2020-10-21

当编译ANGSD软件是遇到：SIZE_MAX’ was not declared in this scope报错

在安装ANGSD软件时进行编译make HTSSRC=../htslib这一步时报错SIZE_MAX’ was not declared in this scope导致编译不成功

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问题描述：

[c@mu01 angsd-master]$ make HTSSRC=../htslib-develop
HTSSRC defined
g++ -c  -I/202009/ANgsd/htslib-develop -O3   vcfReader.cpp
In file included from /202009/ANgsd/htslib-develop/htslib/hts.h:37:0,
                 from argStruct.h:5,
                 from shared.h:9,
                 from analysisFunction.h:9,
                 from vcfReader.cpp:7:
/202009/ANgsd/htslib-develop/htslib/kstring.h: In function ‘int ks_resize(kstring_t*, size_t)’            :
/202009/ANgsd/htslib-develop/htslib/kstring.h:149:22: error: ‘SIZE_MAX’ was not declared in this scope
      size = (size > (SIZE_MAX>>2)) ? size : size + (size >> 1);
                      ^
make: *** [vcfReader.o] Error 1
 

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原因分析：

这个提示是指在/202009/ANgsd/htslib-develop/htslib/kstring.h这个文件中缺少SIZE_MAX 的定义，需要我们在kstring.h这个文件中的#include <stdint.h> 下一行中加入

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#if ! defined SIZE_MAX
#define SIZE_MAX (4294967295U)
#endif

该解决方法参考了https://blog.csdn.net/chwshuang/article/details/77192146的解决方法 

加入后将htslib-develop包和angsd包重头编译一遍解决.

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