Error in dir_copy(file.path(cacheLibDir(pkgRecord$name, pkgRecord$hash)),

When I try to use Packrat with RStudio 0.99.1285, I have an issue where I have loaded a package that Packrat thinks needs to be updated into my library (and is in my lock file), but when I try to install it back into my workspace, I get the following error:
Installing manipulate (1.0.1) ...
Error in dir_copy(file.path(cacheLibDir(pkgRecord$name, pkgRecord$hash)), :
Directory already exists at path '/Users/petergensler/Desktop/SuperStore Analysis/packrat/lib/x86_64-apple-darwin13.4.0/3.3.1/manipulate'.

I don't think packrat is fully restoring all of the packages from my lock file. Attached is my session info, and the lock file. Let me know how I can help.

R version 3.3.1 (2016-06-21)
Platform: x86_64-apple-darwin13.4.0 (64-bit)
Running under: OS X 10.11.6 (El Capitan)

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages:
[1] stats graphics grDevices utils datasets methods base

loaded via a namespace (and not attached):
[1] magrittr_1.5 formatR_1.4 htmltools_0.3.5 tools_3.3.1 yaml_2.1.13
[6] Rcpp_0.12.5 stringi_1.1.1 rmarkdown_1.0 knitr_1.14 stringr_1.0.0
[11] digest_0.6.9 packrat_0.4.7-1 evaluate_0.9

Start by reproducing the Packrat restore or install flow described in the issue with the provided lock file and session information. Investigate the dir_copy error for the existing manipulate directory under packrat/lib, and consider the work complete when restoring the locked package no longer fails because that directory already exists.