目录(?)[-]
安装R语言
1更新源到fedoraproject
2安装R
rJava安装
1 rJava介绍
2 rJava安装
SparkR的安装
1 sparkR的代码下载
2 sparkR的代码编译
3运行sparkR
3运行sparkR例子
1 安装R语言
R语言是主要用于统计分析、绘图的语言和操作环境。
官方网站：
http://www.r-project.org/
Windows下面有直接的安装包，直接下载安装很方便，但是对于刚出的CentOS6.0上不能直接通过yum 安装R，需要自己编译。
下载页面：
http://ftp.ctex.org/mirrors/CRAN/
1.1更新源到fedoraproject
[[email protected]]# rpm -Uvhhttp://dl.fedoraproject.org/pub/epel/6/x86_64/epel-release-6-8.noarch.rpm
Retrievinghttp://dl.fedoraproject.org/pub/epel/6/x86_64/epel-release-6-8.noarch.rpm
Preparing... ########################################### [100%]
package epel-release-6-8.noarch isalready installed
1.2安装R
[[email protected]]# yum install R
Loadedplugins: fastestmirror, refresh-packagekit, security
Existing lock/var/run/yum.pid: another copy is running as pid 15582.
Another app iscurrently holding the yum lock; waiting for it to exit...
The other application is: PackageKit
Memory : 32 M RSS ( 78 MB VSZ)
Started: Wed Feb 19 23:14:02 2014 - 00:10ago
State : Sleeping, pid: 15582
Another app iscurrently holding the yum lock; waiting for it to exit...
The other application is: PackageKit
Memory : 32 M RSS ( 78 MB VSZ)
Started: Wed Feb 19 23:14:02 2014 - 00:12ago
State : Sleeping, pid: 15582
Another app iscurrently holding the yum lock; waiting for it to exit...
The other application is: PackageKit
Memory : 32 M RSS ( 78 MB VSZ)
Started: Wed Feb 19 23:14:02 2014 - 00:14ago
State : Sleeping, pid: 15582
Another app iscurrently holding the yum lock; waiting for it to exit...
The other application is: PackageKit
Memory : 32 M RSS ( 78 MB VSZ)
Started: Wed Feb 19 23:14:02 2014 - 00:16ago
State : Sleeping, pid: 15582
Another app iscurrently holding the yum lock; waiting for it to exit...
The other application is: PackageKit
Memory : 32 M RSS ( 78 MB VSZ)
Started: Wed Feb 19 23:14:02 2014 - 00:18ago
State : Sleeping, pid: 15582
Another app iscurrently holding the yum lock; waiting for it to exit...
The other application is: PackageKit
Memory : 32 M RSS ( 78 MB VSZ)
Started: Wed Feb 19 23:14:02 2014 - 00:20ago
State : Sleeping, pid: 15582
Another app iscurrently holding the yum lock; waiting for it to exit...
The other application is: PackageKit
Memory : 32 M RSS ( 78 MB VSZ)
Started: Wed Feb 19 23:14:02 2014 - 00:22ago
State : Sleeping, pid: 15582
Another app iscurrently holding the yum lock; waiting for it to exit...
The other application is: PackageKit
Memory : 75 M RSS (121 MB VSZ)
Started: Wed Feb 19 23:14:02 2014 - 00:24ago
State : Sleeping, pid: 15582
Another app iscurrently holding the yum lock; waiting for it to exit...
The other application is: PackageKit
Memory : 75 M RSS (121 MB VSZ)
Started: Wed Feb 19 23:14:02 2014 - 00:26ago
State : Sleeping, pid: 15582
Another app iscurrently holding the yum lock; waiting for it to exit...
The other application is: PackageKit
Memory : 75 M RSS (121 MB VSZ)
Started: Wed Feb 19 23:14:02 2014 - 00:28ago
State : Sleeping, pid: 15582
Loading mirrorspeeds from cached hostfile
* base: mirrors.163.com
* epel: mirrors.hust.edu.cn
* extras: mirrors.163.com
* updates: mirrors.163.com
Setting upInstall Process
Package R-3.0.2-1.el6.i686already installed and latest version
Nothing to do
[[email protected]]# 更新源到fedoraproject^C
[[email protected]]# rpm -Uvhhttp://dl.fedoraproject.org/pub/epel/6/x86_64/epel-release-6-8.noarch.rpm
Retrievinghttp://dl.fedoraproject.org/pub/epel/6/x86_64/epel-release-6-8.noarch.rpm
Preparing... ###########################################[100%]
package epel-release-6-8.noarch isalready installed
[[email protected]]# R
R version 3.0.2(2013-09-25) -- "Frisbee Sailing"
Copyright (C)2013 The R Foundation for Statistical Computing
Platform:i686-redhat-linux-gnu (32-bit)
R is freesoftware and comes with ABSOLUTELY NO WARRANTY.
You arewelcome to redistribute it under certain conditions.
Type'license()' or 'licence()' for distribution details.
Natural language support but running in anEnglish locale
R is acollaborative project with many contributors.
Type'contributors()' for more information and
'citation()'on how to cite R or R packages in publications.
Type 'demo()'for some demos, 'help()' for on-line help, or
'help.start()'for an HTML browser interface to help.
Type 'q()' toquit R.
R是自由软件，不带任何担保。
在某些条件下你可以将其自由散布。
用’license()’或’licence()’来看散布的详细条件。
R是个合作计划，有许多人为之做出了贡献.
