unable to link cfitsio library about xlibs HOT 16 OPEN

I am facing the same issue.
I have fitsio.h installed natively on the machine (/usr/include/) but it still throws the error

from xlibs.

@hqiu-nju @raghuttamh . Can you check the config.log file with "error" or upload it here? It maybe caused by other missing library.

from xlibs.

Hi @ypmen , I have attached the config.log to the ticket.
config.log

I have boost_log inside /home/myuser/somefolder/boost_1_82_0/
I even tried including that folder with LDFLAG="-L/home/myuser/somefolder/sofa/:/home/myuser/somefolder/boost_1_82_0/stage/lib/" CPPFLAG="-I/home/myuser/somefolder/sofa:/home/myuser/somefolder/boost_1_82_0/" when using ./configure

from xlibs.

Hi @raghuttamh . I think this is the real error. Can you install libboost_log
"""
/usr/bin/ld: cannot find -lboost_log: No such file or directory
collect2: error: ld returned 1 exit status
"""

from xlibs.

Do you want me to install it natively? I have installed it inside a directory but I dont think I have an option to provide the address right?

from xlibs.

@raghuttamh . Can you try ./configure LDFLAGS=-I/path_to_include CPPFLAGS=-L/path_to_lib?

from xlibs.

No it does not work. It does not throw any errors for this action, but again, there is no change in config.log

I tried to provide the path to boost_log, instead of sofa, which clears that step, but, again, it would not be able to find sofa_libraries later

from xlibs.

@raghuttamh You need both flags. LDFLAGS="-I.. -I.. " and CPPFLAGS="-L.. -L.."

from xlibs.

So I've done this before with the following setup, and also I have the variable $BOOST_ROOT linked to /opt/homebrew/Cellar/boost/1.84.0_1/
when I try
./configure --prefix=/Users/h.qiu/software/XLibs/ LDFLAGS="-L/Users/h.qiu/software/sofa/lib/ -L/opt/homebrew/Cellar/boost/1.84.0_1/lib" CPPFLAGS="-I/Users/h.qiu/software/sofa/include/ -I/opt/homebrew/Cellar/boost/1.84.0_1/include"
I then get the cfitsio library not found that I was mentioning.

checking for boostlib >= 1.56 (105600)... yes
checking for ffgky in -lcfitsio... no
cfitsio library was not found!

from xlibs.

config.log
Here's my config.log, I think the error is

configure:17713: gcc -o conftest -g -O2 -I/Users/h.qiu/software/sofa/include/ -I/opt/homebrew/Cellar/boost/1.84.0_1/include -L/Users/h.qiu/software/sofa/lib/ -L/opt/homebrew/Cellar/boost/1.84.0_1/lib conftest.c -lcfitsio   -lboost_program_options -lboost_log >&5
ld: library 'cfitsio' not found
clang: error: linker command failed with exit code 1 (use -v to see invocation)
configure:17713: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "XLibs"
| #define PACKAGE_TARNAME "xlibs"
| #define PACKAGE_VERSION "0.0"
| #define PACKAGE_STRING "XLibs 0.0"
| #define PACKAGE_BUGREPORT "[email protected]"
| #define PACKAGE_URL ""
| #define PACKAGE "xlibs"
| #define VERSION "0.0"
| #define HAVE_STDIO_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_UNISTD_H 1
| #define HAVE_SYS_TIME_H 1
| #define STDC_HEADERS 1
| #define HAVE_DLFCN_H 1
| #define LT_OBJDIR ".libs/"
| #define HAVE_BOOST /**/
| /* end confdefs.h.  */
| 
| /* Override any GCC internal prototype to avoid an error.
|    Use char because int might match the return type of a GCC
|    builtin and then its argument prototype would still apply.
|    The 'extern "C"' is for builds by C++ compilers;
|    although this is not generally supported in C code supporting it here
|    has little cost and some practical benefit (sr 110532).  */
| #ifdef __cplusplus
| extern "C"
| #endif
| char ffgky (void);
| int
| main (void)
| {
| return ffgky ();
|   ;
|   return 0;
| }
configure:17725: result: no

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@hqiu-nju Can you also try the flags LDFLAGS="-I.. -I.. " and CPPFLAGS="-L.. -L.." to add the cfitsio path? or use apt install https://github.com/ypmen/PulsarX/blob/c9743da6489106999701561f16e848e6919c9371/Dockerfile#L30

from xlibs.

Ok, I think remaking cfitsio installation has worked this time.
what is this package afterwards?
checking for png_set_flush in -lpng... no

from xlibs.

@hqiu-nju libpng-dev You can check the Dockerfile https://github.com/ypmen/PulsarX/blob/c9743da6489106999701561f16e848e6919c9371/Dockerfile#L34

from xlibs.

Ok, I think the main reason is the libraries from homebrew are not linked to the mac terminal shell

from xlibs.

Ok, I think I have solved the dependencies with homebrew, however as I mentioned I'm using an ARM chip on mac, I have this following error with GCC, is there an ideal solution for this? rosetta?
checking for gcc __builtin_cpu_init function... no
configure: error: Need GCC to support X86 CPU features tests

from xlibs.

@hqiu-nju Can you try the pulsar docker image https://hub.docker.com/r/ypmen/pulsarx on Mac?

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