Makefile:146: recipe for target 'all' failed

[surchs]

Hi,

I just tried to build the toolkit following the instructions on the git page. It failed with the following error messages:

Makefile:553: recipe for target 'h5tools_dump.lo' failed
make[5]: *** [h5tools_dump.lo] Error 1
Makefile:497: recipe for target 'all-recursive' failed
make[4]: *** [all-recursive] Error 1
Makefile:539: recipe for target 'all-recursive' failed
make[3]: *** [all-recursive] Error 1
CMakeFiles/HDF5.dir/build.make:111: recipe for target 'HDF5-prefix/src/HDF5-stamp/HDF5-build' failed
make[2]: *** [HDF5-prefix/src/HDF5-stamp/HDF5-build] Error 2
CMakeFiles/Makefile2:130: recipe for target 'CMakeFiles/HDF5.dir/all' failed
make[1]: *** [CMakeFiles/HDF5.dir/all] Error 2
Makefile:146: recipe for target 'all' failed
make: *** [all] Error 2

Any suggestions?

[vfonov]

What OS, version, compiler, cmake parameters ?

[surchs]

1. Debian
2. Testing
3. How do I find out?
4. Default

[vfonov]

create a separate building directory, set build type ( CMAKE_BUILD_TYPE ) to Release

[surchs]

Unless I misunderstand, that's already what I am doing

 git clone --recursive git://github.com/BIC-MNI/minc-toolkit.git minc-toolkit
  cd minc-toolkit
  mkdir build && cd build
  ccmake .. # Enter the location of all dependencies, if not detected automatically ..., 
  make && make test && make install

This is the instruction I am following. I now also set the CMAK_BUILD_TYPE flag explicitly to Release. I still get an error:

Makefile:553: recipe for target 'h5tools_dump.lo' failed
make[5]: *** [h5tools_dump.lo] Error 1
Makefile:497: recipe for target 'all-recursive' failed
make[4]: *** [all-recursive] Error 1
Makefile:539: recipe for target 'all-recursive' failed
make[3]: *** [all-recursive] Error 1
CMakeFiles/HDF5.dir/build.make:111: recipe for target 'HDF5-prefix/src/HDF5-stamp/HDF5-build' failed
make[2]: *** [HDF5-prefix/src/HDF5-stamp/HDF5-build] Error 2
CMakeFiles/Makefile2:130: recipe for target 'CMakeFiles/HDF5.dir/all' failed
make[1]: *** [CMakeFiles/HDF5.dir/all] Error 2
Makefile:146: recipe for target 'all' failed
make: *** [all] Error 2

Should I save the entire log?

[vfonov]

That would help, together with output of cmake -LA .

[surchs]

Here is the cmake log and the log of the make command.

[TheChymera]

I am getting the same error - here is a longer tail of my log.

Running Gentoo, and using the x86_64-pc-linux-gnu-4.9.2 compiler from gcc.

[TheChymera]

It seems the error is starting here:

�[01m�[Kh5tools_dump.c:635:9:�[m�[K �[01;31m�[Kerror: �[m�[Kexpected expression before '�[01m�[K/�[m�[K' token
         //HGOTO_ERROR(dimension_break, H5E_tools_min_id_g, "Could not allocate buffer for ptdata");

Looks like maybe some typo in your code?

[rdvincent]

Looks like your compiler might be choking on a "//" comment in that C source file. Which compiler are you using?

The offending file is part of HDF5, which we use but don't provide ourselves. As a workaround, you could separately install a version of HDF5 for your OS, and enable the USE_SYSTEM_HDF5 option in the CMake build.

[gdevenyi]

Looks to me like problems with character encoding, @TheChymera are you running a non-english base system?

[TheChymera]

@rdvincent see above post for my compiler

@gdevenyi English, UTF-8

[vfonov]

Looks like this error was fixed in HDF5 version 1.8.13 - I will update to the latest HDF5 - hopefully that would be enough

[vfonov]

@TheChymera @surchs - can you try to build the latest develop branch ?

[TheChymera]

@vfonov

sci-libs/hdf5-1.8.15_p1 builds nicely here on my end. Currently trying to see if I can set CMake to unbundle that,

[rdvincent]

the current develop branch now fails for me on both Ubuntu 12.04 and CentOS 6.6, with the same error:

dsets.cpp: In function ‘herr_t test_create(H5::H5File&)’:
dsets.cpp:128:34: error: ‘class H5::DataSet’ has no member named ‘getObjName’

[vfonov]

Did you start with a fresh build directory?

[rdvincent]

No. Trying again.

[rdvincent]

Ok. that was it. sorry.

[eykn]

how to solve this error

Makefile:1219: recipe for target '../out/gcc-debug//src/inet/linklayer/ieee80211 mesh/locator/LocatorModule.o' failed
make[1]: *** [../out/gcc-debug//src/inet/linklayer/ieee80211mesh/locator/Locator Module.o] Error 1
make[1]: Leaving directory '/c/omnetpp-4.6/inetmanet-2.0-inetmanet-3.0/src'
Makefile:4: recipe for target 'all' failed
make: *** [all] Error 2

[cjm399]

Here is how I fixed this for myself. Not sure if this will work for everyone. My int main() was returning a 1 at the end. I changed this to be "return 0;" Then the error went away. Not sure why, maybe someone with more experience could explain this.

[vfonov]

Hmm... I think our problem was with older version of HDF5 that was resolved using newer one.

[mymuzk]

The following worked for me when I ran into this error:

make clean
./configure CFLAGS=-fPIC CXXFLAGS=-fPIC
make

[sepideh9191]

@vfonov
hi
i have this error how can I solve it?
Makefile:51: recipe for target 'src/Makefile' failed
make: *** [src/Makefile] Error 1

[gdevenyi]

@sepideh9191 please open a seperate issue and provide full description of how you acquired the source, how you configured the build, and the full output log of the compile.

[gdevenyi]

Original reporter is long gone, closing

[sepideh9191]

@surchs gdevenyi
i appreciate the time that you devoted.
excuse me i did not understand so mush.

[colzez]

how to solve this plz
make: *** [Makefile:95: out/gcc-release//inet] Error 1

[gdevenyi]

@colzez Please don't hijack other threads. Open a new issues with full details of how you obtained the source, configured it, and built it, including OS and compiler versions and full logs.