[Therion] The results of your email commands

Christian Sandrini christian.sandrini at me.com
Sat Jan 31 20:43:29 CET 2015 

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 at 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 <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 Warning: You have an outdated version of /usr/bin/install_name_tool installed.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
> ==> Downloading https://downloads.sf.net/project/machomebrew/Bottles/libpng-1.6.16.yosemite.bottle.tar.gz <https://downloads.sf.net/project/machomebrew/Bottles/libpng-1.6.16.yosemite.bottle.tar.gz>
> ######################################################################## 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
> 🍺  /usr/local/Cellar/libpng/1.6.16: 17 files, 1.3M
> ==> Installing therion dependency: freetype
> ==> Downloading https://downloads.sf.net/project/machomebrew/Bottles/freetype-2.5.5.yosemite.bottle.tar.gz <https://downloads.sf.net/project/machomebrew/Bottles/freetype-2.5.5.yosemite.bottle.tar.gz>
> ######################################################################## 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
> 🍺  /usr/local/Cellar/freetype/2.5.5: 60 files, 2.6M
> ==> Installing therion dependency: libtool
> ==> Downloading https://downloads.sf.net/project/machomebrew/Bottles/libtool-2.4.5.yosemite.bottle.tar.gz <https://downloads.sf.net/project/machomebrew/Bottles/libtool-2.4.5.yosemite.bottle.tar.gz>
> ######################################################################## 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
> 🍺  /usr/local/Cellar/libtool/2.4.5: 69 files, 3.8M
> ==> Installing therion dependency: jpeg
> ==> Downloading https://downloads.sf.net/project/machomebrew/Bottles/jpeg-8d.yosemite.bottle.2.tar.gz <https://downloads.sf.net/project/machomebrew/Bottles/jpeg-8d.yosemite.bottle.2.tar.gz>
> ######################################################################## 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
> 🍺  /usr/local/Cellar/jpeg/8d: 18 files, 776K
> ==> Installing therion dependency: xz
> ==> Downloading https://downloads.sf.net/project/machomebrew/Bottles/xz-5.2.0.yosemite.bottle.tar.gz <https://downloads.sf.net/project/machomebrew/Bottles/xz-5.2.0.yosemite.bottle.tar.gz>
> ######################################################################## 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
> 🍺  /usr/local/Cellar/xz/5.2.0: 59 files, 1.7M
> ==> Installing therion dependency: imagemagick
> ==> Downloading https://downloads.sf.net/project/machomebrew/Bottles/imagemagick-6.9.0-3.yosemite.bottle.tar.gz <https://downloads.sf.net/project/machomebrew/Bottles/imagemagick-6.9.0-3.yosemite.bottle.tar.gz>
> ######################################################################## 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
> 🍺  /usr/local/Cellar/imagemagick/6.9.0-3: 1440 files, 22M
> ==> Installing therion dependency: lcdf-typetools
> couldn't understand kern.osversion `14.0.0'
> ==> Downloading http://www.lcdf.org/type/lcdf-typetools-2.104.tar.gz <http://www.lcdf.org/type/lcdf-typetools-2.104.tar.gz>
> ######################################################################## 100.0%
> ==> ./configure --prefix=/usr/local/Cellar/lcdf-typetools/2.104 --without-kpathsea
> ==> make install
> 🍺  /usr/local/Cellar/lcdf-typetools/2.104: 29 files, 4.3M, built in 5.5 minutes
> ==> Installing therion dependency: boost
> ==> Downloading https://downloads.sf.net/project/machomebrew/Bottles/boost-1.57.0.yosemite.bottle.tar.gz <https://downloads.sf.net/project/machomebrew/Bottles/boost-1.57.0.yosemite.bottle.tar.gz>
> ######################################################################## 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
> 🍺  /usr/local/Cellar/boost/1.57.0: 10572 files, 439M
> ==> Installing therion dependency: fontconfig
> ==> Downloading https://downloads.sf.net/project/machomebrew/Bottles/fontconfig-2.11.1.yosemite.bottle.3.tar.gz <https://downloads.sf.net/project/machomebrew/Bottles/fontconfig-2.11.1.yosemite.bottle.3.tar.gz>
> ######################################################################## 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
> 🍺  /usr/local/Cellar/fontconfig/2.11.1: 448 files, 3.6M
> ==> Installing therion dependency: szip
> couldn't understand kern.osversion `14.0.0'
> ==> Downloading http://www.hdfgroup.org/ftp/lib-external/szip/2.1/src/szip-2.1.tar.gz <http://www.hdfgroup.org/ftp/lib-external/szip/2.1/src/szip-2.1.tar.gz>
> ######################################################################## 100.0%
> ==> ./configure --prefix=/usr/local/Cellar/szip/2.1
> ==> make install
> 🍺  /usr/local/Cellar/szip/2.1: 9 files, 132K, built in 28 seconds
> ==> Installing therion dependency: hdf5
