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= !!! UNDER CONSTRUCTION !!! = = Anaconda based Build, All Platforms =
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= All platforms =

The following instructions will work with cmake changes introduced in https://github.com/cryoem/eman2/pull/65.		 Note that even with a source build it may be difficult to get this working on systems with very old operating system installs. We normally try to support OS versions 6-7 years old. Please report any problems.
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 1. Download and install Anaconda/Miniconda (:TODO: links).  1. Download and install [[https://www.continuum.io/downloads | Anaconda2]] or [[https://conda.io/miniconda.html | Miniconda2]].
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 1. Checkout EMAN2 code from GitHub, (link here). {{{  1. Checkout EMAN2 code from [[https://github.com/cryoem/eman2 | GitHub:cryoem/eman2]]. {{{
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 1. Install dependencies ('''Work-In-Progress''')
   1. `eman.yaml`
   1. meta-package		  1. Install dependencies. Follow only one of the steps below:
   a. This option installs Anaconda and sets up a specific environment for EMAN2. It requires running the second command in each shell before trying to run EMAN2/SPARX/SPHIRE commands. {{{
conda create -n eman-env eman-deps -c cryoem -c defaults -c conda-forge
source activate eman-env
}}}
   a. This option is easier, and doesn't use an environment, but may be broken (July 2017) due to recent Qt changes in Anaconda {{{
conda install eman-deps -c cryoem -c defaults -c conda-forge # Mac OSX
conda install eman-deps=*=np18* -c cryoem -c defaults -c conda-forge # Linux
}}} Listing the channels explicitly can be avoided by specifying them in $HOME/.condarc, see conda documentation for more details, https://conda.io/docs/using/index.html.
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 1. Optionally, activate an existing conda environment, i.e. `source activate eman-env`.

 1. Out-of-source builds are recommended, so work in a directory outside of eman2 source. {{{		  1. Out-of-source builds are recommended, so work in a directory outside of eman2 source (this is a recommended practice in general, not EMAN2-specific). Note '''cmake''', not '''--( ccmake )--'''. CMake will automatically find the dependencies. If you want to change any of the CMake values, then use '''cmake-gui''' or '''ccmake'''. {{{
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make -j }}}
 1. If conda is not found in PATH, set CONDA_ROOT to your conda environment directory. It could be the main installation or an environment.
 1. If you set CONDA_ROOT to an environment, make sure to delete any cmake variables that cmake already found, variables like EMAN_INSTALL_PREFIX, EMAN_PREFIX, *_LIBRARY or similar, *_INCLUDE_PATH or similar.
 1. Rerun cmake and continue with make. {{{
cmake <some-path-to-keep-eman2-source>
make -j # "make" should pick up the number of available processors,
make -j4 # but you may specify the number if you like
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# == Linux ==


== Windows ==

Anaconda based Build, All Platforms

Note that even with a source build it may be difficult to get this working on systems with very old operating system installs. We normally try to support OS versions 6-7 years old. Please report any problems.

Mac OS X, Linux

  1. Download and install Anaconda2 or Miniconda2.

  2. Checkout EMAN2 code from GitHub:cryoem/eman2. 

    cd <some-path-to-keep-eman2-source>
git clone https://github.com/cryoem/eman2.git
  3. Install dependencies. Follow only one of the steps below:

    1. This option installs Anaconda and sets up a specific environment for EMAN2. It requires running the second command in each shell before trying to run EMAN2/SPARX/SPHIRE commands. 

      conda create -n eman-env eman-deps -c cryoem -c defaults -c conda-forge
source activate eman-env

    2. This option is easier, and doesn't use an environment, but may be broken (July 2017) due to recent Qt changes in Anaconda 

      conda install eman-deps -c cryoem -c defaults -c conda-forge          # Mac OSX
conda install eman-deps=*=np18* -c cryoem -c defaults -c conda-forge  # Linux

      Listing the channels explicitly can be avoided by specifying them in $HOME/.condarc, see conda documentation for more details, https://conda.io/docs/using/index.html.

  4. Out-of-source builds are recommended, so work in a directory outside of eman2 source (this is a recommended practice in general, not EMAN2-specific). Note cmake, not ccmake . CMake will automatically find the dependencies. If you want to change any of the CMake values, then use cmake-gui or ccmake. 

    cd <build-directory>
cmake <some-path-to-keep-eman2-source>
  5. If conda is not found in PATH, set CONDA_ROOT to your conda environment directory. It could be the main installation or an environment.
  6. If you set CONDA_ROOT to an environment, make sure to delete any cmake variables that cmake already found, variables like EMAN_INSTALL_PREFIX, EMAN_PREFIX, *_LIBRARY or similar, *_INCLUDE_PATH or similar.

  7. Rerun cmake and continue with make. 

    cmake <some-path-to-keep-eman2-source>
make -j           # "make" should pick up the number of available processors,
make -j4          # but you may specify the number if you like
make install

EMAN2/COMPILE_EMAN2_ANACONDA-PRE-CONDA-ENVIRONMENTS (last edited 2019-11-01 14:27:54 by TunayDurmaz)