Octave for Debian systems: Difference between revisions
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{{Warning|<ul><li>The Debian repositoriy has several libraries for dealing with HDF data files. The recommended is {{Codeline|libhdf5-serial-dev}}. However, the {{Forge|msh|msh package}} requires [http://www.geuz.org/gmsh/ gmsh] which is incompatible with it.</li> | {{Warning|<ul><li>The Debian repositoriy has several libraries for dealing with HDF data files. The recommended is {{Codeline|libhdf5-serial-dev}}. However, the {{Forge|msh|msh package}} requires [http://www.geuz.org/gmsh/ gmsh] which is incompatible with it.</li> | ||
<li>The GraphicsMagick++ library (libgraphicsmagick++1-dev) on the Debian repositories was compiled with quantum 8 which limits reading images to 8 bit. The solution is to recompile [[GraphicsMagick]] with quantum 16 or 32 before building Octave.</li> | <li>The GraphicsMagick++ library (libgraphicsmagick++1-dev) on the Debian repositories was compiled with quantum 8 which limits reading images to 8 bit. The solution is to recompile [[GraphicsMagick]] with quantum 16 or 32 before building Octave.</li> | ||
<li>For debian9 using openjdk-9-jdk (even providing {{Codeline|JAVA_HOME}}) could *not* be used for the java interface! Use openjdk-8-jdk instead.</li></ul>}} | <li>For debian9 using openjdk-9-jdk (even providing {{Codeline|JAVA_HOME}}) could *not* be used for the java interface! Use openjdk-8-jdk instead.</li> | ||
<li>When configure decides to use QT5 instead of QT4, make might fail because lrelease is missing (see [https://savannah.gnu.org/bugs/?50580 bug 50580]). It can be fixed by installing {{Codeline|qttools5-dev-tools}}</li> | |||
</ul>}} | |||
=== Configuration === | === Configuration === | ||
Revision as of 12:21, 4 December 2017
For Debian, and Debian-based distributions such as Ubuntu, specific solutions.
Pre-compiled binaries
Binary packages for Octave and many Octave-Forge packages are provided by all versions of Debian and Ubuntu. These are the most well-tested binaries available and should work best for most users.
sudo apt-get install octave
Aside the octave package that installs GNU Octave, other pieces of it are split over multiple packages. These are octave-doc, octave-info, and octave-htmldoc for the documentation; liboctave-dev for the octave development header files and mkoctfile (required to install Octave Forge packages); and octave-dbg for the debugging symbols.
For Debian stable users, there may also be newer packages available in backports, so don't forget to check there.
Octave packages
Many Octave packages are also distributed by your Linux distribution. These are tested to work the best with your Octave version. For example:
sudo apt-get install octave-control octave-image octave-io octave-optim octave-signal octave-statistics
Octave's Personal Package Archive (PPA) for Ubuntu
For some Ubuntu releases the Octave packages are too old (Ubuntu 12.04 only has Octave version 3.2). The GNU Octave Team on Launchpad maintains a PPA providing more up to date packages of Octave for all versions of Ubuntu. These are backported from Debian unstable (the Ubuntu Octave Team needs help testing and preparing the packages so if you can help with this, contact Mike Miller). To set up your system to install these packages:
sudo apt-add-repository ppa:octave/stable sudo apt-get update sudo apt-get install octave
Linuxbrew
It is possible to install the current stable version of Octave and any needed dependencies within your home directory, particularly useful if you have an old Linux distribution or do not have root access, using Linuxbrew:
ruby -e "$(curl -fsSL https://raw.githubusercontent.com/Linuxbrew/install/master/install)" echo 'export PATH="$HOME/.linuxbrew/bin:$PATH"' >>~/.bash_profile brew install homebrew/science/octave
Compiling from source
The only tricky part is to install the dependencies. Once that is solved, installing from source should be as easy as ./configure && make && make install. See the manual for configure options and below for some common examples.
Install dependencies
Note that different Debian and Ubuntu versions may have slightly different package names but their differences should be pretty small, mostly limited to version numbers.
The easy way (but likely incorrect)
This approach is only suitable if you are building from source the same version that your Linux distribution already has packaged.
The easy way to install most of the necessary dependencies is to sudo apt-get build-dep octave. This will install all packages necessary to build and prepare a Debian package for the octave version available on your system repositories. However:
- will install unnecessary packages related to the building of a Debian package;
- may miss some new dependencies;
- may install packages that are no longer octave dependencies.
The even easier way (but experimental)
The MXE-octave package provides a way to compile Octave for different platforms. Dependencies and certain flags are handled automatically.
The right way
The right way is to select and install all the dependencies as listed in the INSTALL.OCTAVE file (if it is not in your source tree build it doing make INSTALL.OCTAVE). The following are their package names in Debian repositories (they will have their own dependencies which your package manager will solve automatically). If you are building development versions, you'll require some more packages as listed on etc/HACKING and INSTALL. Many of them will already be installed on your system. Install the dependencies by typing
sudo apt-get install
followed by the package names of the table below.
