in an effort to bring bseqsc to bioconda, all dependencies need to be there as well. For this we would need you to create a release version. Thank you so much!

Trying to install csSAM by install_github('shenorrlab/csSAM') but failed to get installed with a following error message;

All my packages loaded Tue Nov 13 15:13:49 2018* installing *source* package ‘csSAM’ ... ** libs /usr/local/opt/llvm/bin/clang++ -fopenmp -I"/usr/local/Cellar/r/3.5.1/lib/R/include" -DNDEBUG "/usr/local/Cellar/r/3.5.1/lib/R/bin/Rscript" -e "Rcpp:::CxxFlags()"` -I"/Volumes/Documents/Users/akihoji/Library/R/3.x/library/Rcpp/include" -I/usr/local/opt/gettext/include -I/usr/local/opt/llvm/include -fPIC -g -O3 -Wall -pedantic -std=c++11 -mtune=native -pipe -c rcpp_cssam.cpp -o rcpp_cssam.o
Bioconductor version 3.8 (BiocInstaller 1.31.3), ?biocLite for help
Warning message:
'BiocInstaller' and 'biocLite()' are deprecated, use the 'BiocManager' CRAN
package instead.

Attaching package: ‘BiocManager’

The following object is masked from ‘package:devtools’:

install

Loading required package: magrittr
clang-7: error: no such file or directory: 'All'
clang-7: error: no such file or directory: 'my'
clang-7: error: no such file or directory: 'packages'
clang-7: error: no such file or directory: 'loaded'
clang-7: error: no such file or directory: 'Tue'
clang-7: error: no such file or directory: 'Nov'
clang-7: error: no such file or directory: '13'
clang-7: error: no such file or directory: '15:13:52'
clang-7: error: no such file or directory: '2018-I/Volumes/Documents/Users/akihoji/Library/R/3.x/library/Rcpp/include'
make: *** [rcpp_cssam.o] Error 1
ERROR: compilation failed for package ‘csSAM’

• removing ‘/Volumes/Documents/Users/akihoji/Library/R/3.x/library/csSAM’
• restoring previous ‘/Volumes/Documents/Users/akihoji/Library/R/3.x/library/csSAM’
  Error in i.p(...) :
  (converted from warning) installation of package ‘/var/folders/lv/p00dl3vn7k382yq2dzd8n8s80000gn/T//RtmpjIEzfo/file163676273bab3/csSAM_1.4.tar.gz’ had non-zero exit status`

Here is my sessioninfo;

setting value version R version 3.5.1 (2018-07-02) os macOS High Sierra 10.13.6 system x86_64, darwin17.6.0 ui RStudio language (EN) collate en_US.UTF-8 ctype en_US.UTF-8 tz America/New_York date 2018-11-13

And my OSX info.;

roductName: Mac OS X ProductVersion: 10.13.6 BuildVersion: 17G3025

Thanks.

The readme needs to be updated. Currently it reads:

# install csSAM
devtools::install_github('shenorlab/csSAM')

This should be corrected to devtools::install_github('shenorrlab/csSAM') (double r instead of single) to get the install going.