Missing include flags in makefile or incorrect include statements

[pelahi]

I get the following error when trying to compile the Pkgs directory
Compiling merger_rate_B_n.o...merger_rate_B_n.c:7:27: fatal error: gbpCosmo_bias.h: No such file or directory
#include <gbpCosmo_bias.h>

either include paths are not being correctly set or includes are missing relative paths.
Note that a naive attempt to compile full code set results in MCMC having undefined references (improper library paths?)
Generating binary 'example_line_fit'.../home/pelahi/software/gbpCode//myLib///libgbpMath.a(compute_MCMC_chain_stats.o): In function compute_MCMC_chain_stats': compute_MCMC_chain_stats.c:(.text+0x266): undefined reference to gsl_fit_linear'
/home/pelahi/software/gbpCode//myLib///libgbpMath.a(set_MCMC_covariance.o): In function set_MCMC_covariance': set_MCMC_covariance.c:(.text+0xc4): undefined reference to gsl_matrix_set'

[gbpoole]

The compile error with the missing header file should be fixed now.

As for the linking error (with gbpMCMC) ... are you sure that you have gsl in your LD_LIBRARY_PATH or have set the environment variable GBP_GSL_DIR in your .bashrc.myCode appropriately (and have made sure to source it)?

[pelahi]

The linking error is a result of missing -libgsl passed as compile options.

Standard make outputs the following

Compile and linking parameters:

CC =g++ -std=c++98

CPPFLAGS= -DUSE_GETLINE=0 -I/gbpCode/myInclude/ -DUSE_CFITSIO=0 -DUSE_HDF5=0 -DUSE_GDLIB=0 -DUSE_CUDA=0 -DUSE_DEBUGGER=0 -DUSE_VALGRIND=0 -DUSE_GSL=0 -DUSE_FFTW=0 -DUSE_SPRNG=0 -DUSE_MPI=0 -DUSE_MPI_IO=0 -O2 -DGBP_DATA_DIR=/gbpCode/myData/"

LDFLAGS= -L/gbpCode/myLib/

Shouldn't the default LDFLAGS have -lgsl and -lgslcblas? Adjusting the Makefile.mylocal did not alleviate the problem however, removing the USE_GSL check in Makefile.libs so that the code always adds a -lgsl -lgslcblas -lm by default worked.

[gbpoole]

That's because you're setting USE_GSL=0 somehow. It should be USE_GSL=1