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[foam-extend.org] foam-extend-4.0 install not as root |
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February 27, 2019, 16:38
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foam-extend-4.0 install not as root
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#1 |
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Member
Mike Tree
Join Date: Feb 2016
Location: Charlotte, NC
Posts: 37
Rep Power: 10  |
I am attempting to install foam-extend-4.0 on a file system in which I am not root. Of course, I'm in a bit over my head and this isn't working out.
When running the following command: Code:
./Allwmake | tee make.log Code:
1 make: Nothing to be done for `all'. 2 + wmakePrintBuild -check 3 same version as previous build 4 + wmakeLnInclude foam 5 + wmakeLnInclude meshTools 6 + wmakeLnInclude OSspecific/POSIX 7 + wmake libo OSspecific/POSIX 8 '/beegfs/users/mtree/foam/foam-extend-4.0/lib/linux64GccDPOpt/libOSspecific.o' is up to date. 9 + set +x 10 11 Note: ignore spurious warnings about missing mpicxx.h headers 12 + wmake libso foam 13 SOURCE=global/global.Cver ; sed -e 's/VERSION_STRING/4.0/' -e 's/BUILD_STRING/4.0-268bb07d15d8/' $SOURCE > Make/linux64GccDPOpt/global.C; g++ -m64 -Dlinux64 -DWM_DP -Wall -Wextra -Wno-u 14 /usr/bin/ld: cannot find -lmpi 15 /usr/bin/ld: skipping incompatible /lib/libm.so when searching for -lm 16 /usr/bin/ld: skipping incompatible /lib/libc.so when searching for -lc 17 collect2: error: ld returned 1 exit status 18 make: *** [/beegfs/users/mtree/foam/foam-extend-4.0/lib/linux64GccDPOpt/libfoam.so] Error 1 19 + decompositionMethods/AllwmakeLnInclude 20 + wmakeLnInclude decompositionMethods 21 + wmakeLnInclude metisDecomp 22 + wmakeLnInclude parMetisDecomp 23 + wmakeLnInclude scotchDecomp 24 + decompositionMethods/Allwmake 25 + wmakeLnInclude decompositionMethods 26 + wmake libso decompositionMethods 27 '/beegfs/users/mtree/foam/foam-extend-4.0/lib/linux64GccDPOpt/libdecompositionMethods.so' is up to date 28 + wmake libso metisDecomp 29 SOURCE=metisDecomp.C ; g++ -m64 -Dlinux64 -DWM_DP -Wall -Wextra -Wno-unused-parameter -Wold-style-cast -Wnon-virtual-dtor -O3 -DNoRepository -ftemplate-depth-200 -I -I../decomposi 30 In file included from metisDecomp.C:26:0: 31 metisDecomp.H:38:33: fatal error: decompositionMethod.H: No such file or directory 32 compilation terminated. 33 make: *** [Make/linux64GccDPOpt/metisDecomp.o] Error 1 34 + wmake libso parMetisDecomp 35 SOURCE=parMetisDecomp.C ; g++ -m64 -Dlinux64 -DWM_DP -Wall -Wextra -Wno-unused-parameter -Wold-style-cast -Wnon-virtual-dtor -O3 -DNoRepository -ftemplate-depth-200 -DOMPI_SKIP_MPICXX 36 In file included from parMetisDecomp.C:26:0: 37 parMetisDecomp.H:37:33: fatal error: decompositionMethod.H: No such file or directory 38 compilation terminated. 39 make: *** [Make/linux64GccDPOpt/parMetisDecomp.o] Error 1 40 + wmake libso scotchDecomp 41 SOURCE=scotchDecomp/scotchDecomp.C ; g++ -m64 -Dlinux64 -DWM_DP -Wall -Wextra -Wno-unused-parameter -Wold-style-cast -Wnon-virtual-dtor -O3 -DNoRepository -ftemplate-depth-200 -I 42 SOURCE=engineScotchDecomp/engineScotchDecomp.C ; g++ -m64 -Dlinux64 -DWM_DP -Wall -Wextra -Wno-unused-parameter -Wold-style-cast -Wnon-virtual-dtor -O3 -DNoRepository -ftemplate-depth 43 In file included from scotchDecomp/scotchDecomp.C:107:0: 44 scotchDecomp/scotchDecomp.H:38:33: fatal error: decompositionMethod.H: No such file or directory 45 compilation terminated. 46 In file included from engineScotchDecomp/engineScotchDecomp.H:49:0, 47 from engineScotchDecomp/engineScotchDecomp.C: 48 lnInclude/scotchDecomp.H:38:33: fatal error: decompositionMethod.H: No such file or directory 49 compilation terminated. 