July 2015 - moab-dev - mailman3.cels.anl.gov

a bug in Coupler::locate_points
by Huayi Wei 17 Apr '17

17 Apr '17

Hi, Moab Dev, In the following member function, I think it is a bug for line ` tl = new TupleList(3, 0, 0, 0, num_points);`. Here create new TupleList which address will cover the address tl passed by user, and then user can not accsess it. I think it should be ' tl->initialize(3, 0, 0, 0, num_points)`, ```` ErrorCode Coupler::locate_points(double *xyz, unsigned int num_points, double rel_eps, double abs_eps, TupleList *tl, bool store_local) { ....... // Copy into tl if passed in and storing locally if (tl && store_local) { tl = new TupleList(3, 0, 0, 0, num_points); tl->enableWriteAccess(); memcpy(tl->vi_wr, tl_tmp->vi_rd, 3 * tl_tmp->get_n() * sizeof(int)); tl->set_n(tl_tmp->get_n()); tl->disableWriteAccess(); } .... } ``` Best Huayi

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build MOAB error
by Xu Wu 21 Jul '15

21 Jul '15

Greetings, I tried to build MOAB on a Ubuntu machine but I saw the following error: I am using Ubuntu 14.04, with mpich-3.0.4, HDF5-1.8.14 and netcdf-4.3.2. Previously I used successfully build MOAB with same configuration commands (Only difference is that I used openMPI before), but I do not know why doesn't it work this time. ../configure \ --prefix=/home/xu/research/softwares/Projects_warthog/warthog/moab/install \ --with-hdf5=/home/xu/research/softwares/Projects_warthog/Dependencies/hdf5-1.8.14 \ --with-netcdf=/home/xu/research/softwares/Projects_warthog/Dependencies/netcdf-4.3.2 \ --with-mpi \ --enable-shared CC=mpicc CXX=mpicxx FC=mpif90 F77=mpif77 I also attached the configuration log. (There are a few error messages, but I saw same messages before and I could still build MOAB, so I think they should not be the reason). Thank you. -Xu libtool: link: mpicxx -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -O2 -DNDEBUG -o .libs/hexmodops makeops.o -L/home/xu/research/softwares/Projects_warthog/Dependencies/netcdf-4.3.2/lib /home/xu/research/softwares/Projects_warthog/Dependencies/netcdf-4.3.2/lib/libnetcdf.so -L/home/xu/research/softwares/Projects_warthog/Dependencies/hdf5-1.8.14/lib ../src/.libs/libMOAB.so ../itaps/imesh/.libs/libiMesh.so -lz -ldl -lm -Wl,-rpath -Wl,/home/xu/research/softwares/Projects_warthog/Dependencies/netcdf-4.3.2/lib -Wl,-rpath -Wl,/home/xu/research/softwares/Projects_warthog/warthog/moab/install/lib ../src/.libs/libMOAB.so: undefined reference to `H5Pcreate' ../src/.libs/libMOAB.so: undefined reference to `H5Tget_size' ../src/.libs/libMOAB.so: undefined reference to `H5Fopen' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_INT_g' ../src/.libs/libMOAB.so: undefined reference to `H5check_version' ../src/.libs/libMOAB.so: undefined reference to `H5Tconvert' ../src/.libs/libMOAB.so: undefined reference to `H5Awrite' ../src/.libs/libMOAB.so: undefined reference to `H5Aclose' ../src/.libs/libMOAB.so: undefined reference to `H5Tset_tag' ../src/.libs/libMOAB.so: undefined reference to `H5Gunlink' ../src/.libs/libMOAB.so: undefined reference to `H5Acreate2' ../src/.libs/libMOAB.so: undefined reference to `H5Dget_space' ../src/.libs/libMOAB.so: undefined reference to `H5Gcreate2' ../src/.libs/libMOAB.so: undefined reference to `H5Tenum_nameof' ../src/.libs/libMOAB.so: undefined reference to `H5Aiterate2' ../src/.libs/libMOAB.so: undefined reference to `H5Eget_auto2' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_LLONG_g' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_B16_g' ../src/.libs/libMOAB.so: undefined reference to `H5Tenum_insert' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_SHORT_g' ../src/.libs/libMOAB.so: undefined reference to `H5Dread' ../src/.libs/libMOAB.so: undefined reference to `H5Tarray_create2' ../src/.libs/libMOAB.so: undefined reference to `H5Dfill' ../src/.libs/libMOAB.so: undefined reference to `H5Fget_obj_ids' ../src/.libs/libMOAB.so: undefined reference to `H5Gget_objname_by_idx' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_UCHAR_g' ../src/.libs/libMOAB.so: undefined reference to `H5Tequal' ../src/.libs/libMOAB.so: undefined reference to `H5Tcommit2' ../src/.libs/libMOAB.so: undefined reference to `H5Sget_simple_extent_ndims' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_HSSIZE_g' ../src/.libs/libMOAB.so: undefined reference to `H5Tset_size' ../src/.libs/libMOAB.so: undefined reference to `H5Fis_hdf5' ../src/.libs/libMOAB.so: undefined reference to `H5Topen2' ../src/.libs/libMOAB.so: undefined reference to `H5Fget_obj_count' ../src/.libs/libMOAB.so: undefined reference to `H5Aget_type' ../src/.libs/libMOAB.so: undefined reference to `H5Fcreate' ../src/.libs/libMOAB.so: undefined reference to `H5Pclose' ../src/.libs/libMOAB.so: undefined reference to `H5Screate_simple' ../src/.libs/libMOAB.so: undefined reference to `H5Sselect_hyperslab' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_DOUBLE_g' ../src/.libs/libMOAB.so: undefined reference to `H5Sget_simple_extent_dims' ../src/.libs/libMOAB.so: undefined reference to `H5P_CLS_DATASET_XFER_ID_g' ../src/.libs/libMOAB.so: undefined reference to `H5T_C_S1_g' ../src/.libs/libMOAB.so: undefined reference to `H5Dopen2' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_B32_g' ../src/.libs/libMOAB.so: undefined reference to `H5Tcopy' ../src/.libs/libMOAB.so: undefined reference to `H5Dget_type' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_ULLONG_g' ../src/.libs/libMOAB.so: undefined reference to `H5Tget_sign' ../src/.libs/libMOAB.so: undefined reference to `H5Screate' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_UINT_g' ../src/.libs/libMOAB.so: undefined reference to `H5Giterate' ../src/.libs/libMOAB.so: undefined reference to `H5Tget_super' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_FLOAT_g' ../src/.libs/libMOAB.so: undefined reference to `H5Eset_auto2' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_LONG_g' ../src/.libs/libMOAB.so: undefined reference to `H5Aopen_name' ../src/.libs/libMOAB.so: undefined reference to `H5Tget_array_dims2' ../src/.libs/libMOAB.so: undefined reference to `H5Aread' ../src/.libs/libMOAB.so: undefined reference to `H5Pset_dxpl_mpio' ../src/.libs/libMOAB.so: undefined reference to `H5Iget_type' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_LDOUBLE_g' ../src/.libs/libMOAB.so: undefined reference to `H5Sclose' ../src/.libs/libMOAB.so: undefined reference to `H5Gset_comment' ../src/.libs/libMOAB.so: undefined reference to `H5open' ../src/.libs/libMOAB.so: undefined reference to `H5Tclose' ../src/.libs/libMOAB.so: undefined reference to `H5Sselect_none' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_SCHAR_g' ../src/.libs/libMOAB.so: undefined reference to `H5Gopen2' ../src/.libs/libMOAB.so: undefined reference to `H5Tenum_create' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_B64_g' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_USHORT_g' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_B8_g' ../src/.libs/libMOAB.so: undefined reference to `H5Dwrite' ../src/.libs/libMOAB.so: undefined reference to `H5Tset_precision' ../src/.libs/libMOAB.so: undefined reference to `H5Dclose' ../src/.libs/libMOAB.so: undefined reference to `H5Tget_class' ../src/.libs/libMOAB.so: undefined reference to `H5Tcreate' ../src/.libs/libMOAB.so: undefined reference to `H5P_CLS_FILE_ACCESS_ID_g' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_ULONG_g' ../src/.libs/libMOAB.so: undefined reference to `H5Fclose' ../src/.libs/libMOAB.so: undefined reference to `H5Gget_num_objs' ../src/.libs/libMOAB.so: undefined reference to `H5Tget_precision' ../src/.libs/libMOAB.so: undefined reference to `H5Gclose' ../src/.libs/libMOAB.so: undefined reference to `H5Dcreate2' ../src/.libs/libMOAB.so: undefined reference to `H5Pset_fapl_mpio' ../src/.libs/libMOAB.so: undefined reference to `H5Scopy' collect2: error: ld returned 1 exit status make[2]: *** [hexmodops] Error 1 make[2]: Leaving directory `/home/xu/research/softwares/Projects_warthog/warthog/moab/build/tools' make[1]: *** [all-recursive] Error 1 make[1]: Leaving directory `/home/xu/research/softwares/Projects_warthog/warthog/moab/build/tools' make: *** [all-recursive] Error 1

