Centos 6 上安装R-3.3.1

Centos 6 上安装R-3.3.1时报错： checking whether zlib support suffices... configure: error: zlib library and headers are required

wget  http://zlib.net/zlib-1.2.8.tar.gz

tar xvzf zlib-1.2.8.tar.gz

mv zlib-1.2.8 zlib-1.2.8-raw

cd zlib-1.2.8-raw

./configure --prefix=/ifswh1/BC_PS/huangliangbo/zlib-1.2.8

make

make install

cd ..

rm -r zlib-1.2.8.tar.gz zlib-1.2.8-raw

wget  http://www.bzip.org/1.0.6/bzip2-1.0.6.tar.gz

tar xzvf bzip2-1.0.6.tar.gz

mv bzip2-1.0.6 bzip2-1.0.6-raw

cd bzip2-1.0.6-raw

#修改Makefile，将第24行的CFLAGS=-Wall -Winline -O2 -g $(BIGFILES)改为CFLAGS=-fPIC -Wall -Winline -O2 -g $(BIGFILES)

make -f Makefile-libbz2_so

make clean

make

make -n install PREFIX=/ifswh1/BC_PS/huangliangbo/bzip2-1.0.6

make install PREFIX=/ifswh1/BC_PS/huangliangbo/bzip2-1.0.6

cd ..

rm -r bzip2-1.0.6-raw bzip2-1.0.6.tar.gz

wget  http://tukaani.org/xz/xz-5.2.2.tar.gz

tar xzvf xz-5.2.2.tar.gz

mv xz-5.2.2 xz-5.2.2-raw

cd xz-5.2.2-raw

./configure --prefix=/ifswh1/BC_PS/huangliangbo/xz-5.2.2

make -j3

make install

cd ..

rm -r xz-5.2.2-raw xz-5.2.2.tar.gz

wget  ftp://ftp.csx.cam.ac.uk/pub/software/programming/pcre/pcre-8.38.tar.gz

tar xzvf pcre-8.38.tar.gz

mv pcre-8.38 pcre-8.38-raw

cd pcre-8.38-raw

./configure --enable-utf8 --prefix=/ifswh1/BC_PS/huangliangbo/pcre-8.38

make -j3

make install

cd ..

rm -r pcre-8.38-raw pcre-8.38.tar.gz

wget --no-check-certificate  https://curl.haxx.se/download/curl-7.47.1.tar.gz

tar xzvf curl-7.47.1.tar.gz

mv curl-7.47.1 curl-7.47.1-raw

cd curl-7.47.1-raw

./configure --prefix=/ifswh1/BC_PS/huangliangbo/curl-7.47.1

make -j3

make install

cd ..

rm -r curl-7.47.1-raw curl-7.47.1.tar.gz

export PATH=/ifswh1/BC_PS/huangliangbo/bzip2-1.0.6/bin:$PATH

export PATH=/ifswh1/BC_PS/huangliangbo/xz-5.2.2/bin:$PATH

export PATH=/ifswh1/BC_PS/huangliangbo/pcre-8.38/bin:$PATH

export PATH=/ifswh1/BC_PS/huangliangbo/curl-7.47.1/bin:$PATH

export LD_LIBRARY_PATH=/ifswh1/BC_PS/huangliangbo/bzip2-1.0.6/lib:$LD_LIBRARY_PATH

export LD_LIBRARY_PATH=/ifswh1/BC_PS/huangliangbo/xz-5.2.2/lib:$LD_LIBRARY_PATH

export LD_LIBRARY_PATH=/ifswh1/BC_PS/huangliangbo/zlib-1.2.8/lib:$LD_LIBRARY_PATH

export LD_LIBRARY_PATH=/ifswh1/BC_PS/huangliangbo/pcre-8.38/lib:$LD_LIBRARY_PATH

export LD_LIBRARY_PATH=/ifswh1/BC_PS/huangliangbo/curl-7.47.1/lib:$LD_LIBRARY_PATH

export CFLAGS="-I/ifswh1/BC_PS/huangliangbo/zlib-1.2.8/include -I/ifswh1/BC_PS/huangliangbo/bzip2-1.0.6/include -I/ifswh1/BC_PS/huangliangbo/xz-5.2.2/include -I/ifswh1/BC_PS/huangliangbo/pcre-8.38/include -I/ifswh1/BC_PS/huangliangbo/curl-7.47.1/include"

export LDFLAGS="-L/ifswh1/BC_PS/huangliangbo/zlib-1.2.8/lib -L/ifswh1/BC_PS/huangliangbo/bzip2-1.0.6/lib -L/ifswh1/BC_PS/huangliangbo/xz-5.2.2/lib -L/ifswh1/BC_PS/huangliangbo/pcre-8.38/lib -L/ifswh1/BC_PS/huangliangbo/curl-7.47.1/lib"

cd ./R-3.3.1

./configure --prefix=/ifswh1/BC_PS/huangliangbo/R-3.3.1 --with-cairo --with-jpeglib --with-readline --with-tcltk --with-blas  --enable-BLAS-shlib --with-lapack --enable-R-profiling --enable-R-shlib --enable-memory-profiling

make

make install

make pdf（生成packages的pdf帮助文档，若无linux无图形界面，则不需要进行此步骤）

echo 'export PATH= /ifswh1/BC_PS/huangliangbo/R-3.3.1 /bin :$PATH' >> ~/.bashrc

source ~/.bashrc

安装bioconductor：

install.packages("BiocInstaller", repos=" http://bioconductor.org/packages/3.3/bioc")