QLogic OFED+ Host Software User Guide, Rev. B

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F–Troubleshooting QLogic MPI Troubleshooting For the second option, change the file /etc/ld.so.conf on the compute nodes rather than using the -Wl,-rpath, option when compiling on the development node. It is assumed that the mpi-lib-* RPM is installed on the compute nodes with the same --prefix /path/to/libs option as on the development nodes. Then, on the computer nodes, add the following lines to the file /etc/ld.so.conf: /path/to/libs/lib /path/to/libs/lib64 To make sure that the changes take effect, run (as a root user): # /etc/ldconfig The libraries can now be found by the runtime linker on the compute nodes. The advantage to this method is that it works for all InfiniPath programs, without having to remember to change the compile/link lines. Instead of either of the two previous mechanisms, you can also put the following line in the ~/.mpirunrc file: export LD_LIBRARY_PATH=/path/to/libs/{lib,lib64} See “Environment for Node Programs” on page 4-19 for more information on using the -rcfile option with mpirun. Choices between these options are left up to the cluster administrator and the MPI developer. See the documentation for your compiler for more information on the compiler options. Problem with Shell Special Characters and Wrapper Scripts Be careful when dealing with shell special characters, especially when using the mpicc, etc. wrapper scripts. These characters must be escaped to avoid the shell interpreting them. For example, when compiling code using the -D compiler flag, mpicc (and other wrapper scripts) will fail if the defined variable contains a space, even when surrounded by double quotes. In the following example, the result of the -show option reveals what happens to the variable: $ mpicc -show -DMYDEFINE="some value" test.c gcc -c -DMYDEFINE=some value test.c gcc -Wl,--export-dynamic,--allow-shlib-undefined test.o -lmpich F-16 D000046-005 B
F–Troubleshooting QLogic MPI Troubleshooting The shell strips off the double quotes before handing the arguments to the mpicc script, thus causing the problem. The workaround is to escape the double quotes and white space by using backslashes, so that the shell does not process them. (Also note the single quote (‘) around the -D, since the scripts do an eval rather than directly invoking the underlying compiler.) Use this command instead: $ mpicc -show -DMYDEFINE=\"some\ value\" test.c gcc -c ‘-DMYDEFINE="some value"‘ test.c gcc -Wl,--export-dynamic,--allow-shlib-undefined test.o -lmpich Run Time Errors with Different MPI Implementations It is now possible to run different implementations of MPI, such as HP-MPI, over InfiniPath. Many of these implementations share command (such as mpirun) and library names, so it is important to distinguish which MPI version is in use. This is done primarily through careful programming practices. Examples are provided in the following paragraphs. In the following command, the HP-MPI version of mpirun is invoked by the full path name. However, the program mpi_nxnlatbw was compiled with the QLogic version of mpicc. The mismatch produces errors similar this: $ /opt/hpmpi/bin/mpirun -hostlist "bbb-01,bbb-02,bbb-03,bbb-04" -np 4 /usr/bin/mpi_nxnlatbw bbb-02: Not running from mpirun. MPI Application rank 1 exited before MPI_Init() with status 1 bbb-03: Not running from mpirun. MPI Application rank 2 exited before MPI_Init() with status 1 bbb-01: Not running from mpirun. bbb-04: Not running from mpirun. MPI Application rank 3 exited before MPI_Init() with status 1 MPI Application rank 0 exited before MPI_Init() with status 1 D000046-005 B F-17
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QLogic OFED+ Host Software User Gui
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Table of Contents 1 Introduction Ho
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Preface The QLogic OFED+ Host Softw
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Preface Technical Support Technical
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1 Introduction How this Guide is Or
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1-Introduction Interoperability QLo
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2 Step-by-Step Cluster Setup and MP
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3 TrueScale Cluster Setup and Admin
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3-TrueScale Cluster Setup and Admin
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4 Running QLogic MPI on QLogic Adap
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4-Running QLogic MPI on QLogic Adap
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5 Using Other MPIs Introduction Thi
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5-Using Other MPIs Open MPI Open MP
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5-Using Other MPIs MVAPICH Further
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5-Using Other MPIs Managing Open MP
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5-Using Other MPIs Platform (Scali)
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5-Using Other MPIs Intel MPI Intel
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5-Using Other MPIs Intel MPI When u
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5-Using Other MPIs Improving Perfor
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6 Performance Scaled Messaging Intr
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6-Performance Scaled Messaging Usin
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7 Dispersive Routing Infiniband use
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7-Dispersive Routing • Static_Des
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8 gPXE gPXE Setup gPXE is an open s
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8-gPXE Preparing the DHCP Server in
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8-gPXE Netbooting Over InfiniBand P
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8-gPXE Netbooting Over InfiniBand W
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8-gPXE Netbooting Over InfiniBand #
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8-gPXE Netbooting Over InfiniBand #
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8-gPXE Netbooting Over InfiniBand T
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8-gPXE HTTP Boot Setup 5. Create an
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A mpirun Options Summary This secti
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A-mpirun Options Summary Quiescence
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A-mpirun Options Summary Tuning Opt
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A-mpirun Options Summary Format Opt
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B Benchmark Programs Several MPI pe
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B-Benchmark Programs Benchmark 2: M
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B-Benchmark Programs Benchmark 4: M
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C VirtualNIC Interface Configuratio
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C-VirtualNIC Interface Configuratio
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Page 157 and 158: C-VirtualNIC Interface Configuratio
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Page 161 and 162: D SRP Configuration SRP Configurati
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Page 187 and 188: E Integration with a Batch Queuing
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Page 193 and 194: F Troubleshooting This appendix des
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Page 199 and 200: F-Troubleshooting OpenFabrics and I
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Page 203 and 204: F-Troubleshooting QLogic MPI Troubl
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Page 241 and 242: H Write Combining Introduction Writ
Page 243 and 244: H-Write Combining MTRR Mapping and
Page 245 and 246: I Useful Programs and Files The mos
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I-Useful Programs and Files Summary
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I-Useful Programs and Files Common
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J Recommended Reading Reference mat
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Corporate Headquarters QLogic Corpo
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