Installation Issue

[kkwolf]

Hello. I am relatively new to command line, and apologize if there is a simple fix to something I am experiencing. I have come across an issue when attempting to install sinvict. I have downloaded, compiled and installed Boost 1_62 and G++-6.1.0.

Below is a fatal error that occurs when I attempt the make command in the sinvict directory.

$ make g++ -c -g -std=c++0x main.cpp -o main.o g++ -c -g -std=c++0x Sample.cpp -o Sample.o g++ -c -g -std=c++0x ReadcountEntry.cpp -o ReadcountEntry.o g++ -c -g -std=c++0x Allele.cpp -o Allele.o main.cpp:1:10: fatal error: 'boost/program_options/options_description.hpp' file not found

include <boost/program_options/options_description.hpp>

     ^

1 error generated. make: * [main.o] Error 1 make: * Waiting for unfinished jobs....

Thanks so much in advance, and please let me know if you need to know anything more.

[kkwolf]

The file does indeed exist in the boost directory (boost/program_options/options_description.hpp)

[ckockan]

Hi kkwolf, your boost and g++ versions looks good so I suspect that this is a linker issue. If that is the case you might need to edit the Makefile.

As a first step towards diagnosing the problem, would it be possible for you to try and compile a very simple test program that uses the boost header (boost/program_options/options_description.hpp) that causes the issue? Something as simple as the test program in the following link should suffice:

http://stackoverflow.com/questions/29354201/linking-error-for-boostprogram-options

Then, if indeed this is a linker issue, we can figure out what you need to change in the Makefile.

[kkwolf]

Thank you.

Below are the paths to Boost.

/Users/kerriwolf/boost_1_62_0/boost/program_options/options_description.hpp /Users/kerriwolf/boost_1_62_0/stage/lib/libboost_program_options.a /Users/kerriwolf/boost_1_62_0/stage/lib/libboost_program_options.dylib

I attempted a program, but I am having some difficulty. I am very new to command line and programming. Do you think you would be able to demonstrate specifically what I should do?

[fhach]

Please be advised that sinvict has not been tested on OSX. It has been implemented and tested on linux machine.

As for your issue. I have downloaded the latest version of boost and compiled in my download folders. Please modify the Makefile in sinvict folder as follows and update the path

CFLAGS = -c -g -std=c++0x -I/Users/kerriwolf/boost_1_62_0/ LDFLAGS = -lz -L/Users/kerriwolf/boost_1_62_0/stage/lib/ -lboost_program_options

Also in your command line add $ export DYLD_LIBRARY_PATH=/Users/kerriwolf/boost_1_62_0/stage/lib/

Finally, make clean && make and try sinvict. $ make clean $ make $ ./sinvict

Alternatively, you can install boost through brew or macports. Doing so, you dont have to modify anything as far as I can recall.

[kkwolf]

Thanks so much @fhach. I really appreciate the very clear instructions! I have successfully installed the program and look forward to putting it to use.

Have a great day! Kerri