Problems in installing pindel

[thejadeR]

If the problem is as follows：

{ make -C src pindel make[1]: Entering directory '/home/mylinux/Desktop/the_pindel/pindel/src' make[1]: No rule to make target '/home/mylinux/Desktop/pindel/htslib/htslib/khash.h', needed by 'pindel.o'. Stop. make[1]: Leaving directory '/home/mylinux/Desktop/the_pindel/pindel/src' Makefile:12: recipe for target 'pindel' failed make: [pindel] Error 2 }

Solution：move pindel and htslib to Desktop,for example:

{ /home/mylinux/Desktop/pindel }

If the problem is as follows：

{ pindel.cpp:1557:66: error: call of overloaded ‘abs(unsigned int)’ is ambiguous } The same ambiguity exists in pindel.cpp, bddata.cpp, genotyping.cpp.

Solution：Using fabs temporarily solves the problem

{ cd src sed -i 's/abs/fabs/g' pindel.cpp sed -i 's/abs/fabs/g' bddata.cpp

vi bddata.cpp

then add #include

then :wq

sed -i 's/abs/fabs/g' genotyping.cpp }

then

cd .. ./INSTALL ../hstlib

[thejadeR]

I hope there's a better solution.

[myourshaw]

The fabs solution should have:

then add #include

I hope this, and the difficulty of pointing to htslib, can be corrected.