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build MOAB error
by Xu Wu 21 Jul '15

21 Jul '15

Greetings, I tried to build MOAB on a Ubuntu machine but I saw the following error: I am using Ubuntu 14.04, with mpich-3.0.4, HDF5-1.8.14 and netcdf-4.3.2. Previously I used successfully build MOAB with same configuration commands (Only difference is that I used openMPI before), but I do not know why doesn't it work this time. I also attached the configuration log. (There are a few error messages, but I saw same messages before and I could still build MOAB, so I think they should not be the reason). Thank you. -Xu libtool: link: mpicxx -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -O2 -DNDEBUG -o .libs/hexmodops makeops.o -L/home/xu/research/softwares/Projects_warthog/Dependencies/netcdf-4.3.2/lib /home/xu/research/softwares/Projects_warthog/Dependencies/netcdf-4.3.2/lib/libnetcdf.so -L/home/xu/research/softwares/Projects_warthog/Dependencies/hdf5-1.8.14/lib ../src/.libs/libMOAB.so ../itaps/imesh/.libs/libiMesh.so -lz -ldl -lm -Wl,-rpath -Wl,/home/xu/research/softwares/Projects_warthog/Dependencies/netcdf-4.3.2/lib -Wl,-rpath -Wl,/home/xu/research/softwares/Projects_warthog/warthog/moab/install/lib ../src/.libs/libMOAB.so: undefined reference to `H5Pcreate' ../src/.libs/libMOAB.so: undefined reference to `H5Tget_size' ../src/.libs/libMOAB.so: undefined reference to `H5Fopen' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_INT_g' ../src/.libs/libMOAB.so: undefined reference to `H5check_version' ../src/.libs/libMOAB.so: undefined reference to `H5Tconvert' ../src/.libs/libMOAB.so: undefined reference to `H5Awrite' ../src/.libs/libMOAB.so: undefined reference to `H5Aclose' ../src/.libs/libMOAB.so: undefined reference to `H5Tset_tag' ../src/.libs/libMOAB.so: undefined reference to `H5Gunlink' ../src/.libs/libMOAB.so: undefined reference to `H5Acreate2' ../src/.libs/libMOAB.so: undefined reference to `H5Dget_space' ../src/.libs/libMOAB.so: undefined reference to `H5Gcreate2' ../src/.libs/libMOAB.so: undefined reference to `H5Tenum_nameof' ../src/.libs/libMOAB.so: undefined reference to `H5Aiterate2' ../src/.libs/libMOAB.so: undefined reference to `H5Eget_auto2' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_LLONG_g' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_B16_g' ../src/.libs/libMOAB.so: undefined reference to `H5Tenum_insert' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_SHORT_g' ../src/.libs/libMOAB.so: undefined reference to `H5Dread' ../src/.libs/libMOAB.so: undefined reference to `H5Tarray_create2' ../src/.libs/libMOAB.so: undefined reference to `H5Dfill' ../src/.libs/libMOAB.so: undefined reference to `H5Fget_obj_ids' ../src/.libs/libMOAB.so: undefined reference to `H5Gget_objname_by_idx' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_UCHAR_g' ../src/.libs/libMOAB.so: undefined reference to `H5Tequal' ../src/.libs/libMOAB.so: undefined reference to `H5Tcommit2' ../src/.libs/libMOAB.so: undefined reference to `H5Sget_simple_extent_ndims' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_HSSIZE_g' ../src/.libs/libMOAB.so: undefined reference to `H5Tset_size' ../src/.libs/libMOAB.so: undefined reference to `H5Fis_hdf5' ../src/.libs/libMOAB.so: undefined reference to `H5Topen2' ../src/.libs/libMOAB.so: undefined reference to `H5Fget_obj_count' ../src/.libs/libMOAB.so: undefined reference to `H5Aget_type' ../src/.libs/libMOAB.so: undefined reference to `H5Fcreate' ../src/.libs/libMOAB.so: undefined reference