Merge pull request #28 from Kelvinrr/conda

name: isisdeps

channels:

- anaconda

- inria-pro-sed

- krodriguez

- conda-forge

- usgs-astrogeology

- defaults

dependencies:

- libgcc=4.8.5=1

- blas=1.1=openblas

- boost=1.65.1=py27_0

- boost-cpp=1.65.1=1

- bzip2=1.0.6=1

- ca-certificates=2018.1.18=0

- cairo=1.14.6=4

- certifi=2018.1.18=py27_0

- cmake=3.9.1=0

- cspice=66=0

- curl=7.55.1=0

- dbus=1.10.22=0

- doxygen=1.8.14=0

- eigen=3.3.3=0

- expat=2.2.5=0

- ffmpeg=3.2.4=3

- flann=1.8.4=0

- fontconfig=2.12.1=4

- freetype=2.7=1

- geos=3.5.1=1

- geotiff=1.4.2=1

- gettext=0.19.8.1=0

- giflib=5.1.4=0

- glib=2.51.4=0

- gsl=2.2.1=blas_openblas_3

- harfbuzz=1.3.4=2

- hdf5=1.8.18=3

- icu=58.2=0

- jasper=1.900.1=4

- jpeg=9b=2

- krb5=1.14.2=0

- lapack=3.6.1=1

- libffi=3.2.1=3

- libgfortran=3.0.0=0

- libiconv=1.15=0

- libpng=1.6.28=2

- libssh2=1.8.0=2

- libtiff=4.0.9=0

- libuv=1.11.0=0

- libwebp=0.5.2=7

- libxcb=1.12=1

- libxml2=2.9.7=0

- m4=1.4.17=1

- metis=5.1.0=3

- nanoflann=1.2.2=0

- ncurses=5.9=10

- ninja=1.7.2=0

- nn=1.86.0=2

- numpy=1.13.3=py27_blas_openblas_200

- openblas=0.2.19=2

- opencv=3.3.0=py27_blas_openblas_200

- openssl=1.0.2n=0

- pcre=8.39=0

- pip=9.0.1=py27_1

- pixman=0.34.0=1

- proj4=4.9.3=5

- protobuf=3.2.0=py27_0

- python=2.7.14=4

- qt=5.6.2=h9e3eb04_4

- qwt=6.1.3=1

- readline=7.0=0

- rhash=1.3.4=0

- setuptools=38.5.1=py27_0

- six=1.11.0=py27_1

- sqlite=3.20.1=2

- suitesparse=4.5.4=blas_openblas_200

- superlu=5.2.1=blas_openblas_201

- tk=8.6.7=0

- wheel=0.30.0=py27_2

- x264=20131217=3

- xorg-kbproto=1.0.7=1

- xorg-libx11=1.6.4=6

- xorg-libxau=1.0.8=3

- xorg-libxdmcp=1.1.2=3

- xorg-xproto=7.0.31=6

- xz=5.2.3=0

- zlib=1.2.11=0

- openmpi=1.8.6=4

- parmetis=4.0.3p2=1

- jama=125=0

- tnt=126=0

- bullet=2.86.1=he2aa7b0_0

- ds9=7.5=h35e3669_0

- embree=2.16.0=h6834224_0

- gmm=5.0=h6aef312_0

- naif=n0066

- patchelf=0.9=h879b6ae_0

- pcl=1.8.1=h7a71350_0

- qhull=7.2.0=h396fa31_0

- tbb=4.4=hf7780a4_0

- vtk=7.1.1=py27h56fd973_0

- xalan-c=1.11=h1922a5c_0

- xerces-c=3.1.4=h10f7eb2_0

prefix: /Users/krodriguez-pr/anaconda3/envs/isisdeps

  message(WARNING "Isis3TestData directory ${isis3TestData} not found, application and module tests will fail.")

endif()

#if(EXISTS ${CMAKE_INSTALL_PREFIX})

