PTXQC installing failure

[ParisWu]

Hi, I am a PTXQC user from China, there is some problem in installing PTXQC in my laptop.

The R version is 3.2.3

The command is as follows:

if (!require(devtools, quietly = TRUE)) install.packages("devtools") library("devtools")
source("http://bioconductor.org/biocLite.R") Bioconductor version 3.2 (BiocInstaller 1.20.1), ?biocLite for help biocLite("Biobase") BioC_mirror: https://bioconductor.org Using Bioconductor 3.2 (BiocInstaller 1.20.1), R 3.2.3 (2015-12-10). Installing package(s) ‘Biobase’ 试开URL’https://bioconductor.org/packages/3.2/bioc/bin/windows/contrib/3.2/Biobase_2.30.0.zip' Content type 'application/zip' length 4227858 bytes (4.0 MB) downloaded 4.0 MB

package ‘Biobase’ successfully unpacked and MD5 sums checked

The downloaded binary packages are in C:\Users\Administrator\AppData\Local\Temp\Rtmpe8h2Nd\downloaded_packages

install_github("cbielow/PTXQC", build_vignettes = TRUE) Downloading GitHub repo cbielow/PTXQC@master Installing PTXQC "C:/Program Files/R/R-32~1.3/bin/x64/R" --no-site-file --no-environ --no-save --no-restore CMD build \ "C:\Users\Administrator\AppData\Local\Temp\Rtmpe8h2Nd\devtoolsf081956398e\cbielow-PTXQC-96df116" --no-resave-data \ --no-manual

[cbielow]

The log you posted looks fine to me.

What is the error you see (i.e. what is you question) :) ?

Sometimes the R console does not output any progress for quite some time -- usually then the CRAN/BC servers are unreachable or under high load. Usually, the problem is solved by waiting and trying again.

[ParisWu]

Thanks for replying me, myproblem is I can not find PTXQC package in my R library, just as follows：

help(package="PTXQC") starting httpd help server ... done。 browseVignettes(package="PTXQC") Error in find.package(package, lib.loc) : there is no package called ‘PTXQC’

[cbielow]

did you follow the drag'n'drop installation procedure, i.e. if you used

##
## the following section of code is only required to create a self-contained 
## library folder which hosts all required packages for PTXQC for ease of copying
##
tmp_dir = tempfile("PTXQC_pck_")
dir.create(tmp_dir)
.libPaths(tmp_dir)
cat(paste0("\nNew temporary library folder: '", .libPaths()[1], "' created. Installing PTXQC ...\n"))

before using the commands you posted initially, then PTXQC was installed to a temporary library. If you restart R, this temp-library will be lost and R cannot find PTXQC.

Please re-read the installation manual carefully! If you want PTXQC for interactive usage in your local R installation, you must not use the first code block (which I posted here). Further details in the manual.