Errors when compiling

[dbalague]

I was trying to compile ngs-bits and I got into some compilation errors.

I could run make build_3rdparty and everything compiled with no problem. However, when running
make build_tools_release I got the following error:

icpc: command line warning #10155: ignoring option '-l'; argument required
icpc: error #10236: File not found:  'bamtools'
make[2]: *** [../../bin/libcppNGS.so.1.0.0] Error 1
make[2]: Leaving directory `/usr/local/ngs-bits/2.4.1/old/ngs-bits/build-tools-Linux-Release/cppNGS'
make[1]: *** [sub-cppNGS-make_first] Error 2
make[1]: Leaving directory `/usr/local/ngs-bits/2.4.1/old/ngs-bits/build-tools-Linux-Release'
make: *** [build_tools_release] Error 2

The error is clearly due to a space between -l and bamtools. A quick search in ngs-bits directory shows that there are five files with this issue:

src/cppNGSD-TEST/cppNGSD-TEST.pro:37:LIBS += -L$$PWD/../../bamtools/lib/ -l bamtools
src/app_cli.pri:24:LIBS += -L$$PWD/../bamtools/lib/ -l bamtools
src/app_gui.pri:28:LIBS += -L$$PWD/../bamtools/lib/ -l bamtools
src/cppNGS-TEST/cppNGS-TEST.pro:28:LIBS += -L$$PWD/../../bamtools/lib/ -l bamtools
src/cppNGS/cppNGS.pro:30:LIBS += -L$$PWD/../../bamtools/lib/ -l bamtools

Once I removed the space, the code compiled with no errors.

[imgag]

Hi Daniel,

thanks for the bug report.
I guess noone has tried compiling ngs-bits with the intel compiler yet.
I just committed a fix.

Can you verify that it works out of the box now?

Best,
Marc

[imgag]

I assume the fix worked.

[dbalague]

Sorry for the late reply. I have not had a chance to try it again until today. It does work out of the box with Intel compilers now. Best, Daniel

…

On Mon, Mar 13, 2017 at 6:36 AM, Institute of Medical Genetics and Applied Genomics ***@***.***> wrote: I assume the fix worked. — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub <#4 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AYKF7QZxI2_EwTFhGeAiXar3tNqEfh7sks5rlRwxgaJpZM4MRUWk> .