to `H5Pclose' ../src/.libs/libMOAB.so: undefined reference to `H5Screate_simple' ../src/.libs/libMOAB.so: undefined reference to `H5Sselect_hyperslab' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_DOUBLE_g' ../src/.libs/libMOAB.so: undefined reference to `H5Sget_simple_extent_dims' ../src/.libs/libMOAB.so: undefined reference to `H5P_CLS_DATASET_XFER_ID_g' ../src/.libs/libMOAB.so: undefined reference to `H5T_C_S1_g' ../src/.libs/libMOAB.so: undefined reference to `H5Dopen2' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_B32_g' ../src/.libs/libMOAB.so: undefined reference to `H5Tcopy' ../src/.libs/libMOAB.so: undefined reference to `H5Dget_type' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_ULLONG_g' ../src/.libs/libMOAB.so: undefined reference to `H5Tget_sign' ../src/.libs/libMOAB.so: undefined reference to `H5Screate' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_UINT_g' ../src/.libs/libMOAB.so: undefined reference to `H5Giterate' ../src/.libs/libMOAB.so: undefined reference to `H5Tget_super' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_FLOAT_g' ../src/.libs/libMOAB.so: undefined reference to `H5Eset_auto2' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_LONG_g' ../src/.libs/libMOAB.so: undefined reference to `H5Aopen_name' ../src/.libs/libMOAB.so: undefined reference to `H5Tget_array_dims2' ../src/.libs/libMOAB.so: undefined reference to `H5Aread' ../src/.libs/libMOAB.so: undefined reference to `H5Pset_dxpl_mpio' ../src/.libs/libMOAB.so: undefined reference to `H5Iget_type' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_LDOUBLE_g' ../src/.libs/libMOAB.so: undefined reference to `H5Sclose' ../src/.libs/libMOAB.so: undefined reference to `H5Gset_comment' ../src/.libs/libMOAB.so: undefined reference to `H5open' ../src/.libs/libMOAB.so: undefined reference to `H5Tclose' ../src/.libs/libMOAB.so: undefined reference to `H5Sselect_none' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_SCHAR_g' ../src/.libs/libMOAB.so: undefined reference to `H5Gopen2' ../src/.libs/libMOAB.so: undefined reference to `H5Tenum_create' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_B64_g' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_USHORT_g' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_B8_g' ../src/.libs/libMOAB.so: undefined reference to `H5Dwrite' ../src/.libs/libMOAB.so: undefined reference to `H5Tset_precision' ../src/.libs/libMOAB.so: undefined reference to `H5Dclose' ../src/.libs/libMOAB.so: undefined reference to `H5Tget_class' ../src/.libs/libMOAB.so: undefined reference to `H5Tcreate' ../src/.libs/libMOAB.so: undefined reference to `H5P_CLS_FILE_ACCESS_ID_g' ../src/.libs/libMOAB.so: undefined reference to `H5T_NATIVE_ULONG_g' ../src/.libs/libMOAB.so: undefined reference to `H5Fclose' ../src/.libs/libMOAB.so: undefined reference to `H5Gget_num_objs' ../src/.libs/libMOAB.so: undefined reference to `H5Tget_precision' ../src/.libs/libMOAB.so: undefined reference to `H5Gclose' ../src/.libs/libMOAB.so: undefined reference to `H5Dcreate2' ../src/.libs/libMOAB.so: undefined reference to `H5Pset_fapl_mpio' ../src/.libs/libMOAB.so: undefined reference to `H5Scopy' collect2: error: ld returned 1 exit status make[2]: *** [hexmodops] Error 1 make[2]: Leaving directory `/home/xu/research/softwares/Projects_warthog/warthog/moab/build/tools' make[1]: *** [all-recursive] Error 1 make[1]: Leaving directory `/home/xu/research/softwares/Projects_warthog/warthog/moab/build/tools' make: *** [all-recursive] Error 1