#  set(ENV{CMAKE_INSTALL_PREFIX} "${CMAKE_INSTALL_PREFIX}")

#  message("Using INSTALL PREFIX = $ENV{CMAKE_INSTALL_PREFIX}")

#else()

#  message(WARNING "Isis3TestData directory ${CMAKE_INSTALL_PREFIX} not found, application and module tests will fail.")

#endif()

if(develop)

endif()

if(${testOutputDir} STREQUAL "OFF")

  message("Writing test data folders to = ${CMAKE_BINARY_DIR}/testOutputDir")

  # Have the app install with the real name, not the internal name.

  target_link_libraries(${internalAppName} ${libDependencies})

  set_target_properties(${internalAppName} PROPERTIES OUTPUT_NAME ${appName})

  install(TARGETS ${internalAppName} DESTINATION bin)

#===============================================================================

#==============================================================================

# High level script to handle all required 3rd party dependencies

# - All of them are expected to be in the 3rdParty folder, this script does not

#   go looking for them if they are not?

#===============================================================================

message("CONDA PREFIX: $ENV{CONDA_PREFIX}")

list(APPEND CMAKE_FIND_ROOT_PATH $ENV{CONDA_PREFIX} $ENV{CONDA_PREFIX}/lib/cmake/Qt5)

# Add search USGS maintained libraries

list(APPEND CMAKE_INCLUDE_PATH

  /usgs/pkgs/local/v007/include/

  /usgs/pkgs/local/v007/bin/

  /usgs/pkgs/local/v007/lib/

  /usgs/pkgs/local/v007/objects/

  /usgs/pkgs/local/v007/include/google-protobuf/protobuf2.6.1/

  /usgs/pkgs/local/v007/include/xercesc/xercesc-3.1.2/

  /usgs/pkgs/local/v007/include/tiff/tiff-4.0.5/

  /usgs/pkgs/local/v007/include/googleprotobuf/protobuf2.6.1/

  /usgs/pkgs/local/v007/include/xercesc/xercesc3.1.2/

  /usgs/pkgs/local/v007/include/tiff/tiff4.0.5/

  /usr/lib64/

)

  /usr/local/lib/

)

# Specify top level directories

set(thirdPartyDir "/usgs/pkgs/local/v007")

set(INCLUDE_DIR "${thirdPartyDir}/include")

set(LIB_DIR     "${thirdPartyDir}/lib")

set(PLUGIN_DIR  "${thirdPartyDir}/plugins")

set(BIN_DIR     "${thirdPartyDir}/bin")

set(LIC_DIR     "${thirdPartyDir}/license")

# Set up plugin dir for OSX to correctly find qt5 plugins for installing

if(APPLE)

  set(thirdPartyDir "/opt/usgs/v007")

  set(PLUGIN_DIR "${thirdPartyDir}/ports/libexec/qt5/plugins")

endif(APPLE)

# Add thirdPartyCppFlags

set(thirdPartyCppFlags ${thirdPartyCppFlags} -DGMM_USES_SUPERLU)

set(thirdPartyCppFlags ${thirdPartyCppFlags} "-DENABLEJP2K=${JP2KFLAG}")

# Flag to fix numeric literals problem with boost on linux

if(NOT APPLE)

  set(thirdPartyCppFlags ${thirdPartyCppFlags} -fext-numeric-literals )

endif()

# Paths to required executables

find_program(XALAN Xalan REQUIRED)

find_program(LATEX latex)

find_program(RCC rcc REQUIRED)

find_program(PROTOC protoc REQUIRED)

# message(STATUS "${CMAKE_PREFIX_PATH}")

include(FindProtobuf)

if(APPLE)

  find_package(OpenGL            REQUIRED)

  find_package(Qt5 COMPONENTS

                  Core

                  Concurrent

                  DBus

                  # DBus

                  Gui

                  Multimedia

                  MultimediaWidgets

                  Network

                  OpenGL # Needed to install mesa-common-dev for this!

