Greetings,
I have problem in "make check" of compiling parallel HDF5 using Intel Compilers on CentOS 6.5 64bit. I exactly follow the procedure described in this page but still get this error:
Testing t_pflush1 ============================ t_pflush1 Test Log ============================ Testing H5Fflush (part1) *** Hint *** You can use environment variable HDF5_PARAPREFIX to run parallel test files in a different directory or to add file type prefix. E.g., HDF5_PARAPREFIX=pfs:/PFS/user/me export HDF5_PARAPREFIX *** End of Hint *** rank 5 in job 8 iwf3_56776 caused collective abort of all ranks exit status of rank 5: return code 0 rank 4 in job 8 iwf3_56776 caused collective abort of all ranks exit status of rank 4: return code 0 0.04user 0.01system 0:00.31elapsed 19%CPU (0avgtext+0avgdata 47024maxresident)k 0inputs+0outputs (0major+7458minor)pagefaults 0swaps make[4]: *** [t_pflush1.chkexe_] Error 1 make[4]: Leaving directory `/home/iwf/hdf5/hdf5-1.8.18/testpar' make[3]: *** [build-check-p] Error 1 make[3]: Leaving directory `/home/iwf/hdf5/hdf5-1.8.18/testpar' make[2]: *** [test] Error 2 make[2]: Leaving directory `/home/iwf/hdf5/hdf5-1.8.18/testpar' make[1]: *** [check-am] Error 2 make[1]: Leaving directory `/home/iwf/hdf5/hdf5-1.8.18/testpar' make: *** [check-recursive] Error 1
any idea?
My configuration summary:
SUMMARY OF THE HDF5 CONFIGURATION ================================= General Information: ------------------- HDF5 Version: 1.8.18 Configured on: Wed Apr 19 14:41:23 +0430 2017 Configured by: iwf@iwf3 Configure mode: production Host system: x86_64-unknown-linux-gnu Uname information: Linux iwf3 2.6.32-504.23.4.el6.x86_64 #1 SMP Tue Jun 9 20:57:37 UTC 2015 x86_64 x86_64 x86_64 GNU/Linux Byte sex: little-endian Libraries: static, shared Installation point: /home/iwf/hdf5/1.8.18 Compiling Options: ------------------ Compilation Mode: production C Compiler: /opt/intel//impi/5.0.1.035/intel64/bin/mpicc ( built with gcc version 4.4.7 20120313 (Red Hat 4.4.7-11) (GCC)) CFLAGS: H5_CFLAGS: -std=c99 -pedantic -Wall -Wextra -Wundef -Wshadow -Wpointer-arith -Wbad-function-cast -Wcast-qual -Wcast-align -Wwrite-strings -Wconversion -Waggregate-return -Wstrict-prototypes -Wmissing-prototypes -Wmissing-declarations -Wredundant-decls -Wnested-externs -Winline -Wno-long-long -Wfloat-equal -Wmissing-format-attribute -Wmissing-noreturn -Wpacked -Wdisabled-optimization -Wformat=2 -Wunreachable-code -Wendif-labels -Wdeclaration-after-statement -Wold-style-definition -Winvalid-pch -Wvariadic-macros -Wnonnull -Winit-self -Wmissing-include-dirs -Wswitch-default -Wswitch-enum -Wunused-macros -Wunsafe-loop-optimizations -Wc++-compat -Wstrict-overflow -Wlogical-op -Wlarger-than=2048 -Wvla -Wsync-nand -Wframe-larger-than=16384 -Wpacked-bitfield-compat -O3 AM_CFLAGS: CPPFLAGS: H5_CPPFLAGS: -D_GNU_SOURCE -D_POSIX_C_SOURCE=200112L -DNDEBUG -UH5_DEBUG_API AM_CPPFLAGS: -I/home/iwf/zlib/1.2.11//include Shared C Library: yes Static C Library: yes Statically Linked Executables: no LDFLAGS: H5_LDFLAGS: AM_LDFLAGS: -L/home/iwf/zlib/1.2.11//lib Extra libraries: -lz -ldl -lm Archiver: ar Ranlib: ranlib Debugged Packages: API Tracing: no Languages: ---------- Fortran: no C++: no Features: --------- Parallel HDF5: yes High Level library: yes Threadsafety: no Default API Mapping: v18 With Deprecated Public Symbols: yes I/O filters (external): deflate(zlib) MPE: Direct VFD: no dmalloc: no Clear file buffers before write: yes Using memory checker: no Function Stack Tracing: no Strict File Format Checks: no Optimization Instrumentation: no
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