[Gate-users] Σχετ: Gate-users Digest, Vol 129, Issue 39 [SEC=UNCLASSIFIED]

Fri Feb 24 17:19:36 CET 2017

Ahem. Oops. I wrote:

 > I just tried it on my own machine and I can
 > compile gate 7.2 just fine with geant4 10.03.

That is not correct.

The cmake stage goes fine and the compile happily proceeds through about 
70% of the build but then actually fails for multiple reasons (CLHEP 
namespace for units, and 'theParticleIterator' is no longer #defined).

You can *not* compile Gate v7.2 with geant4 version 10.03.

My apologies for any confusion that my wrong statement may have caused,
David Boersma

Den 24/02/2017 kl. 12:36, skrev David Boersma:
> Hi Farshid,
>
> Konstantinos is partly right about the incompatible geant4 versions.
>
> ROOT 6.* will not compile with Gate 7.2 (for a silly simple reason that
> is fixed on github, so in the upcoming release you'll be able to use
> ROOT6).
>
> Geant4 10.03 has not been *validated* for gate 7.2 (because geant4 10.03
> was released long after gate 7.2 was released), but it should not give
> you this build error. I just tried it on my own machine and I can
> compile gate 7.2 just fine with geant4 10.03. So I strongly suspect that
> after you'll install (the latest patch version of) geant4 10.02 you will
> run into the same build error.
>
> (The rest of this mail I wrote already before Konstantinos wrote to the
> list...)
>
> From those regex errors we can conclude that for some reason cmake does
> not manage to define the Geant4_VERSION variable. That is strange,
> because in the first line of the quoted output you show that it does
> find the installation prefix and it even quotes the version in
> parentheses. We need to collect more diagnostics, hopefully that will
> give us a clue.
>
> (1) multiple installs?
>
> Do you have other geant4 installations on your system besides the one
> you intend to use, and could you check the output of
>
> printenv | grep -i geant4
>
> to see if maybe your shell environment somehow has a mixture of multiple
> versions?
>
> (2) install method
>
> How did you install geant4? Build from source or unpack a binary tarball?
>
> (3) check cmake and geant4-config
>
> Could you cd to the *build* directory where you most recently tried to
> run cmake, and then copy-paste the following commands into you shell,
> and then copy-paste the resulting output into a mail to the list?
>
> echo $SHELL
> type cmake
> cmake --version
> grep Geant4_DIR CMakeCache.txt
> type geant4-config
> geant4-config --version
> geant4-config --prefix
>
> Maybe this helps to get a clue to what's going on on your system. If it
> doesn't then I can try to come up with some more diagnostic tests...
>
> Good luck,
> David
>
>
> Den 24/02/2017 kl. 11:40, skrev Konstantinos P. Chatzipapas, MSc:
>> Hello,
>>
>> I see that you have install Geant4 V10.3.0 and Root V6.08/02 that
>> doesn't work for GATE V7.2.
>> You must install Geant4 V10.02.p03 and Root V5.34/36, so that GATE V7.2
>> would work.
>>
>> Kind Regards,
>> Konstantinos
>>
>> -----------------------------------------------------
>>  Konstantinos Chatzipapas
>>     Medical Physicist, MSc
>>        University of Patras
>>
>>    web page: Physics Magazine <http://www.physicsmag.com/>
>>
>>
>> Στις 7:19 π.μ. Παρασκευή, 24 Φεβρουαρίου 2017, ο/η "Salehzahi, Farshid