                  Positioning

                  # Positioning

                  PrintSupport

                  Qml

                  Quick

                  Script

                  ScriptTools

                  Sensors

                  # Sensors

                  Sql

                  Svg

                  Test

                  WebChannel

                  WebEngine

                  WebEngineWidgets

                  #WebKit

                  #WebKitWidgets

                  Widgets

                  Xml

                  XmlPatterns REQUIRED)

  find_library(QT5_XMLPATTERNS_LIBRARY           NAMES Qt5XmlPatterns)

endif(APPLE)

# Some of these will have non-traditional installs with version numbers in the paths in v007

# For these, we pass in a version number, and use it in the path suffix

# This only applies to v007, and outside of the building, we should only expect standard installs

find_package(TNT       126     REQUIRED) # TNT version is 1.2.6, but v007 directory is "tnt/tnt126/"

find_package(XercesC   3.1.2   REQUIRED) # "xercesc/xercesc-${XercesC_FIND_VERSION}/"

find_package(X11       6       REQUIRED)

find_package(nanoflann         REQUIRED)

find_package(PNG               REQUIRED)

find_package(Kakadu)

# Im this case, we specify the version numbers being searched for in the non-traditional installs.

if(APPLE)

  find_package(Geos    3.5.0   REQUIRED)

  find_package(OpenGL            REQUIRED)

else(APPLE)

  find_package(Geos    3.5.1   REQUIRED)

endif(APPLE)

      list(APPEND ALLINCDIRS "${${_variableName}}")

    endif(_variableName MATCHES ".+_INCLUDE_DIR$")

endforeach()

list(APPEND ALLINCDIRS "/opt/usgs/v007/ports/include/" "/opt/usgs/v007/3rdParty/include/")

foreach (_variableName ${_variableNames})

    if (_variableName MATCHES "^CMAKE+")

list(REMOVE_DUPLICATES ALLLIBS)

list(REMOVE_DUPLICATES ALLINCDIRS)

# message(STATUS "ALL LIBS DIRS: ${ALLLIBDIRS}")

# message(STATUS "ALL LIBS: ${ALLLIBS}")

# message(STATUS "ALL INCS: ${ALLINCDIRS}")

#---------------------------------------------------------------------------

#  Define the third party distribution libraries (patterns)

#---------------------------------------------------------------------------

# On OSX we need to include a LOT of extra libraries!

set(EXTRA_DYNAMIC_LIBS)

if(APPLE)

