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Commit 06655d3f authored by PRUVOST Florent's avatar PRUVOST Florent
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fix docs -> doc, update ChangeLog

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...@@ -6,6 +6,7 @@ chameleon-1.0.0 ...@@ -6,6 +6,7 @@ chameleon-1.0.0
- Add First stage algorithm fo r the SVD/EVD solvers - Add First stage algorithm fo r the SVD/EVD solvers
- add timing drivers time_zpotrs_tile and time_zgeqrs_tile - add timing drivers time_zpotrs_tile and time_zgeqrs_tile
- deactivate warmup by default - deactivate warmup by default
- add an orgmode user guide documentation, see in doc/orgmode/
chameleon-0.9.1 chameleon-0.9.1
------------------------------------------------------------------------ ------------------------------------------------------------------------
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INSTALL.org deleted 100644 → 0
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#+TITLE: A quick installation guide
#+LANGUAGE: en
#+OPTIONS: H:3 num:t \n:nil @:t ::t |:t _:nil ^:nil -:t f:t *:t <:t
#+OPTIONS: TeX:t LaTeX:t skip:nil d:nil pri:nil tags:not-in-toc html-style:nil
This is a brief discussion about Chameleon installation and usage.
For more information, please read the document users_guide.
Chameleon is written in C, it provides an interface to be called from
Fortran and depends on a couple of external libraries that must be
installed on the system.
* Chameleon prerequisites
To install Chameleon's libraries, header files, and executables, one
needs:
- CMake (version 2.8 minimum): the build system
- C and Fortran compilers: GNU compiler suite, Clang, Intel or IBM
can be used
- python: to generate files in the different precisions
- external libraries: this depends on the configuration, by default
the required libraries are
- StarPU: http://runtime.bordeaux.inria.fr/StarPU/
- CBLAS, LAPACKE: these are interfaces and there exist several
providers that can be used with Chameleon
- Intel MKL, Netlib, OpenBlas
- BLAS, LAPACK, TMGLIB: there exist several providers that can be
used with Chameleon
- Eigen, Intel MKL, Netlib, OpenBlas
- pthread (libpthread)
- math (libm)
Optional libraries:
- quark: http://icl.cs.utk.edu/quark/
- cuda: https://developer.nvidia.com/cuda-downloads
- cublas: comes with cuda http://docs.nvidia.com/cuda/cublas/
- mpi: openmpi http://www.open-mpi.org/
These packages must be installed on the system before trying to
configure/build chameleon. Please look at the distrib/ directory
which gives some hints for the installation of dependencies for Unix
systems.
We give here some examples for a Debian system:
#+begin_src
# Update Debian packages list
sudo apt-get update
# Install Netlib blas, lapack, tmglib, cblas and lapacke suite
sudo apt-get install -y liblapack-dev liblapacke-dev
# Alernatively to Netlib, OpenBLAS could be used (faster kernels)
sudo apt-get install -y libopenblas-dev liblapacke-dev
# Install OpenMPI
sudo apt-get install -y libopenmpi-dev
# Install hwloc (used by StarPU or QUARK, already a dependency of OpenMPI)
sudo apt-get install -y libhwloc-dev
# install FxT, usefull to export some nice execution traces with StarPU
sudo apt-get install -y libfxt-dev
# Install cuda and cuBLAS : only if you have a GPU cuda compatible
sudo apt-get install -y nvidia-cuda-toolkit nvidia-cuda-dev
# Install StarPU (with MPI and FxT enabled)
mkdir -p $HOME/install
cd $HOME/install
wget http://starpu.gforge.inria.fr/files/starpu-1.2.2/starpu-1.2.2.tar.gz
tar xvzf starpu-1.2.2.tar.gz
cd starpu-1.2.2/
./configure --prefix=$HOME/install/starpu --disable-opencl --disable-cuda --with-fxt=/usr/lib/x86_64-linux-gnu/
make
make install
cd $HOME/install
rm starpu-1.2.2/ starpu-1.2.2.tar.gz -rf
# Install QUARK : to be used in place of StarPU
mkdir -p $HOME/install
cd $HOME/install
wget http://icl.cs.utk.edu/projectsfiles/quark/pubs/quark-0.9.0.tgz
tar xvzf quark-0.9.0.tgz
cd quark-0.9.0/
sed -i -e "s#prefix=\.\/install#prefix=$HOME/install/quark#g" make.inc
sed -i -e "s#CFLAGS=-O2#CFLAGS=-O2 -fPIC#g" make.inc
make
make install
cd $HOME/install
rm quark-0.9.0/ quark-0.9.0.tgz -rf
#+end_src
** Distribution of Chameleon using Spack
To get support to install a full distribution (Chameleon +
dependencies) we encourage users to use the morse branch of *Spack*.