>> (Health)" <Farshid.Salehzahi at act.gov.au> έγραψε:
>>
>>
>> Hi Konstantinos
>>
>> Thanks for taking the time to support.
>> I can confirm that source geant4.sh is in our bashrc.
>> I can also confirm that we ran GEANT4 example, which was completed
>> smoothly indicating the GEANT4 us running trouble-free. :)
>>
>> I have copied the text below from the terminal, which shows the errors
>> we are facing for your further analysis and possible advice please.
>>
>> Below is the output from CMake specifying the errors encountered.
>>
>> Found Geant4: /home/cneeley/apps/Geant4/geant4.10.3-install/bin/..
>> (10.3.0)
>> CMake Error at CMakeLists.txt:67 (STRING):
>>   string sub-command REGEX, mode REPLACE needs at least 6 arguments
>> total to
>>   command.
>>
>>
>> CMake Error at CMakeLists.txt:68 (STRING):
>>   string sub-command REGEX, mode REPLACE needs at least 6 arguments
>> total to
>>   command.
>>
>>
>> CMake Error at CMakeLists.txt:69 (STRING):
>>   string sub-command REGEX, mode REPLACE needs at least 6 arguments
>> total to
>>   command.
>>
>>
>> Warning! GATE version 7.2 is not validated for Geant4 . distribution.
>> Please use Geant4 10.1 or 10.2 distribution instead.
>> Found ROOT 6.08/02 in /home/cneeley/apps/Root/root6.08
>> CMake Error at CMakeLists.txt:173 (INCLUDE):
>>   include called with wrong number of arguments.  include() only takes
>> one
>>   file.
>>
>>
>> CMake Error at CMakeLists.txt:175 (INCLUDE):
>>   include could not find load file:
>>
>>     /home/cneeley/apps/GATE/gate_v7.2/source/general/include
>>
>> Yours Sincerely
>> Farshid
>>
>> Farshid Salehzahi (CSci, MIPEM, Clinical Scientist, MACPSEM)
>> Head of Molecular and Nuclear Medicine Physics Section
>> Medical Physics and Radiation Engineering
>> ANU Visiting Fellow
>> Research School of Physics and Engineering,
>> ANU College of Physical and Mathematical Sciences
>>
>> TCH Phone: 6244 4091 | Fax: 6244 2977
>> |mailto:Farshid.Salehzahi at act.gov.au
>> <mailto:Farshid.Salehzahi at act.gov.au>
>> Clinical Support Services
>> Canberra Hospital and Health Services
>>
>>
>> -----Original Message-----
>> From: Gate-users
>> [mailto:gate-users-bounces at lists.opengatecollaboration.org
>> <mailto:gate-users-bounces at lists.opengatecollaboration.org>] On Behalf
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>> <mailto:gate-users-request at lists.opengatecollaboration.org>
>> Sent: Thursday, 23 February 2017 7:53 PM
>> To: gate-users at lists.opengatecollaboration.org
>> <mailto:gate-users at lists.opengatecollaboration.org>
>> Subject: Gate-users Digest, Vol 129, Issue 39
>>
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>> Today's Topics:
>>
>>   1. Σχετ:  GATE Installation Problem [SEC=UNCLASSIFIED]
>>       (Konstantinos P. Chatzipapas, MSc)
>>
>>
>> ----------------------------------------------------------------------
>>
>> Message: 1
>> Date: Thu, 23 Feb 2017 08:52:40 +0000 (UTC)
>> From: "Konstantinos P. Chatzipapas, MSc" <konhat88 at yahoo.gr
>> <mailto:konhat88 at yahoo.gr>>
>> To: "Salehzahi, Farshid (Health)" <Farshid.Salehzahi at act.gov.au
>> <mailto:Farshid.Salehzahi at act.gov.au>>,
>>     "gate-users at lists.opengatecollaboration.org
>> <mailto:gate-users at lists.opengatecollaboration.org>"
>>     <gate-users at lists.opengatecollaboration.org
>> <mailto:gate-users at lists.opengatecollaboration.org>>
