ui.R mapOutput error

[talassio]

Sourcing launch_app stops with the error:

> launch_app(debug = TRUE, quiet = TRUE)

[1] "dir_app: /home/cesma/R/x86_64-pc-linux-gnu-library/3.1/ohicore/shiny_app" Error in system.file("libraries", lib, package = package) : object 'package' not found

Replacing in dir_app/ui.R on line 98

mapOutput('map_container')),

with

chartOutput("map_container", 'leaflet')),

as per https://github.com/ramnathv/rMaps/issues/63 seems that the App works, except no map is drawn.

[jules32]

Hi @talassio,

Thanks for submitting this issue; we will have to look into this.

Did you clone a repository or are you following steps from http://ohi-science.org/pages/install.html?

[talassio]

Dear Julia,

I cloned the ecu repository and installed the required packages one by one.

Looking forward to your reply,

best,

Andres

On 16 April 2015 at 17:11, Julia Lowndes notifications@github.com wrote:

Hi @talassio https://github.com/talassio,

Thanks for submitting this issue; we will have to look into this.

Did you clone a repository or are you following steps from http://ohi-science.org/pages/install.html?

— Reply to this email directly or view it on GitHub https://github.com/OHI-Science/ohicore/issues/169#issuecomment-93846116.

[talassio]

Julia,

as discussed:

list of packages to install from a vanilla system:

install.packages('devtools') install.packages('psych') devtools::install_github('ramnathv/rCharts') devtools::install_github('OHI-Science/ohicore')

please add as required packages in calculate_scores.R:

load MANDATORY required libraries

require(pscych) require(ohicore)

Cheers

[jules32]

Hi @talassio,

I have an answer for you. This is what you'll need to install, which I have updated in lines 2-4 of calculate_scores.r. Note that you are installing the dev branch of ohicore; this is important that the @dev is included in the install_github call so that you access our most up-to-date repo.

library(devtools) # install.packages('devtools')
install_github("ohi-science/ohicore@dev")
library(ohicore)

With this, you should not have any more problems with psych and rCharts.

[talassio]

Marvelous! On Apr 21, 2015 5:43 AM, "Julia Lowndes" notifications@github.com wrote:

Hi @talassio https://github.com/talassio,

I have an answer for you. This is what you'll need to install, which I have updated in lines 2-4 of calculate_scores.r https://github.com/OHI-Science/gye/blob/draft/region2015/calculate_scores.R#L2-L4. Note that you are installing the dev branch of ohicore; this is important that the @dev https://github.com/dev is included in the install_github call so that you access our most up-to-date repo.

library(devtools) # install.packages('devtools') install_github("ohi-science/ohicore@dev") library(ohicore)

— Reply to this email directly or view it on GitHub https://github.com/OHI-Science/ohicore/issues/169#issuecomment-94645745.

[talassio]

calculate_scores.R

Just pulled the updated gye repo, and line install_github("ohi-science/ohicore@dev") fails with message

ERROR: dependency ‘rCharts’ is not available for package ‘ohicore’
* removing ‘/home/cesma/R/x86_64-pc-linux-gnu-library/3.2/ohicore’
Error: Command failed (1)
In addition: Warning message:
package ‘rCharts’ is not available (for R version 3.2.0) 

to fix, add devtools::install_github('ramnathv/rCharts') before ohicore@dev

launch_app_codes.R

Also fails, with message

> require(methods)
> launch_app()
Loading required package: shiny
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called ‘git2r’
Error in loadNamespace(name) : there is no package called ‘git2r’

fix by prepending with library(git2r)

and finally, launch_app() blows up with

> launch_app()
Error in normalizePath(path, winslash = "/", mustWork = TRUE) : 
  path[1]="github": No such file or directory

hope this helps,

Cheers, Andrew

[jules32]

Sorry about this. Thanks for the detail; we are investigating and will get back to you!

[jules32]

Hi Andrew,

Thanks for your patience. The proper way to install ohicore is to first install the OHI-Science version of rCharts, as in the code below.

I have added a script that you can run that will do this for you: gye/region2015/install_ohicore.r.

Cheers, Julie

# remove old packages
for (p in c('ohicore','ohigui','rCharts')){
  if (p %in% rownames(installed.packages())){
    lib = subset(as.data.frame(installed.packages()), Package==p, LibPath, drop=T)
    remove.packages(p, lib)
  }
}

# install dependencies
for (p in c('devtools')){
  if (!require(p, character.only=T)){
    install.packages(p)
    require(p, character.only=T)
  }
}

# install packages
install_github('ohi-science/rCharts')
install_github('ohi-science/ohicore@dev')

[talassio]

Hello Julia,

just followed all the steps and still can't make launch_app_code.R work:

launch_app() Loading required package: shiny Error in normalizePath(path, winslash = "/", mustWork = TRUE) : path[1]="github": No such file or directory

Hope this helps.

Cheers,

Andrew

On 22 April 2015 at 13:10, Julia Lowndes notifications@github.com wrote:

Hi Andrew,

Thanks for your patience. The proper way to install ohicore is to first install the OHI-Science version of rCharts, as in the code below.

I have added a script that you can run that will do this for you: gye/region2015/install_ohicore.r.

Cheers, Julie

remove old packagesfor (p in c('ohicore','ohigui','rCharts')){

if (p %in% rownames(installed.packages())){ lib = subset(as.data.frame(installed.packages()), Package==p, LibPath, drop=T) remove.packages(p, lib) } }

install dependenciesfor (p in c('devtools')){

if (!require(p, character.only=T)){ install.packages(p) require(p, character.only=T) } }

install packages

install_github('ohi-science/rCharts') install_github('ohi-science/ohicore@dev')

— Reply to this email directly or view it on GitHub https://github.com/OHI-Science/ohicore/issues/169#issuecomment-95279720.