Unable to load GRanges

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Unable to load GRanges

Tewelde Tesfaye
Dear Sir/Madam
Greetings
Error message [
install.packages("BiocManager")
Installing package into
‘C:/Users/default.DESKTOP-DE6RR7L/Documents/R/win-library/3.6’
(as ‘lib’ is unspecified)
--- Please select a CRAN mirror for use in this session ---
trying URL '
https://cloud.r-project.org/bin/windows/contrib/3.6/BiocManager_1.30.4.zip'
Content type 'application/zip' length 292998 bytes (286 KB)
downloaded 286 KB

package ‘BiocManager’ successfully unpacked and MD5 sums checked

The downloaded binary packages are in

C:\Users\default.DESKTOP-DE6RR7L\AppData\Local\Temp\RtmpKSLUUH\downloaded_packages
> BiocManager::install("GenomicRanges")
Bioconductor version 3.9 (BiocManager 1.30.4), R 3.6.1 (2019-07-05)
Installing package(s) 'GenomicRanges'
trying URL '
https://bioconductor.org/packages/3.9/bioc/bin/windows/contrib/3.6/GenomicRanges_1.36.0.zip
'
Content type 'application/zip' length 2135144 bytes (2.0 MB)
downloaded 2.0 MB

package ‘GenomicRanges’ successfully unpacked and MD5 sums checked

The downloaded binary packages are in

C:\Users\default.DESKTOP-DE6RR7L\AppData\Local\Temp\RtmpKSLUUH\downloaded_packages
installation path not writeable, unable to update packages: boot, foreign,
nlme ]

        [[alternative HTML version deleted]]

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Re: Unable to load GRanges

Jeff Newmiller
This mailing list is the wrong place to ask a BioC question. I do recommend asking a question when you finally do arrive at the correct forum ... the below information seems to suggest that something you did or something odd about your account privileges lead to that output but you haven't indicated what you did.

https://www.bioconductor.org/help/support/
https://bioconductor.org/packages/release/bioc/html/GenomicRanges.html

On August 17, 2019 7:56:35 AM PDT, Tewelde Tesfaye <[hidden email]> wrote:

>Dear Sir/Madam
>Greetings
>Error message [
>install.packages("BiocManager")
>Installing package into
>‘C:/Users/default.DESKTOP-DE6RR7L/Documents/R/win-library/3.6’
>(as ‘lib’ is unspecified)
>--- Please select a CRAN mirror for use in this session ---
>trying URL '
>https://cloud.r-project.org/bin/windows/contrib/3.6/BiocManager_1.30.4.zip'
>Content type 'application/zip' length 292998 bytes (286 KB)
>downloaded 286 KB
>
>package ‘BiocManager’ successfully unpacked and MD5 sums checked
>
>The downloaded binary packages are in
>
>C:\Users\default.DESKTOP-DE6RR7L\AppData\Local\Temp\RtmpKSLUUH\downloaded_packages
>> BiocManager::install("GenomicRanges")
>Bioconductor version 3.9 (BiocManager 1.30.4), R 3.6.1 (2019-07-05)
>Installing package(s) 'GenomicRanges'
>trying URL '
>https://bioconductor.org/packages/3.9/bioc/bin/windows/contrib/3.6/GenomicRanges_1.36.0.zip
>'
>Content type 'application/zip' length 2135144 bytes (2.0 MB)
>downloaded 2.0 MB
>
>package ‘GenomicRanges’ successfully unpacked and MD5 sums checked
>
>The downloaded binary packages are in
>
>C:\Users\default.DESKTOP-DE6RR7L\AppData\Local\Temp\RtmpKSLUUH\downloaded_packages
>installation path not writeable, unable to update packages: boot,
>foreign,
>nlme ]
>
> [[alternative HTML version deleted]]
>
>______________________________________________
>[hidden email] mailing list -- To UNSUBSCRIBE and more, see
>https://stat.ethz.ch/mailman/listinfo/r-help
>PLEASE do read the posting guide
>http://www.R-project.org/posting-guide.html
>and provide commented, minimal, self-contained, reproducible code.

--
Sent from my phone. Please excuse my brevity.

______________________________________________
[hidden email] mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
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Re: Unable to load GRanges

David Winsemius
In reply to this post by Tewelde Tesfaye
Looks like you do not have permissions to write to that directory, but
it's not clear that this is a major problem. The updating of boot and
foreign is not something that regular non BioC users would have usually
needed.  Did you recently update your R installation? Library locations
sometimes get changed when you do that.  If so, what happens when you
execute:

update.packages(checkBuilt=TRUE)


--

David.

On 8/17/19 7:56 AM, Tewelde Tesfaye wrote:

> Dear Sir/Madam
> Greetings
> Error message [
> install.packages("BiocManager")
> Installing package into
> ‘C:/Users/default.DESKTOP-DE6RR7L/Documents/R/win-library/3.6’
> (as ‘lib’ is unspecified)
> --- Please select a CRAN mirror for use in this session ---
> trying URL '
> https://cloud.r-project.org/bin/windows/contrib/3.6/BiocManager_1.30.4.zip'
> Content type 'application/zip' length 292998 bytes (286 KB)
> downloaded 286 KB
>
> package ‘BiocManager’ successfully unpacked and MD5 sums checked
>
> The downloaded binary packages are in
>
> C:\Users\default.DESKTOP-DE6RR7L\AppData\Local\Temp\RtmpKSLUUH\downloaded_packages
>> BiocManager::install("GenomicRanges")
> Bioconductor version 3.9 (BiocManager 1.30.4), R 3.6.1 (2019-07-05)
> Installing package(s) 'GenomicRanges'
> trying URL '
> https://bioconductor.org/packages/3.9/bioc/bin/windows/contrib/3.6/GenomicRanges_1.36.0.zip
> '
> Content type 'application/zip' length 2135144 bytes (2.0 MB)
> downloaded 2.0 MB
>
> package ‘GenomicRanges’ successfully unpacked and MD5 sums checked
>
> The downloaded binary packages are in
>
> C:\Users\default.DESKTOP-DE6RR7L\AppData\Local\Temp\RtmpKSLUUH\downloaded_packages
> installation path not writeable, unable to update packages: boot, foreign,
> nlme ]
>
> [[alternative HTML version deleted]]
>
> ______________________________________________
> [hidden email] mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.

______________________________________________
[hidden email] mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.