>> Subject: [Gate-users] Σχετ:  GATE Installation Problem
>>     [SEC=UNCLASSIFIED]
>> Message-ID: <1484310233.5675768.1487839960381 at mail.yahoo.com
>> <mailto:1484310233.5675768.1487839960381 at mail.yahoo.com>>
>> Content-Type: text/plain; charset="utf-8"
>>
>> Hello,
>> Have source your geant4.sh in your bashrc??
>> Best Regards,Konstantinos
>>  ----------------------------------------------------- Konstantinos
>> Chatzipapas
>>     Medical Physicist, MSc
>>        University of Patras
>>    web page: Physics Magazine
>>
>>     Στις 5:44 π.μ. Παρασκευή, 17 Φεβρουαρίου 2017, ο/η "Salehzahi,
>> Farshid (Health)" <Farshid.Salehzahi at act.gov.au
>> <mailto:Farshid.Salehzahi at act.gov.au>> έγραψε:
>>
>>
>>   <!--#yiv8120087482 _filtered #yiv8120087482 {font-family:"Cambria
>> Math";panose-1:2 4 5 3 5 4 6 3 2 4;} _filtered #yiv8120087482
>> {font-family:Calibri;panose-1:2 15 5 2 2 2 4 3 2 4;} _filtered
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>> #yiv8120087482 li.yiv8120087482MsoNormal, #yiv8120087482
>> div.yiv8120087482MsoNormal
>> {margin:0cm;margin-bottom:.0001pt;font-size:11.0pt;font-family:"Calibri",
>> "sans-serif";}#yiv8120087482
>> a:link, #yiv8120087482 span.yiv8120087482MsoHyperlink
>> {color:blue;text-decoration:underline;}#yiv8120087482 a:visited,
>> #yiv8120087482 span.yiv8120087482MsoHyperlinkFollowed
>> {color:purple;text-decoration:underline;}#yiv8120087482
>> p.yiv8120087482MsoAcetate, #yiv8120087482 li.yiv8120087482MsoAcetate,
>> #yiv8120087482 div.yiv8120087482MsoAcetate
>> {margin:0cm;margin-bottom:.0001pt;font-size:8.0pt;font-family:"Tahoma",
>> "sans-serif";}#yiv8120087482 span.yiv8120087482EmailStyle17
>> {font-family:"Garamond", "serif";color:windowtext;}#yiv8120087482
>> span.yiv8120087482BalloonTextChar {font-family:"Tahoma",
>> "sans-serif";}#yiv8120087482 .yiv8120087482MsoChpDefault {} _filtered
>> #yiv8120087482 {margin:72.0pt 72.0pt 72.0pt 72.0pt;}#yiv8120087482
>> div.yiv8120087482WordSection1 {}-->Hello GATE-Users,    One of my
>> colleagues is trying to set up GATE_v7.2 (Geant4-10.2.3, Qt5.8) on an
>> Ubuntu server. The Geant4 built successfully. The problem is that the
>> GATE CMakeList.txt file tries to initiailise the Geant4_USE_FILE
>> parameter. The Geant4_USE_FILE is not set correctly and he would like to
>> know what file/variable etc this is trying to point to?    I would
>> really appreciate your prompt response to this matter as we are looking
>> forward to using GATE’s applications.       Yours Sincerely, Farshid
>> Farshid Salehzahi (CSci, MIPEM, Clinical Scientist, MACPSEM)
>> Head of Molecular and Nuclear Medicine Physics Section Medical Physics
>> and Radiation Engineering ANU Visiting Fellow Research School of Physics
>> and Engineering, ANU College of Physical and Mathematical Sciences TCH
>> Phone: 6244 4091 | Fax: 6244 2977 |mailto:Farshid.Salehzahi at act.gov.au
>> <mailto:Farshid.Salehzahi at act.gov.au> Clinical Support Services Canberra
>> Hospital and Health Services  We acknowledge the traditional custodians
>> of the ACT, the Ngunnawal people. We acknowledge and respect their
>> continuing culture and the contribution they make to the life of this
>> city and this region.
>>
>> -----------------------------------------------------------------------
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