Install problem

[wwood]

Hi, I'm trying to package hh-suite for GNU Guix but running into the following problem trying to install this ffindex fork. Any ideas?

ben@ben /tmp/ffindex_soedinglab/build [env]# cmake -DCMAKE_INSTALL_PREFIX=/tmp -DCMAKE_BUILD_TYPE=RelWithDebInfo -G "Unix Makefiles" ..
-- The C compiler identification is GNU 4.9.4
-- Check for working C compiler: /gnu/store/5bakywgsavpc21zbli8hqq9qgrladcjn-profile/bin/gcc
-- Check for working C compiler: /gnu/store/5bakywgsavpc21zbli8hqq9qgrladcjn-profile/bin/gcc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Looking for fmemopen
-- Looking for fmemopen - found
-- Found MPI_C: /gnu/store/5bakywgsavpc21zbli8hqq9qgrladcjn-profile/lib/libmpi.so  
-- Configuring done
-- Generating done
-- Build files have been written to: /tmp/ffindex_soedinglab/build
ben@ben /tmp/ffindex_soedinglab/build [env]# make
Scanning dependencies of target ffindex
[  3%] Building C object src/CMakeFiles/ffindex.dir/ffindex.c.o
[  7%] Building C object src/CMakeFiles/ffindex.dir/ffutil.c.o
[ 11%] Linking C static library libffindex.a
[ 11%] Built target ffindex
Scanning dependencies of target ffindex_from_fasta_with_split
[ 15%] Building C object src/CMakeFiles/ffindex_from_fasta_with_split.dir/ffindex_from_fasta_with_split.c.o
[ 19%] Linking C executable ffindex_from_fasta_with_split
[ 19%] Built target ffindex_from_fasta_with_split
Scanning dependencies of target ffindex_modify
[ 23%] Building C object src/CMakeFiles/ffindex_modify.dir/ffindex_modify.c.o
[ 26%] Linking C executable ffindex_modify
[ 26%] Built target ffindex_modify
Scanning dependencies of target mpq
[ 30%] Building C object src/mpq/CMakeFiles/mpq.dir/mpq.c.o
[ 34%] Linking C static library libmpq.a
[ 34%] Built target mpq
Scanning dependencies of target ffindex_apply_mpi
[ 38%] Building C object src/CMakeFiles/ffindex_apply_mpi.dir/ffindex_apply_mpi.c.o
[ 42%] Linking C executable ffindex_apply_mpi
[ 42%] Built target ffindex_apply_mpi
Scanning dependencies of target ffindex_apply
[ 46%] Building C object src/CMakeFiles/ffindex_apply.dir/ffindex_apply.c.o
[ 50%] Linking C executable ffindex_apply
[ 50%] Built target ffindex_apply
Scanning dependencies of target ffindex_build
[ 53%] Building C object src/CMakeFiles/ffindex_build.dir/ffindex_build.c.o
[ 57%] Linking C executable ffindex_build
[ 57%] Built target ffindex_build
Scanning dependencies of target ffindex_from_fasta
[ 61%] Building C object src/CMakeFiles/ffindex_from_fasta.dir/ffindex_from_fasta.c.o
[ 65%] Linking C executable ffindex_from_fasta
[ 65%] Built target ffindex_from_fasta
Scanning dependencies of target ffindex_shared
[ 69%] Building C object src/CMakeFiles/ffindex_shared.dir/ffindex.c.o
[ 73%] Building C object src/CMakeFiles/ffindex_shared.dir/ffutil.c.o
[ 76%] Linking C shared library libffindex_shared.so
[ 76%] Built target ffindex_shared
Scanning dependencies of target ffindex_unpack
[ 80%] Building C object src/CMakeFiles/ffindex_unpack.dir/ffindex_unpack.c.o
[ 84%] Linking C executable ffindex_unpack
[ 84%] Built target ffindex_unpack
Scanning dependencies of target ffindex_get
[ 88%] Building C object src/CMakeFiles/ffindex_get.dir/ffindex_get.c.o
[ 92%] Linking C executable ffindex_get
[ 92%] Built target ffindex_get
Scanning dependencies of target ffindex_order
[ 96%] Building C object src/CMakeFiles/ffindex_order.dir/ffindex_order.c.o
[100%] Linking C executable ffindex_order
[100%] Built target ffindex_order
ben@ben /tmp/ffindex_soedinglab/build [env]# make install
[ 11%] Built target ffindex
[ 19%] Built target ffindex_from_fasta_with_split
[ 26%] Built target ffindex_modify
[ 34%] Built target mpq
[ 42%] Built target ffindex_apply_mpi
[ 50%] Built target ffindex_apply
[ 57%] Built target ffindex_build
[ 65%] Built target ffindex_from_fasta
[ 76%] Built target ffindex_shared
[ 84%] Built target ffindex_unpack
[ 92%] Built target ffindex_get
[100%] Built target ffindex_order
Install the project...
-- Install configuration: "RelWithDebInfo"
CMake Error at src/cmake_install.cmake:36 (file):
  file INSTALL cannot find "//ffindex_apply_mpi".
Call Stack (most recent call first):
  cmake_install.cmake:37 (include)

Thanks.

[milot-mirdita]

What cmake version are you using?

Looks like CMAKE_RUNTIME_OUTPUT_DIRECTORY is undefined, no idea why though.

[wwood]

bash-4.4$ cmake --version
cmake version 3.6.1

CMake suite maintained and supported by Kitware (kitware.com/cmake).

Setting CMAKE_RUNTIME_OUTPUT_DIRECTORY seems to make the issue go away, so not sure if this issue should be closed or not. Thanks.

[milot-mirdita]

It definitely should not happen and the variable should be set. I'll investigate once I have stable internet again. Thank you for reporting the issue :)

[smoe]

Please check if (if not) you have OpenMPI installed. That should help to get ffindex_apply_mpi built.