用’contributors()’来看合作者的详细情况
用’citation()’会告诉你如何在出版物中正确地引用R或R程序包。
用’demo()’来看一些示范程序，用’help()’来阅读在线帮助文件，或
用’help.start()’通过HTML浏览器来看帮助文件。
用’q()’退出R.
> demo(graphics)
可以查看R能画哪些类型的图。
各种字符展示
> demo(Hershey)
退出
> q()
Save workspace p_w_picpath? [y/n/c]: n
2.rJava安装
2.1. rJava介绍
rJava是一个R语言和Java语言的通信接口，通过底层JNI实现调用，允许在R中直接调用Java的对象和方法。
rJava还提供了Java调用R的功能，是通过JRI(Java/R Interface)实现的。JRI现在已经被嵌入到rJava的包中，我们也可以单独试用这个功能。现在rJava包，已经成为很多基于Java开发R包的基础功能组件。
正式由于rJava是底层接口，并使用JNI作为接口调用，所以效率非常高。在JRI的方案中，JVM直接通过内存直接加载RVM，调用过程性能几乎无损耗，因此是非常高效连接通道，是R和Java通信的首选开发包。
2.2. rJava安装
系统环境：
LinuxUbuntu 12.04.2 LTS 64bit server
Rversion 3.0.1 64bit
Java(Oracle SUN) 1.6.0_29 64bit Server VM
#配置rJava环境
~ RCMD javareconf
[root@master~]# R CMD javareconf
Javainterpreter : /usr/java/jdk1.7.0_21/jre/bin/java
Javaversion : 1.7.0_21
Javahome path : /usr/java/jdk1.7.0_21
Javacompiler : /usr/java/jdk1.7.0_21/bin/javac
Javaheaders gen.: /usr/java/jdk1.7.0_21/bin/javah
Javaarchive tool: /usr/java/jdk1.7.0_21/bin/jar
tryingto compile and link a JNI progam
detectedJNI cpp flags : -I$(JAVA_HOME)/include-I$(JAVA_HOME)/include/linux
detectedJNI linker flags : -L$(JAVA_HOME)/jre/lib/i386/client -ljvm
gcc-m32 -std=gnu99 -I/usr/include/R -DNDEBUG -I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions-fstack-protector --param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom-fasynchronous-unwind-tables -cconftest.c -o conftest.o
gcc-m32 -std=gnu99 -shared -L/usr/local/lib -o conftest.so conftest.o-L/usr/java/jdk1.7.0_21/jre/lib/i386/client -ljvm-L/usr/lib/R/lib -lR
JAVA_HOME : /usr/java/jdk1.7.0_21
Javalibrary path: $(JAVA_HOME)/jre/lib/i386/client
JNIcpp flags : -I$(JAVA_HOME)/include-I$(JAVA_HOME)/include/linux
JNIlinker flags : -L$(JAVA_HOME)/jre/lib/i386/client -ljvm
UpdatingJava configuration in /usr/lib/R
Done.
#启动R
[root@master~]# R
Rversion 3.0.2 (2013-09-25)-- "Frisbee Sailing"
Copyright(C) 2013 The R Foundation for Statistical Computing
Platform:i686-redhat-linux-gnu (32-bit)
R isfree software and comes with ABSOLUTELY NO WARRANTY.
Youare welcome to redistribute it under certain conditions.
Type'license()' or 'licence()' for distribution details.
Natural language support but running in anEnglish locale
R isa collaborative project with many contributors.
Type'contributors()' for more information and
'citation()'on how to cite R or R packages in publications.
Type'demo()' for some demos, 'help()' for on-line help, or
'help.start()'for an HTML browser interface to help.
Type'q()' to quit R.
>install.packages("rJava")
installingvia 'install.libs.R' to /usr/local/lib/R/site-library/rJava
** R
**inst
**preparing package for lazy loading
**help
***installing help indices
**building package indices
**testing if installed package can be loaded
*DONE (rJava)
Isthis ok [y/N]: y
Runningrpm_check_debug
RunningTransaction Test
TransactionTest Succeeded
RunningTransaction
Warning:RPMDB altered outside of yum.
