Hi Guys

I have officially put the therion brew into the science project

brew install homebrew/science/therion

For now therion still needs VTK5. While by default it tries to install VTK6.

best
Chris

On 31 Jan 2015, at 14:08, Yones Shariatmadari <yonessh2@gmail.com> wrote:

Hi  Friends
thank you for your interest my friends.
but i have an error in installing therion.

i use mac os 10.10.1 !

type the following brew in terminal :


the result is :

Macs-MacBook-Pro:~ yonesshariatmadari$ brew install https://raw.githubusercontent.com/ladislavb/homebrew-science/master/therion.rb 
######################################################################## 100.0%
Warning: You have an outdated version of /usr/bin/install_name_tool installed.
This will cause binary package installations to fail.
This can happen if you install osx-gcc-installer or RailsInstaller.
To restore it, you must reinstall OS X or restore the binary from
the OS packages.
==> Installing dependencies for therion: libpng, freetype, libtool, jpeg, xz, imagemagick, lcdf-typetools, boost, fontconfig, szip, hdf5, libtiff, vtk, wxmac
==> Installing therion dependency: libpng
######################################################################## 100.0%
==> Pouring libpng-1.6.16.yosemite.bottle.tar.gz
/usr/bin/install_name_tool: object: /usr/local/Cellar/libpng/1.6.16/bin/pngfix malformed object (unknown load command 9)
Error: Failed to fix install names
The formula built, but you may encounter issues using it or linking other
formula against it.
==> Summary
๐Ÿบ  /usr/local/Cellar/libpng/1.6.16: 17 files, 1.3M
==> Installing therion dependency: freetype
######################################################################## 100.0%
==> Pouring freetype-2.5.5.yosemite.bottle.tar.gz
/usr/bin/install_name_tool: object: /usr/local/Cellar/freetype/2.5.5/lib/libfreetype.6.dylib malformed object (unknown load command 8)
Error: Failed to fix install names
The formula built, but you may encounter issues using it or linking other
formula against it.
==> Summary
๐Ÿบ  /usr/local/Cellar/freetype/2.5.5: 60 files, 2.6M
==> Installing therion dependency: libtool
######################################################################## 100.0%
==> Pouring libtool-2.4.5.yosemite.bottle.tar.gz
==> Caveats
In order to prevent conflicts with Apple's own libtool we have prepended a "g"
so, you have instead: glibtool and glibtoolize.
/usr/bin/install_name_tool: object: /usr/local/Cellar/libtool/2.4.5/lib/libltdl.7.dylib malformed object (unknown load command 8)
Error: Failed to fix install names
The formula built, but you may encounter issues using it or linking other
formula against it.
==> Summary
๐Ÿบ  /usr/local/Cellar/libtool/2.4.5: 69 files, 3.8M
==> Installing therion dependency: jpeg
######################################################################## 100.0%
==> Pouring jpeg-8d.yosemite.bottle.2.tar.gz
/usr/bin/install_name_tool: object: /usr/local/Cellar/jpeg/8d/bin/cjpeg malformed object (unknown load command 9)
Error: Failed to fix install names
The formula built, but you may encounter issues using it or linking other
formula against it.
==> Summary
๐Ÿบ  /usr/local/Cellar/jpeg/8d: 18 files, 776K
==> Installing therion dependency: xz
######################################################################## 100.0%
==> Pouring xz-5.2.0.yosemite.bottle.tar.gz
/usr/bin/install_name_tool: object: /usr/local/Cellar/xz/5.2.0/bin/lzmadec malformed object (unknown load command 9)
Error: Failed to fix install names
The formula built, but you may encounter issues using it or linking other
formula against it.
==> Summary
๐Ÿบ  /usr/local/Cellar/xz/5.2.0: 59 files, 1.7M
==> Installing therion dependency: imagemagick
######################################################################## 100.0%
==> Pouring imagemagick-6.9.0-3.yosemite.bottle.tar.gz
/usr/bin/install_name_tool: object: /usr/local/Cellar/imagemagick/6.9.0-3/bin/animate malformed object (unknown load command 9)
Error: Failed to fix install names
The formula built, but you may encounter issues using it or linking other
formula against it.
==> Summary
๐Ÿบ  /usr/local/Cellar/imagemagick/6.9.0-3: 1440 files, 22M
==> Installing therion dependency: lcdf-typetools
couldn't understand kern.osversion `14.0.0'
######################################################################## 100.0%
==> ./configure --prefix=/usr/local/Cellar/lcdf-typetools/2.104 --without-kpathsea
==> make install
๐Ÿบ  /usr/local/Cellar/lcdf-typetools/2.104: 29 files, 4.3M, built in 5.5 minutes
==> Installing therion dependency: boost
######################################################################## 100.0%
==> Pouring boost-1.57.0.yosemite.bottle.tar.gz
/usr/bin/install_name_tool: object: /usr/local/Cellar/boost/1.57.0/lib/libboost_atomic-mt.dylib malformed object (unknown load command 8)
Error: Failed to fix install names
The formula built, but you may encounter issues using it or linking other
formula against it.
==> Summary
๐Ÿบ  /usr/local/Cellar/boost/1.57.0: 10572 files, 439M
==> Installing therion dependency: fontconfig
######################################################################## 100.0%
==> Pouring fontconfig-2.11.1.yosemite.bottle.3.tar.gz
/usr/bin/install_name_tool: object: /usr/local/Cellar/fontconfig/2.11.1/bin/fc-cache malformed object (unknown load command 9)
Error: Failed to fix install names
The formula built, but you may encounter issues using it or linking other
formula against it.
==> /usr/local/Cellar/fontconfig/2.11.1/bin/fc-cache -frv




