Fix miscellaneous references to repo location.

CONTRIBUTING.rst

@@ -45,7 +45,7 @@ With the environment variable set, build the package and run checks as follows:
 .. code:: sh
 
   export GOOGLE_API_KEY=<your public API key>
-  R CMD build api-client-r
+  R CMD build GoogleGenomics
   R CMD check GoogleGenomics_<version>.tar.gz
 
 Optionally, you can also enable Travis for your fork and set up the environment variable in your

DESCRIPTION

@@ -21,5 +21,5 @@ Description: Provides an R package to interact with the Google Genomics API.
 VignetteBuilder: knitr
 License: Apache License (== 2.0) | file LICENSE
 URL: https://cloud.google.com/genomics/
-BugReports: https://github.com/googlegenomics/api-client-r/issues
+BugReports: https://github.com/Bioconductor/GoogleGenomics/issues
 biocViews: DataImport, ThirdPartyClient

R/reads.R

@@ -115,7 +115,7 @@ getReads <- function(readGroupSetId="CMvnhpKTFhDnk4_9zcKO3_YB",
                            pageToken=pageToken)
     pageToken <- result$nextPageToken
     # TODO improve performance,
-    # see https://github.com/googlegenomics/api-client-r/issues/17
+    # see https://github.com/Bioconductor/GoogleGenomics/issues/17
     reads <- c(reads, converter(result$reads))
     if (is.null(pageToken)) {
       break

R/variants.R

@@ -108,7 +108,7 @@ getVariants <- function(datasetId="10473108253681171589",
                               pageToken=pageToken)
     pageToken <- result$nextPageToken
     # TODO improve performance,
-    # see https://github.com/googlegenomics/api-client-r/issues/17
+    # see https://github.com/Bioconductor/GoogleGenomics/issues/17
     variants <- c(variants, converter(result$variants))
     if (is.null(pageToken)) {
       break

shiny/README.md

@@ -7,7 +7,7 @@ Read data from the Google Genomics API
   ```
   devtools::install_github("shiny", "rstudio")
   library(shiny)
-  runGitHub("api-client-r", "googlegenomics", subdir = "shiny")
+  runGitHub("GoogleGenomics", "Bioconductor", subdir = "shiny")
   ```
 
   You'll need the same client ID and secret values that you used 
@@ -40,9 +40,9 @@ for getting your environment set up. From then on:
   ```
   library(shinyapps)
   library(shiny)
-  runApp("path/to/api-client-r/shiny")
+  runApp("path/to/GoogleGenomics/shiny")
   ```
 * And when everything is final, deploy it:
   ```
-  deployApp("path/to/api-client-r/shiny", "reads")
-  ```
+  deployApp("path/to/GoogleGenomics/shiny", "reads")
+  ```

shiny/ui.R

@@ -26,8 +26,8 @@ shinyUI(fluidPage(
           value = 'CMvnhpKTFhCbiObuzvm7nOoB'),
       textInput('chr', label = 'Reference name', value = '19'),
       numericInput('position', label = '0-based Position', value = '29564500'),
-      div(a(href = "http://github.com/googlegenomics/api-client-r",
-          "http://github.com/googlegenomics/api-client-r"))
+      div(a(href = "http://github.com/Bioconductor/GoogleGenomics",
+          "http://github.com/Bioconductor/GoogleGenomics"))
     ),
 
     mainPanel(