Merge pull request #16 from Hong-Revo/master

start fixing so R CMD build will work

.Rbuildignore

@@ -1,5 +1,6 @@
 \.git
 \.gitignore
+\.gitattributes
 Makefile
 ^.*\.Rproj$
 ^\.Rproj\.user$

.gitattributes

@@ -0,0 +1,63 @@
+###############################################################################
+# Set default behavior to automatically normalize line endings.
+###############################################################################
+* text=auto
+
+###############################################################################
+# Set default behavior for command prompt diff.
+#
+# This is need for earlier builds of msysgit that does not have it on by
+# default for csharp files.
+# Note: This is only used by command line
+###############################################################################
+#*.cs     diff=csharp
+
+###############################################################################
+# Set the merge driver for project and solution files
+#
+# Merging from the command prompt will add diff markers to the files if there
+# are conflicts (Merging from VS is not affected by the settings below, in VS
+# the diff markers are never inserted). Diff markers may cause the following 
+# file extensions to fail to load in VS. An alternative would be to treat
+# these files as binary and thus will always conflict and require user
+# intervention with every merge. To do so, just uncomment the entries below
+###############################################################################
+#*.sln       merge=binary
+#*.csproj    merge=binary
+#*.vbproj    merge=binary
+#*.vcxproj   merge=binary
+#*.vcproj    merge=binary
+#*.dbproj    merge=binary
+#*.fsproj    merge=binary
+#*.lsproj    merge=binary
+#*.wixproj   merge=binary
+#*.modelproj merge=binary
+#*.sqlproj   merge=binary
+#*.wwaproj   merge=binary
+
+###############################################################################
+# behavior for image files
+#
+# image files are treated as binary by default.
+###############################################################################
+#*.jpg   binary
+#*.png   binary
+#*.gif   binary
+
+###############################################################################
+# diff behavior for common document formats
+# 
+# Convert binary document formats to text before diffing them. This feature
+# is only available from the command line. Turn it on by uncommenting the 
+# entries below.
+###############################################################################
+#*.doc   diff=astextplain
+#*.DOC   diff=astextplain
+#*.docx  diff=astextplain
+#*.DOCX  diff=astextplain
+#*.dot   diff=astextplain
+#*.DOT   diff=astextplain
+#*.pdf   diff=astextplain
+#*.PDF   diff=astextplain
+#*.rtf   diff=astextplain
+#*.RTF   diff=astextplain

.gitignore

@@ -27,3 +27,11 @@ inst/doc
 .Rproj.user
 *_credentials.R
 *~
+
+
+# VS files
+.vs
+*.tss
+*.suo
+*.sln
+*.rxproj

DESCRIPTION

@@ -35,3 +35,4 @@ Suggests:
     testthat
 VignetteBuilder: knitr
 RoxygenNote: 5.0.1
+Remotes: Microsoft/AzureSMR

vignettes/10Deploy.Rmd

@@ -1,6 +1,6 @@
 ---
-title  = "Using Azure Data Science Virtual Machine: Deployment of a single DSVM"
-author = "Graham Williams and Le Zhang"
+title: "Using Azure Data Science Virtual Machine: Deployment of a single DSVM"
+author: "Graham Williams and Le Zhang"
 output: rmarkdown::html_vignette
 vignette: >
  %\VignetteIndexEntry{Vignette Title}
@@ -68,7 +68,7 @@ account creation on a Windows DSVM.
 
 We can simply source the credentials file in R.
 
-```{r setup}
+```{r, setup}
 # Load the required subscription resources: TID, CID, and KEY.
 # Also includes the ssh PUBKEY for the user.
 