1 0

error while loading shared libraries: libnetcdf.so.7:
by Xu Wu 13 Jul '15

13 Jul '15

Dear MOAB developers, I was trying to play with MOAB on my own laptop (Ubuntu 14.04). I was able to compile those examples, but when I try to run them the following error occured: However, as you can see above, I do have netcdf libraries installed and they are on the search path for MOAB. I attached the configuration log, the "makefile" in " /examples", as well as the "moab.make" in "/moab-4.8.1/lib/". Thank you, -Xu

2 2

questions about coupler
by 魏华祎 10 Jul '15

10 Jul '15

Hi, Moab Developers, I have two questions about coupler. There is only one IntegType in coupler which is VOLUME. So my first question is, does the `normalize_mesh` work on 2d quad mesh which is just a surface mesh? when I use it on my quad mesh, I get result like `normalization_factor=0'. ``` mbc->normalize_mesh(src_mesh, tagName.c_str(), Coupler::VOLUME, 4); mbc->normalize_mesh(tar_mesh, tagName.c_str(), Coupler::VOLUME, 4); // ``` After I locate the positon of some points in source mesh, how to get the quad cell handle in the source mesh which one point locate in? Or how to get the points which locate in a given quad cell of source mesh. I try to use TupleList, but I am confused about the usage of TupleList. ``` TupleList tl; mbc->locate_points(vpos.data(), num_of_points, 0.0, toler, &tl); ``` Thanks for your help. Best Huayi

1 0

coupler test can not work well
by 魏华祎 09 Jul '15

09 Jul '15

Hi, MOAB Developer, I code a very simple test , please see the attachment. The source mesh is following: (-1, 1) ------------(0, 1)--------------(1, 1) | | | | | | (-1, 0)-------------(0, 0)-------------(1, 0) | | | | | | (-1, -1)------------(0, -1)------------(1, -1) In every quad, there is a constant. For example, [1.0, 2.0, 2.0, 3.0] ( from left to right and bottom to up) . I just change point (0, 0) as (0.3, 0.4) to get the target mesh. I can compile it, but when I run it, it throw a segment error. This is my first time to use mb coupler tool, and not sure what mistake I have made, so I need your help. Thanks very much. Best Huayi 2015-07-09 9:56 GMT+08:00 魏华祎 <huayiwei1984(a)gmail.com>: > My application mesh is a block structured mesh, which vertices will > move and hence the mesh quality will become bad, so I need to > optimize the location of mesh vertices. Then I need to tansfer data > from old mesh to new mesh. That's my problem. My program is parallel > and there is a structured quad mesh on each processor. By the way, > my program is not based on Moab. But I want to use > the coupler tool in moab. So fristly I need transfer my mesh into Moab. > > At present, I explicityly transfer my every block mesh to the > repesentation of vertices and coonecicity, just as your suggection. I > am writing a test first. Dose you have better idea about it? > > 2015-07-09 9:36 GMT+08:00 Vijay S. Mahadevan <vijay.m(a)gmail.com>: >> If you are asking about the ScdBox structure, I'm unsure. I don't >> think we have a test for this. However, if you explicitly represent >> the vertices and connectivity, usage of a structured grid is >> transparent to MOAB interfaces and everything should work as is. >> >> What type of problems are you solving ? Are you using a logically >> structured or performing stencil computations ? >> >> Vijay >> >> On Wed, Jul 8, 2015 at 8:33 PM, 魏华祎 <huayiwei1984(a)gmail.com> wrote: >>> Hi, Vijay, >>> >>> Thanks for your reply. So it also work on Structured Mesh >>> Representation of Moab? >>> >>> Best >>> >>> Huayi >>> >>> 2015-07-09 6:50 GMT+08:00 Vijay S. Mahadevan <vijay.m(a)gmail.com>: >>>> No it should work for any dimension and is not restricted to 3-D. Have >>>> you tried using the coupler for your problem ? If you have issues, >>>> send us a test case and the meshes. You can also use mbcoupler_test to >>>> verify whether the solution defined on your source mesh is being >>>> transferred correctly onto the target mesh. >>>> >>>> Vijay >>>> >>>> On Wed, Jul 8, 2015 at 5:33 PM, 魏华祎 <huayiwei1984(a)gmail.com> wrote: >>>>> Hi, There, >>>>> >>>>> I am trying to use Moab Coupler transfer data between 2d meshes, but I >>>>> am not sure if it works on 2d mesh. >>>>> >>>>> Please give me some suggestion, thanks very much. >>>>> >>>>> Best >>>>> >>>>> Huayi