^\Warning: The post-install step did not complete successfully
You can try again using `brew postinstall fontconfig`
==> Summary
๐Ÿบ  /usr/local/Cellar/fontconfig/2.11.1: 448 files, 3.6M
==> Installing therion dependency: szip
couldn't understand kern.osversion `14.0.0'
######################################################################## 100.0%
==> ./configure --prefix=/usr/local/Cellar/szip/2.1
==> make install
๐Ÿบ  /usr/local/Cellar/szip/2.1: 9 files, 132K, built in 28 seconds
==> Installing therion dependency: hdf5
######################################################################## 100.0%
==> Pouring hdf5-1.8.14.yosemite.bottle.tar.gz
/usr/bin/install_name_tool: object: /usr/local/Cellar/hdf5/1.8.14/bin/gif2h5 malformed object (unknown load command 9)
Error: Failed to fix install names
The formula built, but you may encounter issues using it or linking other
formula against it.
==> Summary
๐Ÿบ  /usr/local/Cellar/hdf5/1.8.14: 118 files, 9.9M
==> Installing therion dependency: libtiff
######################################################################## 100.0%
==> Pouring libtiff-4.0.3.yosemite.bottle.tar.gz
/usr/bin/install_name_tool: object: /usr/local/Cellar/libtiff/4.0.3/bin/bmp2tiff malformed object (unknown load command 9)
Error: Failed to fix install names
The formula built, but you may encounter issues using it or linking other
formula against it.
==> Summary
๐Ÿบ  /usr/local/Cellar/libtiff/4.0.3: 254 files, 3.8M
==> Installing therion dependency: vtk
######################################################################## 100.0%
==> Pouring vtk-6.1.0_1.yosemite.bottle.tar.gz
==> Caveats
Even without the --with-qt option, you can display native VTK render windows
from python. Alternatively, you can integrate the RenderWindowInteractor
in PyQt, PySide, Tk or Wx at runtime. Read more:
    import vtk.qt4; help(vtk.qt4) or import vtk.wx; help(vtk.wx)