**Found 10 pre-existing rpmdb problem(s), 'yum check' output follows:
ant-1.7.1-13.el6.i686has missing requires of java-devel >= ('0', '1.5.0', None)
sinjdoc-0.5-9.1.el6.i686has missing requires of java-gcj-compat >= ('0', '1.0.70', None)
sinjdoc-0.5-9.1.el6.i686has missing requires of java-gcj-compat >= ('0', '1.0.70', None)
sinjdoc-0.5-9.1.el6.i686has missing requires of java_cup >= ('0', '0.10', None)
xerces-j2-2.7.1-12.6.el6_0.i686has missing requires of java-gcj >= ('0', '1.5.0', None)
xerces-j2-2.7.1-12.6.el6_0.i686has missing requires of java-gcj >= ('0', '1.5.0', None)
xml-commons-apis-1.3.04-3.6.el6.i686has missing requires of java-gcj-compat
xml-commons-apis-1.3.04-3.6.el6.i686has missing requires of java-gcj-compat
xml-commons-resolver-1.1-4.18.el6.i686has missing requires of java-gcj-compat
xml-commons-resolver-1.1-4.18.el6.i686has missing requires of java-gcj-compat
Installing :texlive-texmf-errata-2007-7.1.el6.noarch 1/53
Installing :texlive-texmf-2007-38.el6.noarch 2/53
Installing : xorg-x11-proto-devel-7.6-25.el6.noarch 3/53
Installing : java-1.5.0-gcj-1.5.0.0-29.1.el6.i686 4/53
Updating : freetype-2.3.11-14.el6_3.1.i686 5/53
Installing : 1:tcl-8.5.7-6.el6.i686 6/53
Installing : 1:tcl-devel-8.5.7-6.el6.i686 7/53
Installing : freetype-devel-2.3.11-14.el6_3.1.i686 8/53
Installing : fontconfig-devel-2.8.0-3.el6.i686 9/53
Installing : libXau-devel-1.0.6-4.el6.i686 10/53
Installing : libxcb-devel-1.8.1-1.el6.i686 11/53
Installing : libX11-devel-1.5.0-4.el6.i686 12/53
Installing : libXrender-devel-0.9.7-2.el6.i686 13/53
Installing : libXft-devel-2.3.1-2.el6.i686 14/53
Installing : libgcj-devel-4.4.7-4.el6.i686 15/53
Installing : libgcj-src-4.4.7-4.el6.i686 16/53
Installing : texlive-texmf-errata-dvips-2007-7.1.el6.noarch 17/53
Installing :texlive-texmf-dvips-2007-38.el6.noarch 18/53
Installing : pcre-devel-7.8-6.el6.i686 19/53
Installing : bzip2-devel-1.0.5-7.el6_0.i686 20/53
Installing :texlive-texmf-errata-latex-2007-7.1.el6.noarch 21/53
Installing :texlive-texmf-errata-fonts-2007-7.1.el6.noarch 22/53
Installing : 1:tk-8.5.7-5.el6.i686 23/53
Installing : 1:ecj-3.4.2-6.el6.i686 24/53
Installing : 1:tk-devel-8.5.7-5.el6.i686 25/53
Installing :texlive-texmf-fonts-2007-38.el6.noarch 26/53
Installing : texlive-2007-57.el6_2.i686 27/53
Installing : gcc-java-4.4.7-4.el6.i686 28/53
Installing : java-1.5.0-gcj-devel-1.5.0.0-29.1.el6.i686 29/53
Installing : poppler-utils-0.12.4-3.el6_0.1.i686 30/53
Installing : psutils-1.17-34.el6.i686 31/53
Installing :texlive-dvips-2007-57.el6_2.i686 32/53
Installing :texlive-utils-2007-57.el6_2.i686 33/53
Updating : 1:cups-libs-1.4.2-50.el6_4.5.i686 34/53
Installing : portreserve-0.0.4-9.el6.i686 35/53
Installing : 1:cups-1.4.2-50.el6_4.5.i686 36/53
Installing : libRmath-3.0.2-1.el6.i686 37/53
Installing : libRmath-devel-3.0.2-1.el6.i686 38/53
Installing : texinfo-4.13a-8.el6.i686 39/53
Installing :texinfo-tex-4.13a-8.el6.i686 40/53
Installing : netpbm-10.47.05-11.el6.i686 41/53
Installing : netpbm-progs-10.47.05-11.el6.i686 42/53
Installing : texlive-texmf-latex-2007-38.el6.noarch 43/53
Installing :texlive-latex-2007-57.el6_2.i686 44/53
Installing :tex-preview-11.85-10.el6.noarch 45/53
Installing : R-core-3.0.2-1.el6.i686 46/53
Installing : R-core-devel-3.0.2-1.el6.i686 47/53
Installing : R-java-devel-3.0.2-1.el6.i686 48/53
Installing : R-devel-3.0.2-1.el6.i686 49/53
Installing : R-java-3.0.2-1.el6.i686 50/53
Installing : R-3.0.2-1.el6.i686 51/53
Cleanup : 1:cups-libs-1.4.2-48.el6_3.3.i686 52/53
Cleanup : freetype-2.3.11-6.el6_2.9.i686 53/53
Verifying : R-java-devel-3.0.2-1.el6.i686 1/53
Verifying : netpbm-10.47.05-11.el6.i686 2/53
Verifying : java-1.5.0-gcj-devel-1.5.0.0-29.1.el6.i686 3/53
Verifying : texlive-dvips-2007-57.el6_2.i686 4/53
Verifying : libXrender-devel-0.9.7-2.el6.i686 5/53
Verifying : 1:tcl-8.5.7-6.el6.i686 6/53
Verifying : texinfo-4.13a-8.el6.i686 7/53
Verifying : texlive-texmf-errata-fonts-2007-7.1.el6.noarch 8/53