  set(extras

    # QT dependencies

    libpcre16*.dylib

    libgthread-*.dylib

    libpcre.*dylib

    libharfbuzz*.dylib

    libgraphite2.*dylib

    libleveldb*.dylib*

    libsnappy.*dylib

    libwebp*.dylib

    libdbus*.dylib

    libiconv*.dylib

    liblzma*.dylib

    libz*.dylib

    libssl*.dylib

    libcrypto*.dylib

    libpng*.dylib

    libjpeg.*dylib

    libmng.*dylib

    liblcms2.*dylib

    libsqlite3.*dylib

    postgresql*/libpq.*dylib

    mysql56/mysql/libmysqlclient*.dylib

    libiodbc*.dylib

    # OpenCV dependancies

    libtbb*.dylib

    libjasper*.dylib

    libImath*.dylib

    libIlmImf*.dylib

    libIex*.dylib

    libHalf*.dylib

    libIlmThread*.dylib

    libswscale*.dylib

    # Secondary requirements to all OpenCV dependancies

    libSDL-1*.dylib

    libnettle*.dylib

    libhogweed*.dylib

    libgmp*.dylib

    libxvidcore*.dylib

    libx264*.dylib

    libvorbisenc*.dylib

    libvorbis*.dylib

    libogg*.dylib

    libtheoraenc*.dylib

    libtheoradec*.dylib

    libspeex*.dylib

    libschroedinger-1*.dylib

    libopus*.dylib

    libopenjpeg*.dylib

    libmp3lame*.dylib

    libmodplug*.dylib

    libfreetype*.dylib

    libbluray*.dylib

    libass*.dylib

    libgnutls*.dylib

    libbz2*.dylib

    libXrandr*.dylib

    libXext*.dylib

    libXrender*.dylib

    libX11*.dylib

    libxcb*.dylib

    libXau*.dylib

    libXdmcp*.dylib

    liborc-0*.dylib

    libxml2*.dylib

    libfribidi*.dylib

    libfontconfig*.dylib

    libexpat*.dylib

    libintl*.dylib

    libglib-*.dylib

    libp11-kit*.dylib

    libffi*.dylib

    # OpenCV3 dependencies

    libavresample*.dylib

    libxcb-shm*.dylib

    libsoxr*.dylib

    libopenjp2*.dylib

    libOpenNI*.dylib

    libswresample*.dylib

    libidn*.dylib

    libtasn1*.dylib

    libusb*.dylib

    # libxerces-c depends on these libraries

    libicui18n*.dylib

    libicuuc*.dylib

    libicudata*.dylib

    # libgeotiff depends on these libraries

    libproj*.dylib)

else() # Linux

  set(extras libtbb.so*)

endif()

set(EXTRALIBDIR ${LIB_DIR})

foreach(lib ${extras})

  set(EXTRA_DYNAMIC_LIBS ${EXTRA_DYNAMIC_LIBS} ${EXTRALIBDIR}/${lib})

endforeach()

# message("EXTRA_DYNAMIC_LIBS = ${EXTRA_DYNAMIC_LIBS}")

#  Libraries

set(THIRDPARTYLIBS)

set(RAW_DYNAMIC_LIBS ${QT_DYNAMIC_LIBS}

                     ${QWT_DYNAMIC_LIBS}

                     ${XERCES_DYNAMIC_LIBS}

                     ${GEOTIFF_DYNAMIC_LIBS}

                     ${HDF5_DYNAMIC_LIBS}

                     ${TIFF_DYNAMIC_LIBS}

                     ${NAIF_DYNAMIC_LIBS}

                     ${GEOS_DYNAMIC_LIBS}

                     ${GSL_DYNAMIC_LIBS}

                     ${SUPERLU_DYNAMIC_LIBS}

                     ${PROTOBUF_DYNAMIC_LIBS}

                     ${KAKADU_DYNAMIC_LIBS} # Empty if not available

                     ${CHOLMOD_DYNAMIC_LIBS}

                     ${OPENCV_DYNAMIC_LIBS}

                     ${EXTRA_DYNAMIC_LIBS})

# message("THIRDPARTYLIBS = ${RAW_DYNAMIC_LIBS}")

# For each item in this list, expand the wildcard to get the actual library list.

foreach(lib ${RAW_DYNAMIC_LIBS})

  string(FIND "${lib}" "*" position)

  if(${position} EQUAL -1)

    # No wildcard, just add it.

    set(THIRDPARTYLIBS ${THIRDPARTYLIBS} ${lib})

  else()

    # Expand wildcard, then add.

    file(GLOB expandedLibs ${lib})

    set(THIRDPARTYLIBS ${THIRDPARTYLIBS} ${expandedLibs})

  endif()

endforeach()

# message("THIRDPARTYLIBS = ${THIRDPARTYLIBS}")

# Plugins

file(GLOB_RECURSE THIRDPARTYPLUGINS "${PLUGIN_DIR}/*${SO}")

file(GLOB THIRDPARTYPLUGINFOLDERS "${PLUGIN_DIR}/*")

# message("third party libs = ${THIRDPARTYLIBS}")

# message("third party plugins = ${THIRDPARTYPLUGINS}")

# message("third party plugins folders = ${THIRDPARTYPLUGINFOLDERS}")

  NAMES boost_wave-mt boost_wave

)

#tjw:  not being linked against by ISIS presently

#find_library(BOOST_LOCAL_MT_LIBRARY

#  NAMES boost_locale-mt boost_locale

#)

find_library(BOOST_RANDOM_MT_LIBRARY

  NAMES boost_random-mt boost_random

)