[dune-pdelab] dune-pdelab Digest, Vol 118, Issue 3
Carsten Gräser
graeser at mi.fu-berlin.de
Wed Sep 16 10:30:38 CEST 2020
Dear Amir,
Am 15.09.20 um 15:11 schrieb Amir Peiraviminaei:
> Dear Carsten and Dear Dominic,
> I've tried to rebuild dune-uggrid and dune-grid both from the master
> branch. Now I'm getting this error:
> [ 50%] Linking CXX executable myprog
> /usr/bin/ld: cannot find -lugS3
> /usr/bin/ld: cannot find -lugS2
> /usr/bin/ld: cannot find -lugL
> /usr/bin/ld: cannot find -lugS3
> /usr/bin/ld: cannot find -lugS2
> /usr/bin/ld: cannot find -lugL
> collect2: error: ld returned 1 exit status
did you also fully rebuild your application module?
Dune-grid should add the flags for using dune-uggrid
which should automatically be passed to your module.
Please try to call dunecontrol for your application
module again using
dunecontrol [options] --module=[your module] all
Best,
Carsten
>
>
>
>
> On Tue, Sep 15, 2020 at 1:04 PM
> <dune-pdelab-request at lists.dune-project.org
> <mailto:dune-pdelab-request at lists.dune-project.org>> wrote:
>
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> Today's Topics:
>
> 1. Re: UGGrid error (Dominic Kempf)
> 2. Re: UGGrid error (Carsten Gräser)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Tue, 15 Sep 2020 12:43:16 +0200
> From: Dominic Kempf <dominic.r.kempf at gmail.com
> <mailto:dominic.r.kempf at gmail.com>>
> To: Amir Peiraviminaei <apminaei at gmail.com <mailto:apminaei at gmail.com>>
> Cc: dune-pdelab at lists.dune-project.org
> <mailto:dune-pdelab at lists.dune-project.org>
> Subject: Re: [dune-pdelab] UGGrid error
> Message-ID:
>
> <CA+Cg7M5GONxikHv5jRrCeOZe6bkjSS6BDivh3HWMeDeTbu68hA at mail.gmail.com
> <mailto:CA%2BCg7M5GONxikHv5jRrCeOZe6bkjSS6BDivh3HWMeDeTbu68hA at mail.gmail.com>>
> Content-Type: text/plain; charset="utf-8"
>
> Hey Amir,
>
> is this happening on the master branch of
> dune-uggrid/dune-grid/dune-pdelab
> or on a release branch?
> Please make sure that you are using consistent branches and report which
> one you are using.
> If the branch is master, it would be very insightful if you could
> try the
> releases/2.7 branch as well.
> There were changes in dune-grid regarding UG's capabilities that have
> caused similar issues before.
>
> Best,
> Dominic
>
> On Tue, Sep 15, 2020 at 11:00 AM Amir Peiraviminaei
> <apminaei at gmail.com <mailto:apminaei at gmail.com>>
> wrote:
>
> > Hi everyone,
> > I'm using DG method to solve a system of PDEs in parallel. When I
> use YASP
> > Grid, It works fine. Now I want to solve it on the unstructured
> grid, but
> > UGGrid doesn't work.