Verifying : gcc-java-4.4.7-4.el6.i686 9/53
Verifying : texlive-texmf-latex-2007-38.el6.noarch 10/53
Verifying : texlive-texmf-errata-latex-2007-7.1.el6.noarch 11/53
Verifying : texlive-texmf-dvips-2007-38.el6.noarch 12/53
Verifying : libRmath-3.0.2-1.el6.i686 13/53
Verifying : bzip2-devel-1.0.5-7.el6_0.i686 14/53
Verifying : texlive-utils-2007-57.el6_2.i686 15/53
Verifying : texinfo-tex-4.13a-8.el6.i686 16/53
Verifying : texlive-2007-57.el6_2.i686 17/53
Verifying : pcre-devel-7.8-6.el6.i686 18/53
Verifying : R-devel-3.0.2-1.el6.i686 19/53
Verifying : texlive-texmf-fonts-2007-38.el6.noarch 20/53
Verifying : libXau-devel-1.0.6-4.el6.i686 21/53
Verifying : R-java-3.0.2-1.el6.i686 22/53
Verifying : java-1.5.0-gcj-1.5.0.0-29.1.el6.i686 23/53
Verifying : freetype-devel-2.3.11-14.el6_3.1.i686 24/53
Verifying : 1:tcl-devel-8.5.7-6.el6.i686 25/53
Verifying : netpbm-progs-10.47.05-11.el6.i686 26/53
Verifying : poppler-utils-0.12.4-3.el6_0.1.i686 27/53
Verifying : texlive-texmf-errata-dvips-2007-7.1.el6.noarch 28/53
Verifying : libgcj-src-4.4.7-4.el6.i686 29/53
Verifying : libXft-devel-2.3.1-2.el6.i686 30/53
Verifying : libX11-devel-1.5.0-4.el6.i686 31/53
Verifying : freetype-2.3.11-14.el6_3.1.i686 32/53
Verifying : 1:ecj-3.4.2-6.el6.i686 33/53
Verifying : portreserve-0.0.4-9.el6.i686 34/53
Verifying : texlive-texmf-2007-38.el6.noarch 35/53
Verifying : xorg-x11-proto-devel-7.6-25.el6.noarch 36/53
Verifying : 1:cups-libs-1.4.2-50.el6_4.5.i686 37/53
Verifying : psutils-1.17-34.el6.i686 38/53
Verifying : 1:tk-8.5.7-5.el6.i686 39/53
Verifying : 1:tk-devel-8.5.7-5.el6.i686 40/53
Verifying : R-core-devel-3.0.2-1.el6.i686 41/53
Verifying : libRmath-devel-3.0.2-1.el6.i686 42/53
Verifying : libgcj-devel-4.4.7-4.el6.i686 43/53
Verifying : tex-preview-11.85-10.el6.noarch 44/53
Verifying : fontconfig-devel-2.8.0-3.el6.i686 45/53
Verifying : R-3.0.2-1.el6.i686 46/53
Verifying : libxcb-devel-1.8.1-1.el6.i686 47/53
Verifying : texlive-latex-2007-57.el6_2.i686 48/53
Verifying : R-core-3.0.2-1.el6.i686 49/53
Verifying : 1:cups-1.4.2-50.el6_4.5.i686 50/53
Verifying : texlive-texmf-errata-2007-7.1.el6.noarch 51/53
Verifying : freetype-2.3.11-6.el6_2.9.i686 52/53
Verifying : 1:cups-libs-1.4.2-48.el6_3.3.i686 53/53
Installed:
R.i686 0:3.0.2-1.el6
DependencyInstalled:
R-core.i686 0:3.0.2-1.el6 R-core-devel.i6860:3.0.2-1.el6
R-devel.i686 0:3.0.2-1.el6 R-java.i686 0:3.0.2-1.el6
R-java-devel.i686 0:3.0.2-1.el6 bzip2-devel.i6860:1.0.5-7.el6_0
cups.i686 1:1.4.2-50.el6_4.5 ecj.i6861:3.4.2-6.el6
fontconfig-devel.i686 0:2.8.0-3.el6 freetype-devel.i686 0:2.3.11-14.el6_3.1
gcc-java.i686 0:4.4.7-4.el6 java-1.5.0-gcj.i6860:1.5.0.0-29.1.el6
java-1.5.0-gcj-devel.i6860:1.5.0.0-29.1.el6 libRmath.i6860:3.0.2-1.el6
libRmath-devel.i686 0:3.0.2-1.el6 libX11-devel.i6860:1.5.0-4.el6
libXau-devel.i686 0:1.0.6-4.el6 libXft-devel.i6860:2.3.1-2.el6
libXrender-devel.i686 0:0.9.7-2.el6 libgcj-devel.i6860:4.4.7-4.el6
libgcj-src.i686 0:4.4.7-4.el6 libxcb-devel.i686 0:1.8.1-1.el6
netpbm.i686 0:10.47.05-11.el6 netpbm-progs.i6860:10.47.05-11.el6
pcre-devel.i686 0:7.8-6.el6 poppler-utils.i6860:0.12.4-3.el6_0.1
portreserve.i686 0:0.0.4-9.el6 psutils.i686 0:1.17-34.el6
tcl.i686 1:8.5.7-6.el6 tcl-devel.i6861:8.5.7-6.el6
tex-preview.noarch 0:11.85-10.el6 texinfo.i686 0:4.13a-8.el6
texinfo-tex.i686 0:4.13a-8.el6 texlive.i686 0:2007-57.el6_2
texlive-dvips.i686 0:2007-57.el6_2 texlive-latex.i6860:2007-57.el6_2
texlive-texmf.noarch 0:2007-38.el6 texlive-texmf-dvips.noarch0:2007-38.el6
texlive-texmf-errata.noarch0:2007-7.1.el6 texlive-texmf-errata-dvips.noarch 0:2007-7.1.el6
texlive-texmf-errata-fonts.noarch0:2007-7.1.el6 texlive-texmf-errata-latex.noarch 0:2007-7.1.el6
texlive-texmf-fonts.noarch 0:2007-38.el6 texlive-texmf-latex.noarch0:2007-38.el6
texlive-utils.i686 0:2007-57.el6_2 tk.i686 1:8.5.7-5.el6
tk-devel.i686 1:8.5.7-5.el6 xorg-x11-proto-devel.noarch 0:7.6-25.el6
DependencyUpdated:
cups-libs.i686 1:1.4.2-50.el6_4.5 freetype.i6860:2.3.11-14.el6_3.1
Complete!