Python modules have been installed and Homebrew's site-packages is not
in your Python sys.path, so you will not be able to import the modules
this formula installed. If you plan to develop with these modules,
please run:
  mkdir -p /Users/yonesshariatmadari/Library/Python/2.7/lib/python/site-packages
  echo 'import site; site.addsitedir("/usr/local/lib/python2.7/site-packages")' >> /Users/yonesshariatmadari/Library/Python/2.7/lib/python/site-packages/homebrew.pth
/usr/bin/install_name_tool: object: /usr/local/Cellar/vtk/6.1.0_1/bin/vtkHashSource-6.1 malformed object (unknown load command 9)
Error: Failed to fix install names
The formula built, but you may encounter issues using it or linking other
formula against it.
==> Summary
๐Ÿบ  /usr/local/Cellar/vtk/6.1.0_1: 3005 files, 123M
==> Installing therion dependency: wxmac
######################################################################## 100.0%
==> Pouring wxmac-3.0.2.yosemite.bottle.9.tar.gz
/usr/bin/install_name_tool: for architecture i386 object: /usr/local/Cellar/wxmac/3.0.2/bin/wxrc-3.0 malformed object (unknown load command 9)
Error: Failed to fix install names
The formula built, but you may encounter issues using it or linking other
formula against it.
==> Summary
๐Ÿบ  /usr/local/Cellar/wxmac/3.0.2: 777 files, 41M
==> Installing therion
couldn't understand kern.osversion `14.0.0'
######################################################################## 100.0%
######################################################################## 100.0%
==> Patching
patching file loch/lxData.cxx
Hunk #1 succeeded at 540 (offset 5 lines).
Hunk #2 succeeded at 582 (offset 5 lines).
patching file loch/Makefile
==> make config-macosx
==> make
couldn't understand kern.osversion `14.0.0'
loch/lxFile.cxx: In member function โ€˜void lxFile::ImportPLT(const char*)โ€™:
loch/lxFile.cxx:755: error: โ€˜getlineโ€™ was not declared in this scope
make: *** [extern/lxFile.o] Error 1
make: *** Waiting for unfinished jobs....
couldn't understand kern.osversion `14.0.0'




what should i do for this error, please help me.

thank you 
Y.SH

On Sat, Jan 31, 2015 at 2:03 AM, Martin Sluka <martinsluka@mac.com> wrote:
It is on my computer (OSX 10.8.5):

as written in wiki:



m.s.


30. 1. 2015 v 22:23, Yones Shariatmadari <yonessh2@gmail.com>:

Hi

i use homebrew , it is very good for checking but that error is in terminal !!!
problem not solve.

please check this:

Macs-MacBook-Pro:therion yonesshariatmadari$ brew install therion
Error: No available formula for therion 
Searching formulae...
Searching taps...


On Fri, Jan 30, 2015 at 3:37 PM, Martin Sluka <martinsluka@mac.com> wrote:

30. 1. 2015 v 12:05, Yones Shariatmadari <yonessh2@gmail.com>:

what should i do?
please help me


Hi,

try to use HomeBrew instalation:

- download and install HomeBrew - http://brew.sh

- in terminal: brew install therion

m. 

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http://mailman.speleo.sk/mailman/listinfo/therion




--
Yones Shariatmadari 
Master Student , Department of BioStatistics 
School of Paramedical Science (PMS)
Shahid Beheshti University of Medical Sciences (S.B.M.U)
Tehran, Iran
_______________________________________________
Therion mailing list
Therion@speleo.sk
http://mailman.speleo.sk/mailman/listinfo/therion


_______________________________________________
Therion mailing list
Therion@speleo.sk
http://mailman.speleo.sk/mailman/listinfo/therion




--
Yones Shariatmadari 
Master Student , Department of BioStatistics 
School of Paramedical Science (PMS)
Shahid Beheshti University of Medical Sciences (S.B.M.U)
Tehran, Iran
_______________________________________________
Therion mailing list
Therion@speleo.sk
http://mailman.speleo.sk/mailman/listinfo/therion