Please read these documentations:
* [[http://morse.gforge.inria.fr/spack/spack.html][Spack Morse]]
* [[http://morse.gforge.inria.fr/spack/spack.html#orgd5b1afe][Section Chameleon]]
*** Usage example for a simple distribution of Chameleon
#+begin_src sh
git clone https://github.com/solverstack/spack.git
. ./spack/share/spack/setup-env.sh
spack install -v chameleon
# chameleon is installed here:
`spack location -i chameleon`
#+end_src
* Build and install Chameleon with CMake
Compilation of Chameleon libraries and executables are done with
CMake (http://www.cmake.org/). This version has been tested with
CMake 3.5.1 but any version superior to 2.8 should be fine.
Usage: three steps are required to compile and install Chameleon
1. configure :
#+begin_src
cmake path/to/chameleon -DOPTION1= -DOPTION2= ...
# see the "Options" section to get list of options
# see the "Dependencies detection" for details about libraries detection
#+end_src
2. build :
#+begin_src
make
# do not hesitate to use -j[ncores] option to speedup the compilation
#+end_src
3. install (optional) :
#+begin_src
make install
#+end_src
Do not forget to specify the install directory with
*-DCMAKE_INSTALL_PREFIX* at configure
#+begin_example
cmake /home/jdoe/chameleon -DCMAKE_INSTALL_PREFIX=/home/jdoe/install/chameleon
#+end_example
** Dependencies detection
You have different choices to detect dependencies on your system,
either by setting some environment variables containing paths to
the libs and headers or by specifying them directly at cmake
configure. Different cases :
1) detection of dependencies through environment variables:
- LD_LIBRARY_PATH should contain the list of paths where to find
the libraries:
#+begin_src
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:install/path/to/your/lib
#+end_src
- INCLUDE should contain the list of paths where to find the
header files of libraries
#+begin_src
export INCLUDE=$INCLUDE:install/path/to/your/headers
#+end_src
2) detection with user's given paths:
- you can specify the path at cmake configure by invoking ~cmake
path/to/your/CMakeLists.txt -DLIB_DIR=path/to/your/lib~ where
LIB stands for the name of the lib to look for
#+begin_src
cmake path/to/your/CMakeLists.txt -DSTARPU_DIR=path/to/starpudir \
-DCBLAS_DIR= ...
#+end_src
it is also possible to specify headers and library directories
separately
#+begin_src
cmake path/to/your/CMakeLists.txt -DSTARPU_INCDIR=path/to/libstarpu/include/starpu/1.1 \
-DSTARPU_LIBDIR=path/to/libstarpu/lib
#+end_src
- note: BLAS and LAPACK detection can be tedious so that we
provide a verbose mode you can set *-DBLAS_VERBOSE=ON* or
*-DLAPACK_VERBOSE=ON* to activate it
3) using pkg-config for libraries that provide .pc files
- update your *PKG_CONFIG_PATH* to the paths where to find .pc
files of installed external libraries like hwloc, starpu, some
blas/lapack, etc
** Options
You can optionally activate some options at cmake configure (like CUDA, MPI, ...)