> install.packages("rJava")
Installing package into ‘/usr/lib/R/library’
(as ‘lib’ is unspecified)
--- Please select a CRAN mirror for use in thissession ---
CRAN mirror
1:0-Cloud 2: Argentina (La Plata)
3: Argentina (Mendoza) 4: Australia(Canberra)
5: Australia (Melbourne) 6: Austria
7: Belgium 8: Brazil(BA)
9: Brazil (PR) 10: Brazil(RJ)
11: Brazil(SP 1) 12: Brazil (SP2)
13: Canada(BC) 14: Canada(NS)
15: Canada(ON) 16: Canada (QC1)
17: Canada(QC 2) 18: Chile
19: China(Beijing 1) 20: China(Beijing2)
21: China(Hefei) 22: China(Xiamen)
23: Colombia(Bogota) 24: Colombia(Cali)
25: Denmark 26: Ecuador
27: France (Lyon 1) 28: France (Lyon2)
29: France(Montpellier) 30: France (Paris 1)
31: France (Paris2) 32: Germany (Berlin)
33: Germany(Bonn) 34: Germany (Goettingen)
35: Greece 36: Hungary
37: India 38: Indonesia
39: Iran 40: Ireland
41: Italy(Milano) 42: Italy (Padua)
43: Italy(Palermo) 44: Japan (Hyogo)
45: Japan(Tokyo) 46: Japan (Tsukuba)
47: Korea(Seoul 1) 48: Korea(Seoul 2)
49: Lebanon 50: Mexico (Mexico City)
51: Mexico(Texcoco) 52: Netherlands (Amsterdam)
53: Netherlands(Utrecht) 54: New Zealand
55: Norway 56: Philippines
57: Poland 58: Portugal
59: Russia 60: Singapore
61: Slovakia 62: South Africa (Cape Town)
63: South Africa(Johannesburg) 64: Spain (Madrid)
65: Sweden 66: Switzerland
67: Taiwan(Taichung) 68: Taiwan(Taipei)
69: Thailand 70: Turkey
71: UK(Bristol) 72: UK(London)
73: UK(London) 74: UK (St Andrews)
75: USA(CA 1) 76: USA (CA 2)
77: USA(IA) 78: USA (IN)
79: USA(KS) 80: USA (MD)
81: USA(MI) 82: USA (MO)
83: USA(OH) 84: USA (OR)
85: USA(PA 1) 86: USA (PA 2)
87: USA(TN) 88: USA (TX 1)
89: USA(WA 1) 90: USA (WA 2)
91: Venezuela 92: Vietnam
Selection: 20
trying URL'http://mirror.bjtu.edu.cn/cran/src/contrib/rJava_0.9-6.tar.gz'
Content type 'application/octet-stream' length567515 bytes (554 Kb)
opened URL
==================================================
downloaded 554 Kb
* installing *source* package ‘rJava’ ...
** package ‘rJava’ successfully unpacked and MD5sums checked
checking for gcc... gcc -m32 -std=gnu99
checking whether the C compiler works... yes
checking for C compiler default output filename... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU Ccompiler... yes
checking whether gcc -m32 -std=gnu99 accepts -g...yes
checking for gcc -m32 -std=gnu99 option to acceptISO C89... none needed
checking how to run the C preprocessor... gcc -m32-std=gnu99 -E
checking for grep that handles long lines and-e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/wait.h that is POSIX.1compatible... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for string.h... (cached) yes
checking sys/time.h usability... yes
checking sys/time.h presence... yes
checking for sys/time.h... yes
checking for unistd.h... (cached) yes
checking for an ANSI C-conforming const... yes
checking whether time.h and sys/time.h may both beincluded... yes
configure: checking whether gcc -m32 -std=gnu99supports static inline...
yes
checking whether setjmp.h is POSIX.1 compatible...yes
checking whether sigsetjmp is declared... yes
checking whether siglongjmp is declared... yes
checking Java support in R... present:
interpreter : '/usr/java/jdk1.7.0_21/jre/bin/java'
archiver : '/usr/java/jdk1.7.0_21/bin/jar'
compiler : '/usr/java/jdk1.7.0_21/bin/javac'
header prep.: '/usr/java/jdk1.7.0_21/bin/javah'
cpp flags : '-I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux'
java libs : '-L/usr/java/jdk1.7.0_21/jre/lib/i386/client-ljvm'
checking whether Java run-time works... yes
checking whether -Xrs is supported... yes
checking whether JNI programs can be compiled...yes
checking JNI data types... ok
checking whether JRI should be compiled(autodetect)... yes
checking whether debugging output should beenabled... no
checking whether memory profiling is desired... no
checking whether threads support is requested...no
checking whether callbacks support is requested...no
checking whether JNI cache support is requested...no
checking whether headless init is enabled... no
checking whether JRI is requested... yes
configure: creating ./config.status
config.status: creating src/Makevars
config.status: creating R/zzz.R
config.status: creating src/config.h
=== configuring in jri(/tmp/RtmpqVmQDK/R.INSTALLa4974587beb/rJava/jri)
configure: running /bin/sh ./configure--disable-option-checking '--prefix=/usr/local' --cache-file=/dev/null --srcdir=.