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Does Moab Coupler only work on 3D meshes?
by 魏华祎 08 Jul '15

08 Jul '15

Hi, There, I am trying to use Moab Coupler transfer data between 2d meshes, but I am not sure if it works on 2d mesh. Please give me some suggestion, thanks very much. Best Huayi

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MOAB error: Undefined symbols for architecture x86_64
by Wu, Xu 06 Jul '15

06 Jul '15

Hi, I tried a few MOAB examples, and got compile errors like below. I am using OS X Yosemite 10.10.3. Can anybody suggest a solution? Thanks. [xuwu][~/software/sharp_deps/moab-4.8.0/share/examples]> make HelloMOAB MOAB_DIR=/Users/xuwu/software/sharp_deps/moab-4.8.0 CPPFLAGS=-I/Users/xuwu/software/sharp_deps/moab-4.8.0/include/ mpicxx -I/Users/xuwu/software/sharp_deps/moab-4.8.0/include/ HelloMOAB.cpp -o HelloMOAB Undefined symbols for architecture x86_64: "moab::Core::Core()", referenced from: _main in ccfOALBp.o "moab::Range::clear()", referenced from: moab::Range::~Range() in ccfOALBp.o "moab::MBError(int, char const*, char const*, char const*, moab::ErrorCode, char const*, moab::ErrorType)", referenced from: _main in ccfOALBp.o "moab::Range::size() const", referenced from: _main in ccfOALBp.o ld: symbol(s) not found for architecture x86_64 collect2: error: ld returned 1 exit status make: *** [HelloMOAB] Error 1 -Xu

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Periodically flushing tags to disk?
by Gerd Heber 02 Jul '15

02 Jul '15

Happy 4th of July everybody! We are currently running a simulation, which creates new tags at runtime and only at the end writes the entire MOAB to disk (via DMMoabOutput). This method is wasteful and dangerous because we might run out of memory and, in case of premature termination, end up with nothing (on disk). We were wondering if there was a way to flush tags to disk periodically and limit our memory footprint? Ideally, this would not require writing the mesh again. We are also not wedded to the PETSc MOAB interface. If there is an MOAB-native way, that would be fine as well. Thanks, G.

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Cylindrical Mesh
by Patrick Shriwise 01 Jul '15

01 Jul '15

Hi all, I think there was a thread about this a while ago... I recently got an email from someone at GWU asking about a geometry/mesh library which can do volume fractions in cylindrical coordinates. They were originally looking for a way to do this via the pytaps interface, but are willing to use other methods if they are available. I feel like I remember someone mentioning that there is access to cylindrical mesh elements in MOAB, but I couldn't be sure. Is this true or am I daydreaming? Cheers, Patrick

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