50 make: *** [Make/linux64GccDPOpt/engineScotchDecomp.o] Error 1 51 make: *** Waiting for unfinished jobs.... 52 make: *** [Make/linux64GccDPOpt/scotchDecomp.o] Error 1 53 + wmake libso lagrangian/basic 54 '/beegfs/users/mtree/foam/foam-extend-4.0/lib/linux64GccDPOpt/liblagrangian.so' is up to date. 55 + wmake libso edgeMesh 56 '/beegfs/users/mtree/foam/foam-extend-4.0/lib/linux64GccDPOpt/libedgeMesh.so' is up to date. 57 + wmake libso surfMesh 58 '/beegfs/users/mtree/foam/foam-extend-4.0/lib/linux64GccDPOpt/libsurfMesh.so' is up to date. 59 + wmake libso meshTools 60 '/beegfs/users/mtree/foam/foam-extend-4.0/lib/linux64GccDPOpt/libmeshTools.so' is up to date. 61 + wmake libso finiteVolume 62 '/beegfs/users/mtree/foam/foam-extend-4.0/lib/linux64GccDPOpt/libfiniteVolume.so' is up to date. 63 + wmake libso finiteArea 64 '/beegfs/users/mtree/foam/foam-extend-4.0/lib/linux64GccDPOpt/libfiniteArea.so' is up to date. 65 + wmake libso lduSolvers 66 '/beegfs/users/mtree/foam/foam-extend-4.0/lib/linux64GccDPOpt/liblduSolvers.so' is up to date. 67 + wmake libso tetFiniteElement 68 '/beegfs/users/mtree/foam/foam-extend-4.0/lib/linux64GccDPOpt/libtetFiniteElement.so' is up to date. 69 + dynamicMesh/AllwmakeLnInclude 70 + wmakeLnInclude dynamicMesh 71 + wmakeLnInclude dynamicFvMesh 72 + wmakeLnInclude topoChangerFvMeshG
I have no prefs.sh file. Running foamInstallationTest provides the following: Code:
4 Checking basic setup... 5 ------------------------------------------------------------------------------- 6 Shell: bash 7 Host: corvidpost7.corvidtec.com 8 OS: Linux version 3.10.0-957.1.3.el7.x86_64 9 ------------------------------------------------------------------------------- 10 11 12 Checking main foam-extend env variables... 13 ------------------------------------------------------------------------------- 14 Environment_variable Set_to_file_or_directory Valid Crit 15 ------------------------------------------------------------------------------- 16 $WM_PROJECT_INST_DIR /beegfs/users/mtree/foam yes yes 17 $WM_PROJECT_USER_DIR /beegfs/users/mtree/foam/mtree-4.0 no no 18 $WM_THIRD_PARTY_DIR ...tree/foam/foam-extend-4.0/ThirdParty yes yes 19 ------------------------------------------------------------------------------- 20 21 22 Checking the foam-extend env variables set on the PATH... 23 ------------------------------------------------------------------------------- 24 Environment_variable Set_to_file_or_directory Valid Path Crit 25 ------------------------------------------------------------------------------- 26 $WM_PROJECT_DIR /beegfs/users/mtree/foam/foam-extend-4.0 yes yes yes 27 28 $FOAM_APPBIN ...4.0/applications/bin/linux64GccDPOpt yes yes yes 29 $FOAM_SITE_APPBIN ...ee/foam/site/4.0/bin/linux64GccDPOpt yes yes no 30 $FOAM_USER_APPBIN ...4.0/applications/bin/linux64GccDPOpt no no 31 $WM_DIR ...ers/mtree/foam/foam-extend-4.0/wmake yes yes yes 32 ------------------------------------------------------------------------------- 33 34 35 Checking the foam-extend env variables set on the LD_LIBRARY_PATH... 36 ------------------------------------------------------------------------------- 37 Environment_variable Set_to_file_or_directory Valid Path Crit 38 ------------------------------------------------------------------------------- 39 $FOAM_LIBBIN .../foam-extend-4.0/lib/linux64GccDPOpt yes yes yes 40 $FOAM_SITE_LIBBIN ...ee/foam/site/4.0/lib/linux64GccDPOpt yes yes no 41 $FOAM_USER_LIBBIN ...e/foam/mtree-4.0/lib/linux64GccDPOpt no no 42 $MPI_ARCH_PATH --------- env variable not set --------- yes 43 ------------------------------------------------------------------------------- 44 45 46 Third party software 47 ------------------------------------------------------------------------------- 48 Software Version Location 49 ------------------------------------------------------------------------------- 50 WARNING: gcc version