checking build system type... i686-pc-linux-gnu
checking host system type... i686-pc-linux-gnu
checking for gcc... gcc -m32 -std=gnu99
checking for C compiler default output filename... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU Ccompiler... yes
checking whether gcc -m32 -std=gnu99 accepts -g...yes
checking for gcc -m32 -std=gnu99 option to accept ISOC89... none needed
checking how to run the C preprocessor... gcc -m32-std=gnu99 -E
checking for grep that handles long lines and-e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking whether Java interpreter works...checking whether JNI programs can be compiled... yes
checking whether JNI programs can be run... yes
checking JNI data types... ok
checking whether Rinterface.h exports R_CStackXXXvariables... yes
checking whether Rinterface.h exports R_SignalHandlers...yes
configure: creating ./config.status
config.status: creating src/Makefile
config.status: creating Makefile
config.status: creating run
config.status: creating src/config.h
** libs
gcc -m32 -std=gnu99 -I/usr/include/R -DNDEBUG -I.-I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions-fstack-protector --param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom-fasynchronous-unwind-tables -c Rglue.c-o Rglue.o
Rglue.c:838: warning: ‘new_jrectRef’ defined butnot used
gcc -m32 -std=gnu99 -I/usr/include/R -DNDEBUG -I.-I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions-fstack-protector --param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom-fasynchronous-unwind-tables -c arrayc.c-o arrayc.o
gcc -m32 -std=gnu99 -I/usr/include/R -DNDEBUG -I.-I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions-fstack-protector --param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom -fasynchronous-unwind-tables -c callJNI.c -o callJNI.o
gcc -m32 -std=gnu99 -I/usr/include/R -DNDEBUG -I.-I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions-fstack-protector --param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom -fasynchronous-unwind-tables -c callback.c -o callback.o
gcc -m32 -std=gnu99 -I/usr/include/R -DNDEBUG -I.-I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions-fstack-protector --param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom-fasynchronous-unwind-tables -c fields.c-o fields.o
gcc -m32 -std=gnu99 -I/usr/include/R -DNDEBUG -I.-I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions-fstack-protector --param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom-fasynchronous-unwind-tables -c init.c-o init.o
gcc -m32 -std=gnu99 -I/usr/include/R -DNDEBUG -I.-I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions-fstack-protector --param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom-fasynchronous-unwind-tables -cjri_glue.c -o jri_glue.o
jri_glue.c: In function ‘PushToREXP’:
jri_glue.c:24: warning: cast from pointer tointeger of different size
jri_glue.c: In function ‘RReleaseREXP’:
jri_glue.c:52: warning: cast to pointer frominteger of different size
gcc -m32 -std=gnu99 -I/usr/include/R -DNDEBUG -I.-I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions-fstack-protector --param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom-fasynchronous-unwind-tables -c loader.c-o loader.o
gcc -m32 -std=gnu99 -I/usr/include/R -DNDEBUG -I.-I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions-fstack-protector --param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom-fasynchronous-unwind-tables -cotables.c -o otables.o
gcc -m32 -std=gnu99 -I/usr/include/R -DNDEBUG -I.-I/usr/java/jdk1.7.0_21/include -I/usr/java/jdk1.7.0_21/include/linux-I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2-fexceptions -fstack-protector --param=ssp-buffer-size=4 -m32 -march=i686-mtune=atom -fasynchronous-unwind-tables -c rJava.c -o rJava.o
gcc -m32 -std=gnu99 -I/usr/include/R -DNDEBUG -I.-I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -I/usr/local/include -fpic -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions-fstack-protector --param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom-fasynchronous-unwind-tables -c tools.c-o tools.o
gcc -m32 -std=gnu99 -shared -L/usr/local/lib -orJava.so Rglue.o arrayc.o callJNI.o callback.o fields.o init.o jri_glue.oloader.o otables.o rJava.o tools.o -L/usr/java/jdk1.7.0_21/jre/lib/i386/client-ljvm -L/usr/lib/R/lib -lR
(cd ../jri && make)
make[1]: Entering directory`/tmp/RtmpqVmQDK/R.INSTALLa4974587beb/rJava/jri'
make -C src JRI.jar
make[2]: Entering directory`/tmp/RtmpqVmQDK/R.INSTALLa4974587beb/rJava/jri/src'
/usr/java/jdk1.7.0_21/bin/javac-target 1.4 -source 1.4 -d . ../Mutex.java ../RBool.java../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java
warning: [options] bootstrap class path not set inconjunction with -source 1.4
1 warning
/usr/java/jdk1.7.0_21/bin/javah-d . -classpath . org.rosuda.JRI.Rengine
gcc -m32 -std=gnu99 -c -o Rengine.o Rengine.c -g-Iinclude -DRIF_HAS_CSTACK-DRIF_HAS_RSIGHAND -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions-fstack-protector --param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom-fasynchronous-unwind-tables -I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -fpic -I/usr/java/jdk1.7.0_21/include -I/usr/java/jdk1.7.0_21/include/linux-I/usr/include/R -I/usr/include/R
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniParse’:
Rengine.c:121: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniEval’:
Rengine.c:135: warning: cast to pointer frominteger of different size
Rengine.c:136: warning: cast to pointer frominteger of different size
Rengine.c:159: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniAssign’:
Rengine.c:179: warning: cast to pointer frominteger of different size
Rengine.c:180: warning: cast to pointer frominteger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniProtect’:
Rengine.c:189: warning: cast to pointer from integerof different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniRelease’:
Rengine.c:201: warning: cast to pointer frominteger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniPreserve’:
Rengine.c:207: warning: cast to pointer frominteger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniPrintValue’:
