Add DESCRIPTION so install from github works

[AMChalkie]

Hi,

I know you would prefer me using the dev package, but... would be nice to be able to do directly from here.

library(githubinstall) R.3.4.4.>githubinstall("gCrisprTools") Suggestion:

• OscarBrock/gCrisprTools An R/Bioconductor package for the integrated analysis of pooled high-throughput CRISPR/Cas9 or shRNA screening experiments. Do you want to install the package (Y/n)?
  Installing "gCrisprTools" package from GitHub, but already installed from unknown repository. This package is already installed. Are you sure you want to overwrite it (Y/n)? Y Downloading GitHub repo OscarBrock/gCrisprTools@master from URL https://api.github.com/repos/OscarBrock/gCrisprTools/zipball/master Installation failed: Does not appear to be an R package (no DESCRIPTION)

[OscarBrock]

Hi Alistair,

I'm sorry but syncing the current build from Bioc is kind of a bear- I honestly didn't realize that this repo wasn't syncing with the official release, and I am trying to figure out how to get them to the same place (this repo is quite a ways behind the BioC one).

I'm working on fixing this, but it will take a sec before I can get everything ready on github; sorry for the inconvenience.

[AMChalkie]

No worries at all. I appreciate the code and will let you know if I have any more suggestions or find any inconsistencies.

[OscarBrock]

Try now. I am still getting errors on my end of the git client, but it appears as though the master branch has what it needs; let me know if it fails.

-R

[AMChalkie]

Not quite yet. Downloading GitHub repo OscarBrock/gCrisprTools@master from URL https://api.github.com/repos/OscarBrock/gCrisprTools/zipball/master Installing gCrisprTools '/Library/Frameworks/R.framework/Resources/bin/R' --no-site-file --no-environ --no-save --no-restore --quiet CMD INSTALL \ '/private/var/folders/1b/n55kx5h92sjb545dh4t79x1m5fmmpb/T/Rtmpi9ZJ74/devtools303c2fafe6f3/OscarBrock-gCrisprTools-faabbd5' --library='/Users/achalk/Library/R/3.4/library' --install-tests

• installing source package ‘gCrisprTools’ ... R data inst tests ** preparing package for lazy loading Error in parse(nsFile, keep.source = FALSE, srcfile = NULL) : 13:1: unexpected input 12: export(ct.alphaBeta) 13: << ^ ERROR: lazy loading failed for package ‘gCrisprTools’
• removing ‘/Users/achalk/Library/R/3.4/library/gCrisprTools’
• restoring previous ‘/Users/achalk/Library/R/3.4/library/gCrisprTools’ Installation failed: Command failed (1)

[OscarBrock]

Still some artifacts in the NAMESPACE file. Try now?

[AMChalkie]

Not quite there...

Downloading GitHub repo OscarBrock/gCrisprTools@master from URL https://api.github.com/repos/OscarBrock/gCrisprTools/zipball/master Installing gCrisprTools '/Library/Frameworks/R.framework/Resources/bin/R' --no-site-file --no-environ --no-save --no-restore --quiet CMD INSTALL \ '/private/var/folders/1b/n55kx5h92sjb545dh4t79x1m5fmmpb/T/Rtmp8Q0k1Y/devtools30c64b7d2c77/OscarBrock-gCrisprTools-1eea276' --library='/Users/achalk/Library/R/3.4/library' --install-tests

• installing source package ‘gCrisprTools’ ... R data inst tests preparing package for lazy loading help * installing help indices building package indices ** installing vignettes Warning in file(con, "w") : cannot open file '/Users/achalk/Library/R/3.4/library/gCrisprTools/doc/index.html': No such file or directory Error in file(con, "w") : cannot open the connection ERROR: installing vignettes failed
• removing ‘/Users/achalk/Library/R/3.4/library/gCrisprTools’
• restoring previous ‘/Users/achalk/Library/R/3.4/library/gCrisprTools’ Installation failed: Command failed (1)

[OscarBrock]

Weird- it installs fine on my end, but it looks like some of the vignette dependencies needed cleanup.

Try now.

[AMChalkie]

back online again.

githubinstall("gCrisprTools") Suggestion:

• OscarBrock/gCrisprTools An R/Bioconductor package for the integrated analysis of pooled high-throughput CRISPR/Cas9 or shRNA screening experiments. Do you want to install the package (Y/n)?
  Installing "gCrisprTools" package from GitHub, but already installed from unknown repository. This package is already installed. Are you sure you want to overwrite it (Y/n)? Y Downloading GitHub repo OscarBrock/gCrisprTools@master from URL https://api.github.com/repos/OscarBrock/gCrisprTools/zipball/master Installing gCrisprTools '/Library/Frameworks/R.framework/Resources/bin/R' --no-site-file --no-environ --no-save --no-restore --quiet CMD INSTALL \ '/private/var/folders/1b/n55kx5h92sjb545dh4t79x1m5fmmpb/T/RtmpJGxpVF/devtools70fe59448c/OscarBrock-gCrisprTools-15eb8b6' --library='/Library/Frameworks/R.framework/Versions/3.5/Resources/library' \ --install-tests

• installing source package ‘gCrisprTools’ ... R data inst tests byte-compile and prepare package for lazy loading help * installing help indices building package indices ** installing vignettes Warning in file(con, "w") : cannot open file '/Library/Frameworks/R.framework/Versions/3.5/Resources/library/gCrisprTools/doc/index.html': No such file or directory Error in file(con, "w") : cannot open the connection ERROR: installing vignettes failed
• removing ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library/gCrisprTools’
• restoring previous ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library/gCrisprTools’ Installation failed: Command failed (1) Warning message: In fread(download_url, sep = "\t", header = FALSE, stringsAsFactors = FALSE, : Found and resolved improper quoting out-of-sample. First healed line 4848: <<Puriney honfleuR "Evening, honfleuR" by Seurat>>. If the fields are not quoted (e.g. field separator does not appear within any field), try quote="" to avoid this warning.