> ==> Downloading https://downloads.sf.net/project/machomebrew/Bottles/science/hdf5-1.8.14.yosemite.bottle.tar.gz <https://downloads.sf.net/project/machomebrew/Bottles/science/hdf5-1.8.14.yosemite.bottle.tar.gz>
> ######################################################################## 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
> 🍺  /usr/local/Cellar/hdf5/1.8.14: 118 files, 9.9M
> ==> Installing therion dependency: libtiff
> ==> Downloading https://downloads.sf.net/project/machomebrew/Bottles/libtiff-4.0.3.yosemite.bottle.tar.gz <https://downloads.sf.net/project/machomebrew/Bottles/libtiff-4.0.3.yosemite.bottle.tar.gz>
> ######################################################################## 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
> 🍺  /usr/local/Cellar/libtiff/4.0.3: 254 files, 3.8M
> ==> Installing therion dependency: vtk
> ==> Downloading https://downloads.sf.net/project/machomebrew/Bottles/science/vtk-6.1.0_1.yosemite.bottle.tar.gz <https://downloads.sf.net/project/machomebrew/Bottles/science/vtk-6.1.0_1.yosemite.bottle.tar.gz>
> ######################################################################## 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
> 🍺  /usr/local/Cellar/vtk/6.1.0_1: 3005 files, 123M
> ==> Installing therion dependency: wxmac
> ==> Downloading https://downloads.sf.net/project/machomebrew/Bottles/wxmac-3.0.2.yosemite.bottle.9.tar.gz <https://downloads.sf.net/project/machomebrew/Bottles/wxmac-3.0.2.yosemite.bottle.9.tar.gz>
> ######################################################################## 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
> 🍺  /usr/local/Cellar/wxmac/3.0.2: 777 files, 41M
> ==> Installing therion
> couldn't understand kern.osversion `14.0.0'
> ==> Downloading http://therion.speleo.sk/downloads/therion-5.3.15.tar.gz <http://therion.speleo.sk/downloads/therion-5.3.15.tar.gz>
> ######################################################################## 100.0%
> ==> Downloading http://www.lblazek.cz/osx_vtk6.patch <http://www.lblazek.cz/osx_vtk6.patch>
> ######################################################################## 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 ‘void lxFile::ImportPLT(const char*)’:
> loch/lxFile.cxx:755: error: ‘getline’ 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'
> 
> READ THIS: http://git.io/brew-troubleshooting <http://git.io/brew-troubleshooting>
> 
> 
> 
> 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 at mac.com <mailto:martinsluka at mac.com>> wrote:
> It is on my computer (OSX 10.8.5):
> 
> as written in wiki:
> 
> brew tap homebrew/science
> brew install https://raw.githubusercontent.com/ladislavb/homebrew-science/master/therion.rb <https://raw.githubusercontent.com/ladislavb/homebrew-science/master/therion.rb> 
> 
> 
> m.s.
> 
> 
> 30. 1. 2015 v 22:23, Yones Shariatmadari <yonessh2 at gmail.com <mailto:yonessh2 at 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 at mac.com <mailto:martinsluka at mac.com>> wrote:
>> 
>> 30. 1. 2015 v 12:05, Yones Shariatmadari <yonessh2 at gmail.com <mailto:yonessh2 at gmail.com>>:
>> 
>>> what should i do?
>>> please help me
>>> 
>> 
>> Hi,
>> 
>> try to use HomeBrew instalation:
>> 
>> - download and install HomeBrew - http://brew.sh <http://brew.sh/>
>> 
>> - in terminal: brew install therion
>> 
>> m. 
>> 
>> _______________________________________________
>> Therion mailing list
>> Therion at speleo.sk <mailto:Therion at speleo.sk>
>> http://mailman.speleo.sk/mailman/listinfo/therion <http://mailman.speleo.sk/mailman/listinfo/therion>
>> 
>> 
>> 
>> 
>> -- 
>> Yones Shariatmadari 
>> Master Student , Department of BioStatistics 
>> School of Paramedical Science (PMS) <http://pms.sbmu.ac.ir/>
>> Shahid Beheshti University of Medical Sciences (S.B.M.U) <http://www.sbmu.ac.ir/>
>> Tehran, Iran
>> _______________________________________________
>> Therion mailing list
>> Therion at speleo.sk <mailto:Therion at speleo.sk>
>> http://mailman.speleo.sk/mailman/listinfo/therion <http://mailman.speleo.sk/mailman/listinfo/therion>
> 
> 
> _______________________________________________
> Therion mailing list
> Therion at speleo.sk <mailto:Therion at speleo.sk>
> http://mailman.speleo.sk/mailman/listinfo/therion <http://mailman.speleo.sk/mailman/listinfo/therion>
> 
> 
> 
> 
> -- 
> Yones Shariatmadari 
> Master Student , Department of BioStatistics 
> School of Paramedical Science (PMS) <http://pms.sbmu.ac.ir/>
> Shahid Beheshti University of Medical Sciences (S.B.M.U) <http://www.sbmu.ac.ir/>
> Tehran, Iran
> _______________________________________________
> Therion mailing list
> Therion at speleo.sk
> http://mailman.speleo.sk/mailman/listinfo/therion

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://mailman.speleo.sk/pipermail/therion/attachments/20150131/ee139ff2/attachment.htm>

More information about the Therion mailing list