To install all of these on Ubuntu 16.04, type
sudo apt-get install gcc g++ gfortran make libblas-dev liblapack-dev libpcre3-dev libarpack2-dev libcurl4-gnutls-dev epstool libfftw3-dev transfig libfltk1.3-dev libfontconfig1-dev libfreetype6-dev libgl2ps-dev libglpk-dev libreadline-dev gnuplot-x11 libgraphicsmagick++1-dev libhdf5-serial-dev openjdk-8-jdk libsndfile1-dev llvm-dev lpr texinfo libgl1-mesa-dev libosmesa6-dev pstoedit portaudio19-dev libqhull-dev libqrupdate-dev libqscintilla2-dev libqt4-dev libqtcore4 libqtwebkit4 libqt4-network libqtgui4 libqt4-opengl-dev libsuitesparse-dev texlive libxft-dev zlib1g-dev autoconf automake bison flex gperf gzip icoutils librsvg2-bin libtool perl rsync tar
or, for Debian 8 stable,
sudo apt-get install gcc g++ gfortran make libblas-dev liblapack-dev libpcre3-dev libarpack2-dev libcurl4-gnutls-dev epstool libfftw3-dev transfig libfltk1.3-dev libfontconfig1-dev libfreetype6-dev libgl2ps-dev libglpk-dev libreadline-dev gnuplot libgraphicsmagick++1-dev libhdf5-serial-dev openjdk-7-jdk libsndfile1-dev llvm-dev lpr texinfo libgl1-mesa-dev libosmesa6-dev pstoedit portaudio19-dev libqhull-dev libqrupdate-dev libqscintilla2-dev libqt4-dev libqtcore4 libqtwebkit4 libqt4-network libqtgui4 libqt4-opengl-dev libsuitesparse-dev texlive libxft-dev zlib1g-dev autoconf automake bison flex gperf gzip icoutils librsvg2-bin libtool perl rsync tar
or, for Debian 9 stable,
sudo apt-get install gcc g++ gfortran make libblas-dev liblapack-dev libpcre3-dev libarpack2-dev libcurl4-gnutls-dev epstool libfftw3-dev transfig libfltk1.3-dev libfontconfig1-dev libfreetype6-dev libgl2ps-dev libglpk-dev libreadline-dev gnuplot libgraphicsmagick++1-dev libhdf5-serial-dev openjdk-8-jdk libsndfile1-dev llvm-dev texinfo libgl1-mesa-dev libosmesa6-dev pstoedit portaudio19-dev libjack-jackd2-dev libqhull-dev libqrupdate-dev libqscintilla2-dev libqt4-dev libqtcore4 libqtwebkit4 libqt4-network libqtgui4 libqt4-opengl-dev libsuitesparse-dev texlive libxft-dev zlib1g-dev autoconf automake bison flex gperf gzip icoutils librsvg2-bin libtool perl rsync tar
- The Debian repositoriy has several libraries for dealing with HDF data files. The recommended is
libhdf5-serial-dev. However, the msh package requires gmsh which is incompatible with it. - The GraphicsMagick++ library (libgraphicsmagick++1-dev) on the Debian repositories was compiled with quantum 8 which limits reading images to 8 bit. The solution is to recompile GraphicsMagick with quantum 16 or 32 before building Octave.
- For debian9 using openjdk-9-jdk (even providing
JAVA_HOME) could *not* be used for the java interface! Use openjdk-8-jdk instead. - When configure decides to use QT5 instead of QT4, make might fail because lrelease is missing (see bug 50580). It can be fixed by installing
qttools5-dev-tools
Configuration
As mentioned above, Octave can be compiled with the default settings using ./configure && make && make install. You can also tweak the setup using configure options. Some examples are given below for a Linux system.
64 bit
To get 64-bit indexing requires all linked libraries to support 64-bit variables. You can omit most of these except BLAS which gives a fatal error. This is remedied by compiling OpenBLAS with edits to its Makefile.rule so that BINARY=64 INTERFACE64=1.
./configure LD_LIBRARY_PATH=/opt/OpenBLAS/lib CPPFLAGS=-I/opt/OpenBLAS/include LDFLAGS=-L/opt/OpenBLAS/lib --enable-64
Java
Autodetection for java should work well on Debian-based systems. A specific Java version can be specified by passing JAVA_HOME to configure, for example
./configure JAVA_HOME=/usr/lib/jvm/java-7-openjdk-amd64
HDF5
On current versions of Debian and Ubuntu, you may get the following warning when building an older version of Octave from source:
HDF5 library not found. Octave will not be able to save or load HDF5 data files.
The problem is that there are multiple versions of the hdf5 package. Octave was written with the serial version in mind but it is likely to work with the others (OpenMPI and Mpich). Due to the naming scheme done in Debian, it may be required to specify the location of the libraries. See bug #38928 for details (starting with comment #19) but basically, use the following when running configure:
./configure --with-hdf5-includedir=/usr/include/hdf5/serial --with-hdf5-libdir=/usr/lib/x86_64-linux-gnu/hdf5/serial
On older versions of Debian and Ubuntu, where only one flavor of the HDF5 library could be installed at a time, you may need to build Octave against one of the MPI-enabled flavors. On these older systems, configuring Octave like this may work:
./configure CPPFLAGS="-I/usr/include/mpi -DMPICH_SKIP_MPICXX -DOMPI_SKIP_MPICXX"