invoking ~cmake path/to/your/CMakeLists.txt -DOPTION1= -DOPTION2= ...~
#+begin_src
cmake /home/jdoe/chameleon/ -DCMAKE_BUILD_TYPE=Debug \
-DCMAKE_INSTALL_PREFIX=/home/jdoe/install/ \
-DCHAMELEON_USE_CUDA=ON \
-DCHAMELEON_USE_MPI=ON \
-DBLA_VENDOR=Intel10_64lp \
-DSTARPU_DIR=/home/jdoe/install/starpu-1.2/ \
-DCHAMELEON_ENABLE_TRACING=ON
#+end_src
You can get the full list of options with *-L[A][H]* options of cmake command
#+begin_src
cmake -LH /home/jdoe/chameleon/
#+end_src
You can also set the options thanks to the *ccmake* interface. Some
options (non-exhaustive list):
- Native into CMake:
* *CMAKE_BUILD_TYPE=Debug|Release*
* *CMAKE_INSTALL_PREFIX=path/to/your/install/dir* (where headers,
libraries, executables, etc, will be copied when invoking make
install)
* *BUILD_SHARED_LIBS=ON|OFF*
* *CMAKE_C_COMPILER=gcc|icc|...*
* *CMAKE_Fortran_COMPILER=gfortran|ifort|...*
- Related to specific modules (find_package) to find external
libraries:
* *BLA_VENDOR=Intel10_64lp* (to use intel mkl for example, see the
list of BLA_VENDOR in FindBLAS.cmake in
cmake_modules/morse/find)
* *STARPU_DIR=path/to/root/starpu/install*, see section
"Dependencies detection"
* *STARPU_INCDIR=path/to/root/starpu/install/headers*, see section
"Dependencies detection"
* *STARPU_LIBDIR=path/to/root/starpu/install/libs*, see section
"Dependencies detection"
* List of packages that can searched just like STARPU (with _DIR,
_INCDIR and _LIBDIR):
* *BLAS*, *CBLAS*, *EZTRACE*, *FXT*, *HWLOC*, *LAPACK*, *LAPACKE*, *QUARK*,
*SIMGRID, *TMG*
- Chameleon specific:
* *CHAMELEON_USE_MPI=ON|OFF* (default OFF)
* *CHAMELEON_USE_CUDA=ON|OFF* (default OFF)
* *CHAMELEON_ENABLE_DOCS=ON|OFF* (default OFF)
* *CHAMELEON_ENABLE_EXAMPLE=ON|OFF* (default ON)
* *CHAMELEON_ENABLE_PRUNING_STATS=ON|OFF* (default OFF)
* *CHAMELEON_ENABLE_TESTING=ON|OFF* (default ON)
* *CHAMELEON_ENABLE_TIMING=ON|OFF* (default ON)
* *CHAMELEON_ENABLE_TRACING=ON|OFF* (default OFF)
* *CHAMELEON_SCHED_STARPU=ON|OFF* (default ON)
* *CHAMELEON_SCHED_QUARK=ON|OFF* (default OFF)
* *CHAMELEON_SIMULATION=ON|OFF* (default OFF)
Libraries detected with an official cmake module (see module files
in CMAKE_ROOT/Modules/): CUDA - MPI - Threads
Libraries detected with our cmake modules (see module files in
cmake_modules/morse_cmake/modules/find/ directory of Chameleon
sources): BLAS - CBLAS - EZTRACE - FXT - HWLOC - LAPACK - LAPACKE -
QUARK - SIMGRID - STARPU - TMG
* Use FxT profiling through StarPU
StarPU can generate its own trace log files by compiling it with the
~--with-fxt~ option at the configure step (you can have to specify the
directory where you installed FxT by giving ~--with-fxt=...~ instead
of ~--with-fxt~ alone). By doing so, traces are generated after each
execution of a program which uses StarPU in the directory pointed by
the STARPU_FXT_PREFIX environment variable.
#+begin_example
export STARPU_FXT_PREFIX=/home/jdoe/fxt_files/
#+end_example
When executing a ~./timing/...~ Chameleon program, if it has been
enabled (StarPU compiled with FxT and
*-DCHAMELEON_ENABLE_TRACING=ON*), you can give the option ~--trace~ to
tell the program to generate trace log files.
Finally, to generate the trace file which can be opened with Vite
program (http://vite.gforge.inria.fr/), you can use the
*starpu_fxt_tool* executable of StarPU. This tool should be in
~$STARPU_INSTALL_REPOSITORY/bin~. You can use it to generate the
trace file like this:
#+begin_src
path/to/your/install/starpu/bin/starpu_fxt_tool -i prof_filename
#+end_src
There is one file per mpi processus (prof_filename_0,
prof_filename_1 ...). To generate a trace of mpi programs you can
call it like this:
#+begin_src
path/to/your/install/starpu/bin/starpu_fxt_tool -i prof_filename*
#+end_src
The trace file will be named paje.trace (use -o option to specify an
output name). Alternatively, for non mpi execution (only one
processus and profiling file), you can set the environment variable
*STARPU_GENERATE_TRACE=1* to automatically generate the paje trace
file.
* Use simulation mode with StarPU-SimGrid
Simulation mode can be activated by setting the cmake option
CHAMELEON_SIMULATION to ON. This mode allows you to simulate
execution of algorithms with StarPU compiled with SimGrid
(http://simgrid.gforge.inria.fr/). To do so, we provide some
perfmodels in the simucore/perfmodels/ directory of Chameleon
sources. To use these perfmodels, please set your *STARPU_HOME*
environment variable to
~path/to/your/chameleon_sources/simucore/perfmodels~. Finally, you
need to set your *STARPU_HOSTNAME* environment variable to the name of
the machine to simulate. For example: *STARPU_HOSTNAME=mirage*. Note
that only POTRF kernels with block sizes of 320 or 960 (simple and
double precision) on mirage and sirocco machines are available for
now. Database of models is subject to change.
