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.

[Michael Yourshaw]

The fabs solution should have:
#then add #include <math.h>

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