does not match gcc supplied with this release of foam-extend 51 Supplied version: 4.3.3 52 User version : 5.4.0 53 Minimum required: 4.3.1 54 55 gcc 5.4.0 56 WARNING: Conflicting installations: 57 foam-extend settings : /bin/gcc 58 current path : /opt/Software/gcc/5.4.0/bin/gcc 59 CRITICAL ERROR 60 61 gzip 1.5 /usr/bin/gzip 62 tar 1.26 /usr/bin/tar 63 icoFoam 64 WARNING: Conflicting installations: 65 foam-extend settings : /beegfs/users/mtree/foam/foam-extend-4.0/applications/bin/linux64GccDPOpt/icoFoam 66 current path : 67 CRITICAL ERROR 68 69 ------------------------------------------------------------------------------- 70 71 72 Summary 73 ------------------------------------------------------------------------------- 74 Base configuration ok. 75 76 The foam installation contains 2 critical error(s). 77 78 Review the output for warning messages and consult 79 the installation guide for trouble shooting. 80 81 done. |
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February 27, 2019, 18:57
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#2 |
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Retired Super Moderator
Bruno Santos
Join Date: Mar 2009
Location: Lisbon, Portugal
Posts: 10,975
Blog Entries: 45
Rep Power: 128  |
Quick questions:
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February 28, 2019, 15:05
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#3 |
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Member
Mike Tree
Join Date: Feb 2016
Location: Charlotte, NC
Posts: 37
Rep Power: 10 |
wyldckat,
I am running on Scientific Linux release 7.6 (Nitrogen) I started out following the instructions on the wiki, but then got side-tracked trying different things to get the install to complete. I don't remember all the steps, so I started over. With a clean slate, I then performed the following steps to arrive at the log.make.gz file that is attached:
foamInstallationTest still complains that $MPI_ARCH_PATH is not set and that gcc has conflicting installations Thanks for your help! MT |
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February 28, 2019, 17:17
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#4 |
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Retired Super Moderator
Bruno Santos
Join Date: Mar 2009
Location: Lisbon, Portugal
Posts: 10,975
Blog Entries: 45
Rep Power: 128 |
Quick answers:
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March 1, 2019, 07:56
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#5 |
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Member
Mike Tree
Join Date: Feb 2016
Location: Charlotte, NC
Posts: 37
Rep Power: 10 |
Yep, blockMesh seems to be working. No complaints about MPI. Guess I was worried about nothing.
Thanks! |
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February 25, 2020, 11:49
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#6 |
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Member
Thomas
Join Date: Nov 2017
Posts: 37
Rep Power: 8 |
Hi everyone
I am aware that this post is a few years old and there was never really an issue in the first place. However my issue is that I cannot install foam extend 4.0 on Centos 7. As I believe that the problem is the missing rpm-build package and I cannot install it due to no root access, I thought I post my problem here. The issue is that none of the ThirdParty packages are installed. They download properly but the folder RPMS stays empty. I can see that: "tools/makeThirdPartyFunctionsForRPM: line 180: rpmbuild: command not found" when checking if rpmbuild is available, "rpm rpm-build –q" it is not and as I don't have root access I cannot build it. Does anyone have any suggestions on how I can install foam-extend 4.0 on CentOS 7? |
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