README.org
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...@@ -43,7 +43,6 @@ dedicated to dense linear algebra. ...@@ -43,7 +43,6 @@ dedicated to dense linear algebra.
now. Future releases will be available on this gitlab project. now. Future releases will be available on this gitlab project.
* Documentation * Documentation
** User guide ** User guide
The user guide is available directly in the sources as emacs The user guide is available directly in the sources as emacs
orgmode files, see : orgmode files, see :
...@@ -51,6 +50,13 @@ dedicated to dense linear algebra. ...@@ -51,6 +50,13 @@ dedicated to dense linear algebra.
2) [[file:doc/orgmode/chapters/installing.org][Installing]] 2) [[file:doc/orgmode/chapters/installing.org][Installing]]
3) [[file:doc/orgmode/chapters/using.org][Using]] 3) [[file:doc/orgmode/chapters/using.org][Using]]
This documentation could also be generated in html and/or pdf :
#+begin_src
# build the doc with cmake (emacs with orgmode and latex are required), e.g.
cmake .. -DCHAMELEON_ENABLE_DOC=ON
make doc
#+end_src
** Source code documentation (doxygen) ** Source code documentation (doxygen)
There is no up-to-date documentation of Chameleon. We would like to There is no up-to-date documentation of Chameleon. We would like to
provide a doxygen documentation hosted on [[https://about.gitlab.com/2016/04/07/gitlab-pages-setup/][gitlab]] in the provide a doxygen documentation hosted on [[https://about.gitlab.com/2016/04/07/gitlab-pages-setup/][gitlab]] in the
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READMEDEV.org
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...@@ -28,7 +28,6 @@ developers must follow and that should be read by contributors. ...@@ -28,7 +28,6 @@ developers must follow and that should be read by contributors.
* Documentation * Documentation
<<sec:doc>> <<sec:doc>>
** Generate the documentation ** Generate the documentation
*** Prerequisites *** Prerequisites
To generate the documentation you need to have [[http://www.stack.nl/~dimitri/doxygen/][Doxygen]] and To generate the documentation you need to have [[http://www.stack.nl/~dimitri/doxygen/][Doxygen]] and
...@@ -36,25 +35,25 @@ developers must follow and that should be read by contributors. ...@@ -36,25 +35,25 @@ developers must follow and that should be read by contributors.
For example, on Debian systems: For example, on Debian systems:
#+begin_src sh #+begin_src sh
sudo apt install doxygen texinfo sudo apt install doxygen texinfo texlive texlive-latex-extra emacs
#+end_src #+end_src
*** configure + make documentation *** configure + make documentation
Enter into the Chameleon's source root directory and configure Enter into the Chameleon's source root directory and configure
with *CHAMELEON_ENABLE_DOCS=ON*, then generate the documentation with *CHAMELEON_ENABLE_DOC=ON*, then generate the documentation
with ~make docs~ with ~make doc~
#+begin_src sh #+begin_src sh
cd chameleon cd chameleon
mkdir build && cd build mkdir build && cd build
cmake .. -DCHAMELEON_ENABLE_DOCS=ON cmake .. -DCHAMELEON_ENABLE_DOC=ON
make docs make doc
#+end_src #+end_src
** Rules about source code documentation ** Rules about source code documentation
Please refer to this file for the documentation guidelines [[file:docs/doxygen/README.org][README]]. Please refer to this file for the documentation guidelines [[file:doc/doxygen/README.org][README]].
* Naming and writting conventions * Naming and writting conventions
...@@ -83,8 +82,10 @@ developers must follow and that should be read by contributors. ...@@ -83,8 +82,10 @@ developers must follow and that should be read by contributors.
#+begin_src sh #+begin_src sh
export CHAMELEON_ROOT=/path/to/chameleon/sources/to/be/released export CHAMELEON_ROOT=/path/to/chameleon/sources/to/be/released
cmake $CHAMELEON_ROOT -DCHAMELEON_ENABLE_DOCS=ON cmake $CHAMELEON_ROOT -DCHAMELEON_ENABLE_DOC=ON
make docs && cp docs/texinfo/users_guide.pdf $CHAMELEON_ROOT && make package_source make doc
cp doc/orgmode/users_guide.pdf $CHAMELEON_ROOT
make package_source
#+end_src #+end_src
A tarball chameleon-major.minor.patch.tar.gz should be generated A tarball chameleon-major.minor.patch.tar.gz should be generated
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