> > Errors:
> > In function `Dune::UG_NS<2>::DDD_IFOneway(DDD::DDDContext&,
> unsigned int,
> > (anonymous namespace)::D2::DDD_IF_DIR, unsigned long, int
> > (*)(DDD::DDDContext&, char*, void*), int (*)(DDD::DDDContext&, char*,
> > void*))':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:119:
> undefined
> > reference to `(anonymous
> namespace)::D2::DDD_IFOneway(DDD::DDDContext&,
> > unsigned int, (anonymous namespace)::D2::DDD_IF_DIR, unsigned
> long, int
> > (*)(DDD::DDDContext&, char*, void*), int (*)(DDD::DDDContext&, char*,
> > void*))'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::Corner_Coordinates((anonymous namespace)::D2::element
> > const*, double**)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:452:
> undefined
> > reference to `(anonymous namespace)::D2::n_offset'
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:452:
> undefined
> > reference to `(anonymous namespace)::D2::n_offset'
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:452:
> undefined
> > reference to `(anonymous namespace)::D2::n_offset'
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:452:
> undefined
> > reference to `(anonymous namespace)::D2::n_offset'
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:452:
> undefined
> > reference to `(anonymous namespace)::D2::n_offset'
> >
> CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o:/home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:452:
> > more undefined references to `(anonymous namespace)::D2::n_offset'
> follow
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::Sides_Of_Elem((anonymous namespace)::D2::element
> const*)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:548:
> undefined
> > reference to `(anonymous namespace)::D2::element_descriptors'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::Side_On_Bnd((anonymous namespace)::D2::element
> const*,
> > int)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:576:
> undefined
> > reference to `(anonymous namespace)::D2::side_offset'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::Edges_Of_Elem((anonymous namespace)::D2::element
> const*)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:591:
> undefined
> > reference to `(anonymous namespace)::D2::element_descriptors'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::Corners_Of_Elem((anonymous namespace)::D2::element
> > const*)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:598:
> undefined
> > reference to `(anonymous namespace)::D2::element_descriptors'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::isLeaf((anonymous namespace)::D2::element const*)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:708:
> undefined
> > reference to `(anonymous namespace)::D2::control_entries'
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:708:
> undefined
> > reference to `(anonymous namespace)::D2::control_entries'
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:708:
> undefined
> > reference to `(anonymous namespace)::D2::control_entries'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::Corner((anonymous namespace)::D2::element const*,
> int)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:947:
> undefined
> > reference to `(anonymous namespace)::D2::n_offset'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::GetEdge((anonymous namespace)::D2::node*, (anonymous
> > namespace)::D2::node*)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:962:
> undefined
> > reference to `(anonymous namespace)::D2::GetEdge((anonymous
> > namespace)::D2::node const*, (anonymous namespace)::D2::node const*)'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UGGridEntity<0, 2, Dune::UGGrid<2>
> const>::UGGridEntity((anonymous
> > namespace)::D2::element*, Dune::UGGrid<2> const*)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/uggridentity.hh:619:
> > undefined reference to `Dune::UGGridEntity<0, 2, Dune::UGGrid<2>
> > const>::setToTarget((anonymous namespace)::D2::element*,
> Dune::UGGrid<2>
> > const*)'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::DDD_InfoProcList(DDD::DDDContext&,
> DDD::DDD_HEADER*)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:134:
> undefined
> > reference to `(anonymous
> namespace)::D2::DDD_InfoProcList(DDD::DDDContext&,
> > DDD::DDD_HEADER*)'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UGGridLeafIterator<0, (Dune::PartitionIteratorType)4,
> > Dune::UGGrid<2> const>::globalIncrement()':
> >
> /home/peiravim/dune/dune-grid/dune/grid/uggrid/uggridleafiterator.hh:161:
> > undefined reference to `Dune::UGGridEntity<0, 2, Dune::UGGrid<2>
> > const>::setToTarget((anonymous namespace)::D2::element*,
> Dune::UGGrid<2>
> > const*)'
> >
> /home/peiravim/dune/dune-grid/dune/grid/uggrid/uggridleafiterator.hh:176:
> > undefined reference to `Dune::UGGridEntity<0, 2, Dune::UGGrid<2>
> > const>::setToTarget((anonymous namespace)::D2::element*,
> Dune::UGGrid<2>
> > const*)'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UGGridLeafIterator<0, (Dune::PartitionIteratorType)4,
> > Dune::UGGrid<2> const>::UGGridLeafIterator(Dune::UGGrid<2> const&)':
> >
> /home/peiravim/dune/dune-grid/dune/grid/uggrid/uggridleafiterator.hh:54:
> > undefined reference to `Dune::UGGridEntity<0, 2, Dune::UGGrid<2>
> > const>::setToTarget((anonymous namespace)::D2::element*,
> Dune::UGGrid<2>
> > const*)'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UGGridLeafIterator<0, (Dune::PartitionIteratorType)4,
> > Dune::UGGrid<2> const>::UGGridLeafIterator()':
> >
> /home/peiravim/dune/dune-grid/dune/grid/uggrid/uggridleafiterator.hh:73:
> > undefined reference to `Dune::UGGridEntity<0, 2, Dune::UGGrid<2>
> > const>::setToTarget((anonymous namespace)::D2::element*,
> Dune::UGGrid<2>
> > const*)'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UGGridLeafIterator<0, (Dune::PartitionIteratorType)1,
> > Dune::UGGrid<2> const>::UGGridLeafIterator(Dune::UGGrid<2> const&)':
> >
> /home/peiravim/dune/dune-grid/dune/grid/uggrid/uggridleafiterator.hh:58:
> > undefined reference to `Dune::UGGridEntity<0, 2, Dune::UGGrid<2>
> > const>::setToTarget((anonymous namespace)::D2::element*,
> Dune::UGGrid<2>
> > const*)'
> >
> > Does anyone know what these errors are about and how can I fix it?