Rengine.c:213: warning: cast to pointer frominteger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniParentEnv’:
Rengine.c:219: warning: cast to pointer frominteger of different size
Rengine.c:219: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniFindVar’:
Rengine.c:228: warning: cast to pointer frominteger of different size
Rengine.c:228: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniListEnv’:
Rengine.c:234: warning: cast to pointer frominteger of different size
Rengine.c:234: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniSpecialObject’:
Rengine.c:241: warning: cast from pointer tointeger of different size
Rengine.c:242: warning: cast from pointer tointeger of different size
Rengine.c:243: warning: cast from pointer tointeger of different size
Rengine.c:244: warning: cast from pointer tointeger of different size
Rengine.c:245: warning: cast from pointer tointeger of different size
Rengine.c:246: warning: cast from pointer tointeger of different size
Rengine.c:247: warning: cast from pointer tointeger of different size
Rengine.c:248: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniXrefToJava’:
Rengine.c:256: warning: cast to pointer frominteger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniJavaToXref’:
Rengine.c:266: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniGetString’:
Rengine.c:272: warning: cast to pointer frominteger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniGetStringArray’:
Rengine.c:279: warning: cast to pointer frominteger of different size
Rengine.c: In function ‘Java_org_rosuda_JRI_Rengine_rniGetIntArray’:
Rengine.c:285: warning: cast to pointer frominteger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniGetRawArray’:
Rengine.c:291: warning: cast to pointer frominteger of different size
Rengine.c: In function ‘Java_org_rosuda_JRI_Rengine_rniGetBoolArrayI’:
Rengine.c:297: warning: cast to pointer frominteger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniGetDoubleArray’:
Rengine.c:303: warning: cast to pointer frominteger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniGetVector’:
Rengine.c:309: warning: cast to pointer frominteger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniExpType’:
Rengine.c:315: warning: cast to pointer from integerof different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniPutString’:
Rengine.c:335: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniPutStringArray’:
Rengine.c:341: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniPutIntArray’:
Rengine.c:347: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniPutRawArray’:
Rengine.c:353: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniPutBoolArrayI’:
Rengine.c:359: warning: cast from pointer tointeger of different size
Rengine.c: In function ‘Java_org_rosuda_JRI_Rengine_rniPutBoolArray’:
Rengine.c:365: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniPutDoubleArray’:
Rengine.c:371: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniPutVector’:
Rengine.c:377: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniGetAttr’:
Rengine.c:384: warning: cast to pointer frominteger of different size
Rengine.c:386: warning: cast to pointer frominteger of different size
Rengine.c:387: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniGetAttrNames’:
Rengine.c:394: warning: cast to pointer frominteger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniSetAttr’:
Rengine.c:426: warning: cast to pointer frominteger of different size
Rengine.c:428: warning: cast to pointer frominteger of different size
Rengine.c:428: warning: cast to pointer frominteger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniInstallSymbol’:
Rengine.c:441: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniGetSymbolName’:
Rengine.c:447: warning: cast to pointer frominteger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniInherits’:
Rengine.c:457: warning: cast to pointer frominteger of different size
Rengine.c: In function ‘Java_org_rosuda_JRI_Rengine_rniCons’:
Rengine.c:468: warning: cast to pointer frominteger of different size
Rengine.c:468: warning: cast to pointer frominteger of different size
Rengine.c:470: warning: cast to pointer frominteger of different size
Rengine.c:470: warning: cast to pointer frominteger of different size
Rengine.c:472: warning: cast to pointer frominteger of different size
Rengine.c:473: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniCAR’:
Rengine.c:480: warning: cast to pointer frominteger of different size
Rengine.c:481: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniCDR’:
Rengine.c:490: warning: cast to pointer frominteger of different size
Rengine.c:491: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniTAG’:
Rengine.c:500: warning: cast to pointer frominteger of different size
Rengine.c:501: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniPutList’:
Rengine.c:516: warning: cast from pointer tointeger of different size
Rengine.c:521: warning: cast to pointer frominteger of different size
Rengine.c:526: warning: cast from pointer tointeger of different size
Rengine.c: In function‘Java_org_rosuda_JRI_Rengine_rniGetList’:
Rengine.c:533: warning: cast to pointer frominteger of different size
Rengine.c:560: warning: cast from pointer tointeger of different size
gcc -m32 -std=gnu99 -c -o jri.o jri.c -g-Iinclude -DRIF_HAS_CSTACK-DRIF_HAS_RSIGHAND -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions-fstack-protector --param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom-fasynchronous-unwind-tables -I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -fpic -I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -I/usr/include/R -I/usr/include/R
jri.c: In function ‘jri_putSEXPLArray’:
jri.c:193: warning: cast from pointer to integerof different size
jri.c: In function ‘jri_getObjectArray’:
jri.c:308: warning: cast from pointer to integerof different size
jri.c: In function ‘jri_getSEXPLArray’:
jri.c:472: warning: cast to pointer from integerof different size
