Installation Problem

[Qing Zhang]

Hi all,

I am new to gerardus, and I am trying to install it on the Ubuntu 14.04. I am following the instructions and everything seems OK until I got this:

 == Detect external libraries ==

-- External libraries supported: GMP;GMPXX;MPFR;ZLIB;OpenGL;LEDA;MPFI;RS;RS3;OpenNL;TAUCS;Eigen3;BLAS;LAPACK;QGLViewer;ESBTL;Coin3D;NTL;IPE

-- Preconfiguring library: GMP ...

-- GMP has been preconfigured:

--   UseGMP-file:      

--   GMP include:      /home/qzhangas/Documents/gerardus/cpp/src/third-party/gmp-5.1.2

--   GMP libraries:    /home/qzhangas/Documents/gerardus/cpp/src/third-party/gmp-5.1.2/output/lib/libgmp.so

--   GMP definitions:  

-- WARNING: GMP found but could not compile print_GMP_version.cpp:

-- GMP_INCLUDE_DIR=/home/qzhangas/Documents/gerardus/cpp/src/third-party/gmp-5.1.2

-- GMP_LIBRARIES=/home/qzhangas/Documents/gerardus/cpp/src/third-party/gmp-5.1.2/output/lib/libgmp.so

-- GMP_LIBRARIES_DIR=/home/qzhangas/Documents/gerardus/cpp/src/third-party/gmp-5.1.2/output/lib

-- Change Dir: /home/qzhangas/Documents/gerardus/bin/CMakeFiles/CMakeTmp

Run Build Command:"/usr/bin/make" "cmTC_d349d/fast"

/usr/bin/make -f CMakeFiles/cmTC_d349d.dir/build.make CMakeFiles/cmTC_d349d.dir/build

make[1]: Entering directory `/home/qzhangas/Documents/gerardus/bin/CMakeFiles/CMakeTmp'

Building CXX object CMakeFiles/cmTC_d349d.dir/print_GMP_version.cpp.o

/usr/bin/g++-4.7    -I/home/qzhangas/Documents/gerardus/cpp/src/third-party/gmp-5.1.2  -msse2 -frounding-math  -msse2    -o CMakeFiles/cmTC_d349d.dir/print_GMP_version.cpp.o -c /home/qzhangas/Documents/gerardus/cpp/src/third-party/CGAL-4.2/config/support/print_GMP_version.cpp

/home/qzhangas/Documents/gerardus/cpp/src/third-party/CGAL-4.2/config/support/print_GMP_version.cpp:28:17: fatal error: gmp.h: No such file or directory

compilation terminated.

make[1]: *** [CMakeFiles/cmTC_d349d.dir/print_GMP_version.cpp.o] Error 1

make[1]: Leaving directory `/home/qzhangas/Documents/gerardus/bin/CMakeFiles/CMakeTmp'

make: *** [cmTC_d349d/fast] Error 2

-- USING GMP_VERSION = 'unknown'

-- Preconfiguring library: MPFR ...

-- MPFR has been preconfigured:

--   UseMPFR-file:      

--   MPFR include:      /home/qzhangas/Documents/gerardus/cpp/src/third-party/mpfr-3.1.2/src

--   MPFR libraries:    /home/qzhangas/Documents/gerardus/cpp/src/third-party/mpfr-3.1.2/output/lib/libmpfr.so

--   MPFR definitions:  

-- WARNING: MPFR found but could not compile print_MPFR_version.cpp:

-- MPFR_INCLUDE_DIR=/home/qzhangas/Documents/gerardus/cpp/src/third-party/mpfr-3.1.2/src

-- MPFR_LIBRARIES=/home/qzhangas/Documents/gerardus/cpp/src/third-party/mpfr-3.1.2/output/lib/libmpfr.so

-- MPFR_LIBRARIES_DIR=/home/qzhangas/Documents/gerardus/cpp/src/third-party/mpfr-3.1.2/output/lib

-- Change Dir: /home/qzhangas/Documents/gerardus/bin/CMakeFiles/CMakeTmp

Run Build Command:"/usr/bin/make" "cmTC_0f0e1/fast"

/usr/bin/make -f CMakeFiles/cmTC_0f0e1.dir/build.make CMakeFiles/cmTC_0f0e1.dir/build

make[1]: Entering directory `/home/qzhangas/Documents/gerardus/bin/CMakeFiles/CMakeTmp'

Building CXX object CMakeFiles/cmTC_0f0e1.dir/print_MPFR_version.cpp.o

/usr/bin/g++-4.7    -I/home/qzhangas/Documents/gerardus/cpp/src/third-party/mpfr-3.1.2/src -I/home/qzhangas/Documents/gerardus/cpp/src/third-party/gmp-5.1.2  -msse2 -frounding-math  -msse2    -o CMakeFiles/cmTC_0f0e1.dir/print_MPFR_version.cpp.o -c /home/qzhangas/Documents/gerardus/cpp/src/third-party/CGAL-4.2/config/support/print_MPFR_version.cpp

In file included from /home/qzhangas/Documents/gerardus/cpp/src/third-party/CGAL-4.2/config/support/print_MPFR_version.cpp:28:0:

/home/qzhangas/Documents/gerardus/cpp/src/third-party/mpfr-3.1.2/src/mpfr.h:39:18: fatal error: gmp.h: No such file or directory

compilation terminated.

make[1]: *** [CMakeFiles/cmTC_0f0e1.dir/print_MPFR_version.cpp.o] Error 1

make[1]: Leaving directory `/home/qzhangas/Documents/gerardus/bin/CMakeFiles/CMakeTmp'

make: *** [cmTC_0f0e1/fast] Error 2

-- USING MPFR_VERSION = 'unknown'

-- USING BOOST_VERSION = '1.49.0'

== Detect external libraries (DONE) ==

== Write compiler_config.h ==

CMake Warning (dev) at cpp/src/third-party/CGAL-4.2/CMakeLists.txt:656 (if):

  Policy CMP0054 is not set: Only interpret if() arguments as variables or

  keywords when unquoted.  Run "cmake --help-policy CMP0054" for policy

  details.  Use the cmake_policy command to set the policy and suppress this

  warning.