> > Thank you.
> > Amir
> > _______________________________________________
> > dune-pdelab mailing list
> > dune-pdelab at lists.dune-project.org
> <mailto:dune-pdelab at lists.dune-project.org>
> > https://lists.dune-project.org/mailman/listinfo/dune-pdelab
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> ------------------------------
>
> Message: 2
> Date: Tue, 15 Sep 2020 13:04:50 +0200
> From: Carsten Gräser <graeser at mi.fu-berlin.de
> <mailto:graeser at mi.fu-berlin.de>>
> To: Amir Peiraviminaei <apminaei at gmail.com <mailto:apminaei at gmail.com>>,
> dune-pdelab at lists.dune-project.org
> <mailto:dune-pdelab at lists.dune-project.org>
> Subject: Re: [dune-pdelab] UGGrid error
> Message-ID: <c71eca2e-9920-f576-3252-1da5a174e595 at mi.fu-berlin.de
> <mailto:c71eca2e-9920-f576-3252-1da5a174e595 at mi.fu-berlin.de>>
> Content-Type: text/plain; charset="utf-8"
>
> Hi Amir,
> to me this looks like dune-grid is not build with UGGrid
> support. To do so, you need to build dune-uggrid before
> dune-grid. Simply using dunecontrol will do all of this
> in the appropriate order. I suspect that you've first build
> the core-modules (including dune-grid) and later added
> dune-uggrid which may explain the problem.
>
> If that's the reason, simply rebuilding dune-grid should
> solve the problem.
>
> Best,
> Carsten
>
>
> Am 15.09.20 um 10:59 schrieb Amir Peiraviminaei:
> > Hi everyone,
> > I'm using DG method to solve a system of PDEs in parallel. When I use
> > YASP Grid, It works fine. Now I want to solve it on the unstructured
> > grid, but UGGrid doesn't work.
> > Errors:
> > In function `Dune::UG_NS<2>::DDD_IFOneway(DDD::DDDContext&, unsigned
> > int, (anonymous namespace)::D2::DDD_IF_DIR, unsigned long, int
> > (*)(DDD::DDDContext&, char*, void*), int (*)(DDD::DDDContext&, char*,
> > void*))':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:119:
> > undefined reference to `(anonymous
> > namespace)::D2::DDD_IFOneway(DDD::DDDContext&, unsigned int,
> (anonymous
> > namespace)::D2::DDD_IF_DIR, unsigned long, int (*)(DDD::DDDContext&,
> > char*, void*), int (*)(DDD::DDDContext&, char*, void*))'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::Corner_Coordinates((anonymous namespace)::D2::element
> > const*, double**)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:452:
> > undefined reference to `(anonymous namespace)::D2::n_offset'
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:452:
> > undefined reference to `(anonymous namespace)::D2::n_offset'
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:452:
> > undefined reference to `(anonymous namespace)::D2::n_offset'
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:452:
> > undefined reference to `(anonymous namespace)::D2::n_offset'
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:452:
> > undefined reference to `(anonymous namespace)::D2::n_offset'
> >
> CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o:/home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:452:
> > more undefined references to `(anonymous namespace)::D2::n_offset'
> follow
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::Sides_Of_Elem((anonymous namespace)::D2::element
> const*)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:548:
> > undefined reference to `(anonymous
> namespace)::D2::element_descriptors'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::Side_On_Bnd((anonymous namespace)::D2::element
> const*,
> > int)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:576:
> > undefined reference to `(anonymous namespace)::D2::side_offset'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::Edges_Of_Elem((anonymous namespace)::D2::element
> const*)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:591:
> > undefined reference to `(anonymous
> namespace)::D2::element_descriptors'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::Corners_Of_Elem((anonymous namespace)::D2::element
> > const*)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:598:
> > undefined reference to `(anonymous
