本篇内容介绍了“linux系统怎么安装pennCNV软件”的有关知识，在实际案例的操作过程中，不少人都会遇到这样的困境，接下来就让小编带领大家学习一下如何处理这些情况吧！希望大家仔细阅读，能够学有所成！
pennCNV主要用于芯片数据分析CNV软件
PennCNV安装
wget https://github.com/WGLab/PennCNV/archive/v1.0.4.tar.gz tar xvfz v1.0.4.tar.gz cd kext/ make
但是会报错：
gcc `perl -MExtUtils::Embed -e ccopts` -fPIC -c -o khmm_wrap.o khmm_wrap.c khmm_wrap.c: In function ‘SWIG_AsCharPtrAndSize’: khmm_wrap.c:1576: error: ‘bool’ undeclared (first use in this function) khmm_wrap.c:1576: error: (Each undeclared identifier is reported only once khmm_wrap.c:1576: error: for each function it appears in.) khmm_wrap.c:1576: error: expected ‘:’ before numeric constant khmm_wrap.c: In function ‘_wrap_estHMMFromFile_CHMM’: khmm_wrap.c:1875: error: ‘bool’ undeclared (first use in this function) khmm_wrap.c:1875: error: expected ‘:’ before numeric constant khmm_wrap.c:1875: error: expected ‘:’ before numeric constant khmm_wrap.c:1890: error: expected ‘:’ before numeric constant khmm_wrap.c:1890: error: expected ‘:’ before numeric constant khmm_wrap.c:1905: error: expected ‘:’ before numeric constant khmm_wrap.c:1905: error: expected ‘:’ before numeric constant khmm_wrap.c: In function ‘_wrap_testVit_CHMM’: khmm_wrap.c:2005: error: ‘bool’ undeclared (first use in this function) khmm_wrap.c:2005: error: expected ‘:’ before numeric constant khmm_wrap.c:2005: error: expected ‘:’ before numeric constant khmm_wrap.c: In function ‘_wrap_GetStateProb_CHMM’: khmm_wrap.c:2137: error: ‘bool’ undeclared (first use in this function) khmm_wrap.c:2137: error: expected ‘:’ before numeric constant khmm_wrap.c:2137: error: expected ‘:’ before numeric constant khmm_wrap.c: In function ‘_wrap_testVitTrio_CHMM’: khmm_wrap.c:2325: error: ‘bool’ undeclared (first use in this function) khmm_wrap.c:2325: error: expected ‘:’ before numeric constant khmm_wrap.c:2325: error: expected ‘:’ before numeric constant khmm_wrap.c: In function ‘_wrap_reg_linear’: khmm_wrap.c:2443: error: ‘bool’ undeclared (first use in this function) khmm_wrap.c:2443: error: expected ‘:’ before numeric constant khmm_wrap.c:2443: error: expected ‘:’ before numeric constant khmm_wrap.c:2458: error: expected ‘:’ before numeric constant khmm_wrap.c:2458: error: expected ‘:’ before numeric constant khmm_wrap.c:2473: error: expected ‘:’ before numeric constant khmm_wrap.c:2473: error: expected ‘:’ before numeric constant khmm_wrap.c:2488: error: expected ‘:’ before numeric constant khmm_wrap.c:2488: error: expected ‘:’ before numeric constant make: *** [khmm_wrap.o] Error 1
解决办法：
sed -i -e '/#undef bool/d' khmm_wrap.c
然后：
make clean make
还是报错：
gcc `perl -MExtUtils::Embed -e ccopts` -fPIC -c -o khmm_wrap.o khmm_wrap.c gcc `perl -MExtUtils::Embed -e ccopts` -fPIC -c -o khmm.o khmm.c gcc `perl -MExtUtils::Embed -e ccopts` -fPIC -c -o kc.o kc.c gcc `perl -MExtUtils::Embed -e ccopts` -fPIC -c -o khmmDev.o khmmDev.c gcc -shared -o khmm.so khmm_wrap.o khmm.o kc.o khmmDev.o `perl -MExtUtils::Embed -e ldopts` /usr/bin/ld: /share/work/biosoft/perl/perl-5.22.1/lib/5.22.1/x86_64-linux-thread-multi/CORE/libperl.a(op.o): relocation R_X86_64_32 against `PL_op_mutex' can not be used when making a shared object; recompile with -fPIC /share/work/biosoft/perl/perl-5.22.1/lib/5.22.1/x86_64-linux-thread-multi/CORE/libperl.a: could not read symbols: Bad value collect2: ld returned 1 exit status make: *** [khmm.so] Error 1
本人谷歌和查找说明文档，说GCC必须是4版本，而且perl版本要低于5.14.2:，于是安装低版本perl：
wget https://www.cpan.org/src/5.0/perl-5.14.2.tar.gztar xvfz perl-5.14.2.tar.gz cd perl-5.14.2 ./Configure -des -Dprefix=/share/work/perl/perl-v5.14.2 -Accflags='-fPIC'make make install
然后再把这个版本的perl添加到PATH的开头就可以，顺利make 安装成功了。
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