[Ifeffit] Regarding installation of demeter on Mac Mavericks system

pushkar shejwalkar pshejwalkar2004 at gmail.com
Mon Sep 1 10:33:04 CDT 2014

Dear Alison,
    Thank you very much for the response. Sorry for the earlier email not
being detailed. I will try to explain everything in detail this time.
As you suggested, I uninstalled macports and then  XQuartz (Essentially I
googled how to do it and followed the steps they said)

sudo rm -rf \
    /opt/local \
    /Applications/DarwinPorts \
    /Applications/MacPorts \
    /Library/LaunchDaemons/org.macports.* \
    /Library/Receipts/DarwinPorts*.pkg \
    /Library/Receipts/MacPorts*.pkg \
    /Library/StartupItems/DarwinPortsStartup \
    /Library/Tcl/darwinports1.0 \
    /Library/Tcl/macports1.0 \

after this I reinstalled macports by double clicking my earlier
downloaded file. After that I
reinstalled xorg by typing the sudo port install xorg-server
demeter-devel command. this time it took too

long to install. Essentially I could see individual things getting
checked downloaded and cleaned

etc. but the error message occured towards the end
-->  Attempting to fetch

--->  Installing libmpc @1.0.2_0

--->  Activating libmpc @1.0.2_0

--->  Cleaning libmpc

--->  Fetching archive for libgcc

--->  Attempting to fetch libgcc-4.9.1_0.darwin_13.x86_64.tbz2 from

--->  Attempting to fetch libgcc-4.9.1_0.darwin_13.x86_64.tbz2.rmd160 from

Error: org.macports.archivefetch for port libgcc returned: Failed to fetch
signature for archive: Connection timed out after 30023 milliseconds

Error: Failed to install libgcc

Please see the log file for port libgcc for details:

The log file is attached to this email. neverthless I still logged out
by typing logout in terminal

(if thats what it means) and clicked terminal again. this time I
checked the $DISPLAY command and it

showed the following message.

Last login: Mon Sep  1 23:18:41 on ttys000

Pushkar-Shejwalkars-MacBook:~ Pushkar$ echo $DISPLAY


after this I typed
sudo port install athena

and error read as
Error: Port athena not found

Pushkar-Shejwalkars-MacBook:~ Pushkar$ athena

-bash: athena: command not found

Pushkar-Shejwalkars-MacBook:~ Pushkar$ sudo port install athena

Error: Port athena not found

Pushkar-Shejwalkars-MacBook:~ Pushkar$

Please tell me what did I do wrong? I am sure I am missing something
here very important step.

Thanks a lot for your help. Hope to hear back with some possible suggestions.



On Mon, Sep 1, 2014 at 11:49 AM, Alison Tebo <agtebo at umich.edu> wrote:

