R version for the tool

[simonzzc034]

Hey, does mr.mosaic require a particular R version or R version after certain release? I am asking because when I tried to make the code, got the following error:

Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) :
namespace ‘proto’ 0.3-10 is already loaded, but >= 1.0.0 is required

[PBmitshu]

Latest R version 3.4.3 works well with all dependencies need for this tool

[PamelaMehanna]

Mine works with R/3.3.3

[simonzzc034]

Thank you everyone. I was using an old version R but now I am on R3.4.1, and run into another error while 'make' the code:

install_github("asifrim/mrmosaic",ref="master",subdir="mrmosaic")
Downloading GitHub repo asifrim/mrmosaic@master
from URL https://api.github.com/repos/asifrim/mrmosaic/zipball/master
Installing mrmosaic
'/home/karvai/anaconda/envs/r-env/lib/R/bin/R' --no-site-file --no-environ
--no-save --no-restore --quiet CMD INSTALL
'/tmp/Rtmp9ztqnS/devtools37be750ec863/asifrim-mrmosaic-969c39a/mrmosaic'
--library='/home/zzhang/R/x86_64-pc-linux-gnu-library/3.4' --install-tests

• installing source package ‘mrmosaic’ ...
  ** R
  ** preparing package for lazy loading
  Error in .stop(output, "parse error:") : parse error:
  usage: PROGRAM [-h] [--child CHILD] [--dad DAD] [--mum MUM] [--denovo DENOVO]
  [--prefix PREFIX] [--outputdir OUTPUTDIR]
  PROGRAM: error: unrecognized arguments: nextArg/tmp/Rtmp9ztqnS/devtools37be750ec863/asifrim-mrmosaic-969c39a/mrmosaicnextArg--library=/home/zzhang/R/x86_64-pc-linux-gnu-library/3.4nextArg--install-tests
  Error : unable to load R code in package ‘mrmosaic’
  ERROR: lazy loading failed for package ‘mrmosaic’

Any of you seen this before. It looks like an argparse error, not necessarily R version issue to me? Thanks!

Zhancheng

[simonzzc034]

Also may I ask how recently did you guys install this tool?

[dwalinybalin]

As I answered in a previous post, perform the following steps:

1. Move the "plot_denovos.R" and "plot_mrm.R" files located in the R folder inside the mrmosaic R package folder to the scripts folder in the package folder.

2. In the install_package.R file, change the line:

install_github("asifrim/mrmosaic",ref="master",subdir="mrmosaic")

for

install.packages("mrmosaic", repos=NULL, type="source")

3. Run make

[simonzzc034]

That works. Thank you so much Marcos!

[ik3rp3r3]

Hi,

My R version is 3.4.4 and I've followed the steps you said but I am still getting the exact same error as simonzzc034. Does anyone know why?

Thanks!