  Quoted variables like "CGAL_CFG_DENORMALS_COMPILE_BUG" will no longer be

  dereferenced when the policy is set to NEW.  Since the policy is not set

  the OLD behavior will be used.

This warning is for project developers.  Use -Wno-dev to suppress it.

== Write compiler_config.h (DONE) ==

== Generating build files ==

Configuring libCGAL

-- Requested component: MPFR

-- Requested component: GMP

CMake Warning (dev) at cpp/src/third-party/CGAL-4.2/src/CMakeLists.txt:51 (get_target_property):

  Policy CMP0026 is not set: Disallow use of the LOCATION target property.

  Run "cmake --help-policy CMP0026" for policy details.  Use the cmake_policy

  command to set the policy and suppress this warning.

  The LOCATION property should not be read from target "CGAL".  Use the

  target name directly with add_custom_command, or use the generator

  expression $<TARGET_FILE>, as appropriate.

Call Stack (most recent call first):

  cpp/src/third-party/CGAL-4.2/src/CGAL/CMakeLists.txt:11 (collect_cgal_library)

This warning is for project developers.  Use -Wno-dev to suppress it.

libCGAL is configured

-- Sources for CGAL component library 'CGAL_ImageIO/CMakeLists.txt' detected

CMake Error at cpp/src/third-party/CGAL-4.2/src/CMakeLists.txt:81 (add_subdirectory):

  add_subdirectory given source

  "/home/qzhangas/Documents/gerardus/cpp/src/third-party/CGAL-4.2/src/CGAL_ImageIO/CMakeLists.txt"

  which is not an existing directory.

Call Stack (most recent call first):

  cpp/src/third-party/CGAL-4.2/src/CMakeLists.txt:139 (configure_component)

-- Sources for CGAL component library 'CGAL_Qt3/CMakeLists.txt' detected

CMake Error at cpp/src/third-party/CGAL-4.2/src/CMakeLists.txt:81 (add_subdirectory):

  add_subdirectory given source

  "/home/qzhangas/Documents/gerardus/cpp/src/third-party/CGAL-4.2/src/CGAL_Qt3/CMakeLists.txt"

  which is not an existing directory.

Call Stack (most recent call first):

  cpp/src/third-party/CGAL-4.2/src/CMakeLists.txt:139 (configure_component)

-- Sources for CGAL component library 'CGAL_Core/CMakeLists.txt' detected

CMake Error at cpp/src/third-party/CGAL-4.2/src/CMakeLists.txt:81 (add_subdirectory):

  add_subdirectory given source

  "/home/qzhangas/Documents/gerardus/cpp/src/third-party/CGAL-4.2/src/CGAL_Core/CMakeLists.txt"

  which is not an existing directory.

Call Stack (most recent call first):

  cpp/src/third-party/CGAL-4.2/src/CMakeLists.txt:139 (configure_component)

-- Sources for CGAL component library 'CGAL_Qt4/CMakeLists.txt' detected

CMake Error at cpp/src/third-party/CGAL-4.2/src/CMakeLists.txt:81 (add_subdirectory):

  add_subdirectory given source

  "/home/qzhangas/Documents/gerardus/cpp/src/third-party/CGAL-4.2/src/CGAL_Qt4/CMakeLists.txt"

  which is not an existing directory.

Call Stack (most recent call first):

  cpp/src/third-party/CGAL-4.2/src/CMakeLists.txt:139 (configure_component)

-- Sources for CGAL component libraries 'CGAL_Core;CGAL_Core/CMakeLists.txt;CGAL_ImageIO;CGAL_ImageIO/CMakeLists.txt;CGAL_Qt3;CGAL_Qt3/CMakeLists.txt;CGAL_Qt4;CGAL_Qt4/CMakeLists.txt' detected

== Generating build files (DONE) ==

-- Matlab function vmu2png.m already compiled. Skipping compilation.

-- Configuring incomplete, errors occurred!

I've no idea how to solve it. Thanks a lot for your help.

Thanks,

Chloe

[Ramón Casero Cañas]

Hi Chloe,

Thanks for reporting this. First of all, what do you need from Gerardus? If you just need Matlab functions, you don't need to build the project.

Best regards,

Ramon.

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[Chloe]

Hi Ramon,

Thank you for your reply. Actually, I was going to use the Matlab functions labmathmorph and mm_opening at first, but it turns out that they need the itk_imfilter function, which is required to be built. So I'd like to build the project. Am I missing some steps?

Thanks,

Chloe

[Ramón Casero Cañas]

Sorry for the slow reply. I have pushed an update to CMakeLists.txt, and have updated the build instructions here:

https://github.com/rcasero/gerardus/wiki/Build-instructions

Did you get all the dependencies and followed the build instructions?

It builds for me on ubuntu trusty if I clone the project and then configure, build and install. Try with a fresh start.

Best regards,

Ramon.