Hi everyone,
I'm a real newbie with Bioconductor and can manage with R. Right now I'm trying out different flow cytometry packages to see which are the ones I will be using for the research that is going on in the lab I'm working in.
Now while I was installing some data that comes along with the FlowWorkSpace package to familiarize myself with it but when trying to install I get this message:
> BiocManager::install("flowWorkspaceData")
Bioconductor version 3.10 (BiocManager 1.30.10), R 3.6.3 (2020-02-29)
Installing package(s) 'flowWorkspaceData'
installing the source package ‘flowWorkspaceData’
trying URL 'https://bioconductor.org/packages/3.10/data/experiment/src/contrib/flowWorkspaceData_2.22.0.tar.gz'
Content type 'application/x-gzip' length 36957917 bytes (35.2 MB)
downloaded 35.2 MB
'\\amc.intra\users\A\afgirigorie\home'
CMD.EXE was started with the above path as the current directory.
UNC paths are not supported. Defaulting to Windows directory.
* installing *source* package 'flowWorkspaceData' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Error in findpack(package, lib.loc) :
there is no package called 'flowWorkspaceData'
Calls: <Anonymous> -> findpack
Execution halted
ERROR: lazy loading failed for package 'flowWorkspaceData'
* removing '\\amc.intra/users/A/afgirigorie/home/R/win-library/3.6/flowWorkspaceData'
The downloaded source packages are in
‘C:\Users\afgirigorie\AppData\Local\Temp\RtmpqCRVlZ\downloaded_packages’
Installation path not writeable, unable to update packages: lattice
Old packages: 'nnet', 'rlang'
Update all/some/none? [a/s/n]:
n
Warning message:
In install.packages(...) :
installation of package ‘flowWorkspaceData’ had non-zero exit status.
This is my session info:
> sessionInfo()
R version 3.6.3 (2020-02-29)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 17134)
Matrix products: default
Random number generation:
RNG: Mersenne-Twister
Normal: Inversion
Sample: Rounding
locale:
[1] LC_COLLATE=Dutch_Netherlands.1252 LC_CTYPE=Dutch_Netherlands.1252 LC_MONETARY=Dutch_Netherlands.1252
[4] LC_NUMERIC=C LC_TIME=Dutch_Netherlands.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached):
[1] BiocManager_1.30.10 compiler_3.6.3 tools_3.6.3
Can anyone help me solve this problem?
Thank you!
Alright! I will go and try it. Thank you for the help.
It seems that is was a lot of trouble for nothing. I got this after I changed the path:
flowWorkspaceData
is a Bioconductor package, and so should be installed withBiocManager::install("flowWorkspaceData")
.That is what I tried at first and that still doesn't work, and changing the path also doesn't help. I'm still trying to solve the problem (I'm probably missing something simple to fix it).
Can you now report what the error is? Previously it was "UNC paths are not supported" but now you do not have UNC paths, so the error must be different...
Hi,
It took some time, but it seems that the IT department seems to have rolled out an update that is affecting a lot of computers in the institute. So I need to be patient and wait. But thanks for thinking along with me to try and fix this problem.