> namespace)::D2::element_descriptors'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::isLeaf((anonymous namespace)::D2::element const*)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:708:
> > undefined reference to `(anonymous namespace)::D2::control_entries'
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:708:
> > undefined reference to `(anonymous namespace)::D2::control_entries'
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:708:
> > undefined reference to `(anonymous namespace)::D2::control_entries'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::Corner((anonymous namespace)::D2::element const*,
> int)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:947:
> > undefined reference to `(anonymous namespace)::D2::n_offset'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::GetEdge((anonymous namespace)::D2::node*, (anonymous
> > namespace)::D2::node*)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:962:
> > undefined reference to `(anonymous namespace)::D2::GetEdge((anonymous
> > namespace)::D2::node const*, (anonymous namespace)::D2::node const*)'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UGGridEntity<0, 2, Dune::UGGrid<2>
> > const>::UGGridEntity((anonymous namespace)::D2::element*,
> > Dune::UGGrid<2> const*)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/uggridentity.hh:619:
> > undefined reference to `Dune::UGGridEntity<0, 2, Dune::UGGrid<2>
> > const>::setToTarget((anonymous namespace)::D2::element*,
> Dune::UGGrid<2>
> > const*)'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UG_NS<2>::DDD_InfoProcList(DDD::DDDContext&,
> DDD::DDD_HEADER*)':
> > /home/peiravim/dune/dune-grid/dune/grid/uggrid/ugwrapper.hh:134:
> > undefined reference to `(anonymous
> > namespace)::D2::DDD_InfoProcList(DDD::DDDContext&, DDD::DDD_HEADER*)'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UGGridLeafIterator<0, (Dune::PartitionIteratorType)4,
> > Dune::UGGrid<2> const>::globalIncrement()':
> >
> /home/peiravim/dune/dune-grid/dune/grid/uggrid/uggridleafiterator.hh:161:
> undefined
> > reference to `Dune::UGGridEntity<0, 2, Dune::UGGrid<2>
> > const>::setToTarget((anonymous namespace)::D2::element*,
> Dune::UGGrid<2>
> > const*)'
> >
> /home/peiravim/dune/dune-grid/dune/grid/uggrid/uggridleafiterator.hh:176:
> undefined
> > reference to `Dune::UGGridEntity<0, 2, Dune::UGGrid<2>
> > const>::setToTarget((anonymous namespace)::D2::element*,
> Dune::UGGrid<2>
> > const*)'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UGGridLeafIterator<0, (Dune::PartitionIteratorType)4,
> > Dune::UGGrid<2> const>::UGGridLeafIterator(Dune::UGGrid<2> const&)':
> >
> /home/peiravim/dune/dune-grid/dune/grid/uggrid/uggridleafiterator.hh:54:
> > undefined reference to `Dune::UGGridEntity<0, 2, Dune::UGGrid<2>
> > const>::setToTarget((anonymous namespace)::D2::element*,
> Dune::UGGrid<2>
> > const*)'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UGGridLeafIterator<0, (Dune::PartitionIteratorType)4,
> > Dune::UGGrid<2> const>::UGGridLeafIterator()':
> >
> /home/peiravim/dune/dune-grid/dune/grid/uggrid/uggridleafiterator.hh:73:
> > undefined reference to `Dune::UGGridEntity<0, 2, Dune::UGGrid<2>
> > const>::setToTarget((anonymous namespace)::D2::element*,
> Dune::UGGrid<2>
> > const*)'
> > CMakeFiles/hydrateDG-Ex1.dir/hydrateDG-Ex1.cc.o: In function
> > `Dune::UGGridLeafIterator<0, (Dune::PartitionIteratorType)1,
> > Dune::UGGrid<2> const>::UGGridLeafIterator(Dune::UGGrid<2> const&)':
> >
> /home/peiravim/dune/dune-grid/dune/grid/uggrid/uggridleafiterator.hh:58:
> > undefined reference to `Dune::UGGridEntity<0, 2, Dune::UGGrid<2>
> > const>::setToTarget((anonymous namespace)::D2::element*,
> Dune::UGGrid<2>
> > const*)'
> >
> > Does anyone know what these errors are about and how can I fix it?
> > Thank you.
> > Amir
>
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--
Prof. Dr. Carsten Gräser
Freie Universität Berlin
Institut für Mathematik
Arnimallee 6
14195 Berlin, Germany
phone: +49 30 838 72637
fax : +49 30 838 472637
email: graeser at mi.fu-berlin.de
URL : http://page.mi.fu-berlin.de/graeser
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