarizedExperiment_1.5.2 Biobase_2.35.0
[3] XVector_0.15.0 rtracklayer_1.35.1
[5] GenomicRanges_1.27.5 GenomeInfoDb_1.11.3
[7] IRanges_2.9.7 S4Vectors_0.13.2
[9] BiocGenerics_0.21.0 BiocInstaller_1.25.2
loaded via a namespace (and not attached):
[1] lattice_0.20-34 XML_3.98-1.5
[3] Rsamtools_1.27.2 Biostrings_2.43.0
[5] GenomicAlignments_1.11.0 bitops_1.0-6
[7] grid_3.4.0 zlibbioc_1.21.0
[9] Matrix_1.2-7.1 BiocParallel_1.9.1
[11] tools_3.4.0 RCurl_1.95-4.8
[13] compiler_3.4.0
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