> Hi Pushkar,
> It's a little hard to tell what you did and in what order. When you
> activated Macports and then installed athena did you type something like 'sudo
> port install xorg-server athena'? Is that when you first came across the
> library duplicate? When you tried to run athena, what error did you get?
> You didn't report this. It sounds like you might have installed xorg-server
> (which is the same thing you downloaded from the XQuartz site) and didn't
> logout and then back in to reset your DISPLAY variable and then downloaded
> it again manually, messing up your ports. I can't really tell from the
> information you gave. What is the output of typing echo $DISPLAY?
> What I would do: start over. Uninstall all of your X11s. For the XQuartz
> one start here: http://xquartz.macosforge.org/trac/wiki/X11-UsersFAQ. For
> the Macports one, uninstall and clean both the 'athena' and 'xorg-server'
> ports. Then, reinstall xorg-server by itself. Log out and then back in.
> Then type echo $DISPLAY. Your DISPLAY variable should be something like
> /tmp/launch-XXXXXX/org.macports:0.  Then install athena (sudo port
> install athena). Are there any errors? If so, what are they?
> I'm not very knowledgable about this stuff but this seems like a pretty
> reasonable first step to me. Since I'm on an older Mac OS, if there's
> 10.9-specific issues I won't be much help. Hopefully this resolves your
> issues.
> Best,
> Alison
> On Sun, Aug 31, 2014 at 1:50 AM, pushkar shejwalkar <
> pshejwalkar2004 at gmail.com> wrote:
>> Dear All,
>>             I am new to the mac and mac apps as well as not a techie
>> either. I am trying to install the latest version of demeter (artemis,
>> athena and heph) on my macbook using Mavericks OS. For this I followed the
>> steps given on the site with Macports installation, then its activation
>> step. and then I used terminal to connect and download the athena. However
>> there was error which I thought might because of not having the windowing
>> environment ( I am using all the words from site and dont know anything
>> what it means). So I clicked to download X11 from XQuartz site. After that
>> I logged out from terminal and logged in again. to check if anything
>> changes but the following message was observed (the complete message is
>> attached as word document but some part essentially the last portion
>> talking about the error is pasted below.
>> --->  Activating xorg-libXau @1.0.8_0
>> Error: org.macports.activate for port xorg-libXau returned: Image error:
>> /opt/local/lib/libXau.6.dylib already exists and does not belong to a
>> registered port.  Unable to activate port xorg-libXau. Use 'port -f
>> activate xorg-libXau' to force the activation.
>> Error: Failed to install xorg-libXau
>> Please see the log file for port xorg-libXau for details:
>> /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_x11_xorg-libXau/xorg-libXau/main.log
>> Error: The following dependencies were not installed: quartz-wm
>> xorg-libAppleWM xorg-libXext xorg-libX11 xorg-libXau xorg-libXdmcp
>> xorg-libxcb python27 bzip2 db46 db_select gettext expat libiconv ncurses
>> libedit openssl zlib python_select sqlite3 xorg-libpthread-stubs
>> xorg-xcb-proto libxml2 xz xorg-xextproto xorg-libXinerama
>> xorg-xineramaproto xorg-libXrandr xorg-randrproto xrender xorg-renderproto
>> xinit mkfontdir mkfontscale freetype libpng xorg-libfontenc xauth
>> xorg-libXmu xorg-libXt xorg-libsm xorg-libice xrdb xset xorg-libXfontcache
>> xorg-fontcacheproto xorg-libXp xorg-printproto xorg-libXxf86misc
>> xorg-xf86miscproto xkeyboard-config xkbcomp xorg-libxkbfile xorg-fonts
>> font-adobe-100dpi fontconfig font-adobe-75dpi font-adobe-utopia-100dpi
>> font-adobe-utopia-75dpi font-adobe-utopia-type1 font-alias font-arabic-misc
>> font-bh-100dpi font-bh-75dpi font-bh-lucidatypewriter-100dpi
>> font-bh-lucidatypewriter-75dpi font-bh-ttf font-bh-type1
>> font-bitstream-100dpi font-bitstream-75dpi font-bitstream-speedo
>> font-bitstream-type1 font-cronyx-cyrillic font-cursor-misc font-daewoo-misc
>> font-dec-misc font-ibm-type1 font-isas-misc font-jis-misc font-micro-misc
>> font-misc-cyrillic font-misc-ethiopic font-misc-meltho font-misc-misc
>> font-mutt-misc font-schumacher-misc font-screen-cyrillic font-sony-misc
>> font-sun-misc font-winitzki-cyrillic font-xfree86-type1 xorg-encodings
>> xorg-libXfixes xorg-fixesproto xorg-libXfont xorg-fontsproto
>> To report a bug, follow the instructions in the guide:
>>     http://guide.macports.org/#project.tickets
>> Error: Processing of port xorg-server failed
>> Pushkar-Shejwalkars-MacBook:~ Pushkar$
>> Please help me installing it properly. Really very sorry for the long
>> email but I thought it will be more helpful this way.
>> Waiting for the replies.
>> Thank you very much
>> --
>> Best Regards,
>> Pushkar Shejwalkar.
>> Post-doctoral -Researcher,JSPS Fellow
>> Hokkaido University,
>> Sapporo,
>> Japan
>> _______________________________________________
>> Ifeffit mailing list
>> Ifeffit at millenia.cars.aps.anl.gov
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Best Regards,
Pushkar Shejwalkar.
Post-doctoral -Researcher,JSPS Fellow
Hokkaido University,
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