@@ -143,7 +143,7 @@ HOST
 cat("\n")
 ```
 
-```{r connect}
+```{r, connect}
 # Connect to the Azure subscription and use this as the context for
 # our activities.
 
@@ -165,7 +165,7 @@ cat("Resource group", RG, "at", LOC,
 Create the resource group within which all resources we create will be
 grouped.
 
-```{r create resource group}
+```{r, create resource group}
 # Create a new resource group into which we create the VMs and related
 # resources. Resource group name is RG.  Note that to create a new
 # resource group one needs to add access control of Active Directory
@@ -219,7 +219,7 @@ formals(deployDSVM)$os
 
 The following code deploys a Linux DSVM which will take a few minutes.
 
-```{r deploy}
+```{r, deploy}
 # Create the required Linux DSVM - generally 4 minutes.
 
 ldsvm <- deployDSVM(context, 
@@ -238,7 +238,7 @@ azureListVM(context, RG)
 
 Prove that the deployed DSVM exists.
 
-```{r prove exists}
+```{r, prove exists}
 
 # Send a simple system() command across to the new server to test its
 # existence. Expect a single line with an indication of how long the
@@ -273,7 +273,7 @@ server through the secure shell and manually run that command.  We
 then reboot the server so that, for example, kernel updates, take
 effect.
 
-```{r useful tools}
+```{r, useful tools}
 system(paste(ssh, "sudo locale-gen 'en_AU.UTF-8'"))
 system(paste(ssh, "sudo apt-get -y install wajig"))
 system(paste(ssh, "wajig install -y lsb htop"))

vignettes/11Extend.Rmd

@@ -3,6 +3,10 @@ title: "Using Azure Data Science Virtual Machine: Extension of DSVM"
 author: "Graham Williams and Le Zhang"
 date: "July 10, 2017"
 output: html_document
+vignette: >
+ %\VignetteIndexEntry{Vignette Title}
+ %\VignetteEngine{knitr::rmarkdown}
+ \usepackage[utf8]{inputenc}
 ---
 
 # Use case

vignettes/20Multi.Rmd

@@ -1,6 +1,6 @@
 ---
-title = "Using Azure Data Science Virtual Machine: Multi-deployment of DSVMs Quick Start"
-author= "Graham Williams"
+title: "Using Azure Data Science Virtual Machine: Multi-deployment of DSVMs Quick Start"
+author: "Graham Williams"
 output: rmarkdown::html_vignette
 vignette: >
  %\VignetteIndexEntry{Vignette Title}

vignettes/30Compute.Rmd

@@ -1,6 +1,6 @@
 ---
-title = "Using Azure Data Science Virtual Machine: Compute on Linux DSVM Quick Start"
-author= "Graham Williams"
+title: "Using Azure Data Science Virtual Machine: Compute on Linux DSVM Quick Start"
+author: "Graham Williams"
 output: rmarkdown::html_vignette
 vignette: >
  %\VignetteIndexEntry{Vignette Title}

vignettes/40Cost.Rmd

@@ -1,6 +1,6 @@
 ---
-title = "Using Azure Data Science Virtual Machine: Data consumption and cost calculation"
-author= "Graham Williams"
+title: "Using Azure Data Science Virtual Machine: Data consumption and cost calculation"
+author: "Graham Williams"
 output: rmarkdown::html_vignette
 vignette: >
  %\VignetteIndexEntry{Vignette Title}

vignettes/60Kmeans.Rmd

@@ -1,6 +1,6 @@
 ---
-title = "Using Azure Data Science Virtual Machine: a use case - kmeans clustering" 
-author= "Le Zhang and Graham Williams"
+title: "Using Azure Data Science Virtual Machine: a use case - kmeans clustering" 
+author: "Le Zhang and Graham Williams"
 output: rmarkdown::html_vignette
 vignette: >
  %\VignetteIndexEntry{Vignette Title}

vignettes/70Hotspot.Rmd

@@ -1,6 +1,6 @@
 ---
-title = "Using Azure Data Science Virtual Machine: a use case - hotspot" 
-author= "Le Zhang and Graham Williams"
+title: "Using Azure Data Science Virtual Machine: a use case - hotspot" 
+author: "Le Zhang and Graham Williams"
 output: rmarkdown::html_vignette
 vignette: >
  %\VignetteIndexEntry{Vignette Title}

vignettes/80ModelSelect.Rmd

@@ -1,6 +1,6 @@
 ---
-title = "Using Azure Data Science Virtual Machine: a use case - binary classification" 
-author= "Graham Williams"
+title: "Using Azure Data Science Virtual Machine: a use case - binary classification" 
+author: "Graham Williams"
 output: rmarkdown::html_vignette
 vignette: >
  %\VignetteIndexEntry{Vignette Title}