gcc -m32 -std=gnu99 -c -o Rcallbacks.oRcallbacks.c -g -Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND -O2 -g -pipe -Wall-Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector--param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom-fasynchronous-unwind-tables -I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -fpic -I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -I/usr/include/R -I/usr/include/R
gcc -m32 -std=gnu99 -c -o Rinit.o Rinit.c -g-Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector--param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom-fasynchronous-unwind-tables -I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -fpic -I/usr/include/R -I/usr/include/R
gcc -m32 -std=gnu99 -c -o globals.o globals.c -g-Iinclude -DRIF_HAS_CSTACK-DRIF_HAS_RSIGHAND -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions-fstack-protector --param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom -fasynchronous-unwind-tables -I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -fpic -I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux
gcc -m32 -std=gnu99 -c -o rjava.o rjava.c -g-Iinclude -DRIF_HAS_CSTACK -DRIF_HAS_RSIGHAND-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector--param=ssp-buffer-size=4 -m32 -march=i686 -mtune=atom-fasynchronous-unwind-tables -I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux -fpic -I/usr/java/jdk1.7.0_21/include-I/usr/java/jdk1.7.0_21/include/linux
rjava.c: In function ‘RJava_request_lock’:
rjava.c:22: warning: ignoring return value of‘write’, declared with attribute warn_unused_result
rjava.c: In function ‘RJava_clear_lock’:
rjava.c:30: warning: ignoring return value of‘write’, declared with attribute warn_unused_result
rjava.c: In function ‘RJava_request_callback’:
rjava.c:39: warning: ignoring return value of‘write’, declared with attribute warn_unused_result
rjava.c: In function ‘RJava_init_ctrl’:
rjava.c:51: warning: ignoring return value of‘write’, declared with attribute warn_unused_result
rjava.c:52: warning: ignoring return value of‘read’, declared with attribute warn_unused_result
gcc -m32 -std=gnu99 -o libjri.so Rengine.o jri.oRcallbacks.o Rinit.o globals.o rjava.o -shared -L/usr/java/jdk1.7.0_21/jre/lib/i386/client-ljvm -L/usr/lib/R/lib -lR
/usr/java/jdk1.7.0_21/bin/javac-target 1.4 -source 1.4 -d . ../Mutex.java ../RBool.java../RConsoleOutputStream.java ../REXP.java ../RFactor.java ../RList.java../RMainLoopCallbacks.java ../RVector.java ../Rengine.java ../package-info.java
warning: [options] bootstrap class path not set inconjunction with -source 1.4
1 warning
/usr/java/jdk1.7.0_21/bin/jarfc JRI.jar org libjri.so
make[2]: Leaving directory`/tmp/RtmpqVmQDK/R.INSTALLa4974587beb/rJava/jri/src'
rm -f libjri.so
cp src/libjri.so libjri.so
/usr/java/jdk1.7.0_21/bin/javac-target 1.4 -source 1.4 -classpath src/JRI.jar -d examples examples/rtest.java
warning: [options] bootstrap class path not set inconjunction with -source 1.4
Note: examples/rtest.java uses or overrides adeprecated API.
Note: Recompile with -Xlint:deprecation fordetails.
1 warning
/usr/java/jdk1.7.0_21/bin/javac-target 1.4 -source 1.4 -classpath src/JRI.jar -d examples examples/rtest2.java
warning: [options] bootstrap class path not set inconjunction with -source 1.4
Note: examples/rtest2.java uses or overrides adeprecated API.
Note: Recompile with -Xlint:deprecation fordetails.
1 warning
make[1]: Leaving directory`/tmp/RtmpqVmQDK/R.INSTALLa4974587beb/rJava/jri'
installing via 'install.libs.R' to/usr/lib/R/library/rJava
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
convertinghelp for package ‘rJava’
findingHTML links ... done
Exceptions html
J html
accessOp html
aslist html
clone html
instanceof html
jarray html
jarrayRef-class html
java-tools html
javaImport html
jcall html
jcast html
jcastToArray html
jcheck html
jclassName html
jengine html
jequals html
jfield html
jfloat-class html
jfloat html
jinit html
jmemprof html
jnew html
jnull html
jobjRef-class html
jpackage html
jrectRef-class html
jreflection html
jserialize html
jsimplify html
loader html
new html
rep html
show html
toJava html
with html
** building package indices
** testing if installed package can be loaded
* DONE (rJava)
Making 'packages.html' ... done
The downloaded source packages are in
‘/tmp/RtmpcxcHBJ/downloaded_packages’
Updating HTML index of packages in '.Library'
Making 'packages.html' ... done
>q()
3 SparkR的安装
3.1 sparkR的代码下载
从网页下载代码https://github.com/amplab-extras/SparkR-pkg
3.2 sparkR的代码编译
[root@master sparkR]# ./install-dev.sh
* installing *source* package ‘SparkR’ ...
** libs
** arch -
make: Nothing to be done for `all'.
** R
** inst
** preparing package for lazy loading
Creating a generic function for ‘lapply’ frompackage ‘base’ in package ‘SparkR’
** help
*** installing help indices
convertinghelp for package ‘SparkR’
findingHTML links ... done
RDD html
broadcast-class html
broadcast-internal html
broadcast html
cache-methods html
collect-methods html
combineByKey html
count html
flatMap html
groupByKey html
hashCode html
includePackage html
lapply html
lapplyPartition html
lapplyPartitionsWithIndex html
parallelize html
partitionBy html
reduce html
reduceByKey html
sampleRDD html
sparkR.init html
take html
takeSample html
textFile html
** building package indices
** testing if installed package can be loaded
* DONE (SparkR)
[root@master sparkR]#
3.3运行sparkR
[root@master sparkR]# ./sparkR
R version 3.0.2 (2013-09-25)-- "Frisbee Sailing"
Copyright (C) 2013 The R Foundation for Statistical Computing
Platform: i686-redhat-linux-gnu (32-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
Natural language supportbut running in an English locale
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
Loading required package: SparkR
Loading required package: rJava
[SparkR] Initializing with classpath/root/sparkR/lib/SparkR/sparkr-assembly-0.1.jar
14/02/23 17:07:24 INFO Slf4jLogger: Slf4jLogger started
Welcome to SparkR!
Spark context isavailable as sc
>
3.3运行sparkR例子
SparkR里自带的例子可以安装如下方法执行。
[root@mastersparkR]# ./sparkR examples/pi.R local[2]
Loadingrequired package: SparkR
Loadingrequired package: methods
Loadingrequired package: rJava
[SparkR]Initializing with classpath /root/sparkR/lib/SparkR/sparkr-assembly-0.1.jar
14/02/2317:13:13 INFO Slf4jLogger: Slf4jLogger started
Piis roughly 3.13966
Numelements in RDD 200000
[root@mastersparkR]#