Compile Error

[Pau Bolivar]

Hi!

I am trying to install testnh but get an Error:

[paulina@milou1 testnh]$ cmake -DCMAKE_INSTALL_PREFIX=$bpp_dir -DCMAKE_LIBRARY_PATH=$bpp_dir/lib -DCMAKE_INCLUDE_PATH=$bpp_dir/include -DBUILD_TESTING=FALSE ./

-- The CXX compiler identification is GNU

-- Check for working CXX compiler: /usr/bin/c++

-- Check for working CXX compiler: /usr/bin/c++ -- works

-- Detecting CXX compiler ABI info

-- Detecting CXX compiler ABI info - done

-- Library bpp-phyl found here:

   includes: /home/paulina/local/bpp/dev/include

   dynamic libraries: /home/paulina/local/bpp/dev/lib/libbpp-phyl.so

-- Library bpp-seq found here:

   includes: /home/paulina/local/bpp/dev/include

   dynamic libraries: /home/paulina/local/bpp/dev/lib/libbpp-seq.so

-- Library bpp-core found here:

   includes: /home/paulina/local/bpp/dev/include

   dynamic libraries: /home/paulina/local/bpp/dev/lib/libbpp-core.so

-- Found makeinfo here: /usr/bin/makeinfo

   Adding targets: info, html

   Adding target info to target all

-- Found pdftex here: /usr/bin/pdftex

   Adding target: pdf

-- Found nroff here: /usr/bin/nroff

   Adding targets: man

-- Configuring done

-- Generating done

-- Build files have been written to: /home/paulina/local/bpp/dev/sources/testnh

[paulina@milou1 testnh]$ make

Scanning dependencies of target info

[  0%] Built target info

Scanning dependencies of target man

[  0%] Built target man

Scanning dependencies of target mapnh

[ 20%] Building CXX object TestNH/CMakeFiles/mapnh.dir/MultinomialClustering.cpp.o

In file included from /home/paulina/local/bpp/dev/sources/testnh/TestNH/MultinomialClustering.cpp:2:

/home/paulina/local/bpp/dev/include/Bpp/Numeric/Matrix/MatrixTools.h: In static member function ‘static void bpp::MatrixTools::fill(Matrix&, Scalar) [with Matrix = bpp::DistanceMatrix, Scalar = double]’:

/home/paulina/local/bpp/dev/sources/testnh/TestNH/MultinomialClustering.cpp:103:   instantiated from here

/home/paulina/local/bpp/dev/include/Bpp/Numeric/Matrix/MatrixTools.h:154: error: ‘class bpp::DistanceMatrix’ has no member named ‘getNumberOfRows’

/home/paulina/local/bpp/dev/include/Bpp/Numeric/Matrix/MatrixTools.h:156: error: ‘class bpp::DistanceMatrix’ has no member named ‘getNumberOfColumns’

make[2]: *** [TestNH/CMakeFiles/mapnh.dir/MultinomialClustering.cpp.o] Error 1

make[1]: *** [TestNH/CMakeFiles/mapnh.dir/all] Error 2

make: *** [all] Error 2

I am installing from the git repository. The installation for the other libraries from the git went fine. 

Can you please help me? 

Thank you so much!

Best regards

Paulina

[Julien Yann Dutheil]

Dear Paulina,

This is due to a very recent change in bpp-seq. It should be fixed now (bpp-seq and testnh have been updated on git).

Many thanks for reporting this issue!

Best regards,

Julien.

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Julien Y. Dutheil, Ph-D
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§ Max Planck Institute for Terrestrial Microbiology
Department of Organismic Interactions
Marburg -- GERMANY

§ Intitute of Evolutionary Sciences - Montpellier
University of Montpellier 2 -- FRANCE

[Pau Bolivar]

Thanks a lot!! Now it worked!!

Cheers!

Paulina