using /work/01301/mmacmane/sebhtml-ray-v1.6.1-61-gaf7557e.tar.gz, pulled from
git this AM.. Seems to be related to LIBBZ2=y, removing this requirement
eliminates the error. (login3$ which bzip2 --> /usr/bin/bzip2)
make PREFIX=/work/01301/mmacmane/ray.new/build MAXKMERLENGTH=64 HAVE_LIBBZ2=y
MPICXX=/work/01301/mmacmane/yye00/openmpi-1.4.2_install/bin/mpicxx
Compilation options (you can change them of course)
PREFIX = /work/01301/mmacmane/ray.new/build
MAXKMERLENGTH = 64
FORCE_PACKING = n
ASSERT = n
HAVE_LIBZ = n
HAVE_LIBBZ2 = y
HAVE_CLOCK_GETTIME = n
INTEL_COMPILER = n
VIRTUAL_SEQUENCER = n
MPICXX = /work/01301/mmacmane/yye00/openmpi-1.4.2_install/bin/mpicxx
GPROF = n
OPTIMIZE = y
DEBUG = n
Compilation and linking flags (generated automatically)
CXXFLAGS = -Icode -Wall -std=c++98 -D MAXKMERLENGTH=64 -O3 -DHAVE_LIBBZ2
LDFLAGS = -lbz2
MPICXX code/memory/ReusableMemoryStore.cpp
MPICXX code/memory/MyAllocator.cpp
MPICXX code/memory/RingAllocator.cpp
MPICXX code/memory/malloc_types.cpp
MPICXX code/memory/allocator.cpp
MPICXX code/memory/DefragmentationGroup.cpp
MPICXX code/memory/ChunkAllocatorWithDefragmentation.cpp
MPICXX code/memory/DefragmentationLane.cpp
MPICXX code/communication/mpi_tags.cpp
MPICXX code/communication/VirtualCommunicator.cpp
MPICXX code/communication/BufferedData.cpp
MPICXX code/communication/Message.cpp
MPICXX code/communication/MessageProcessor.cpp
In file included from code/assembler/Loader.h:38,
from code/assembler/SequencesLoader.h:27,
from code/communication/MessageProcessor.h:36,
from code/communication/MessageProcessor.cpp:27:
code/format/FastqBz2Loader.h:30:36: error: memory/OnDiskAllocator.h: No such
file or directory
make: *** [code/communication/MessageProcessor.o] Error 1
____________________________________________
Matthew MacManes
University of California- Berkeley
Museum of Vertebrate Zoology
Phone: 510-495-5833
Lab Website: http://ib.berkeley.edu/labs/lacey
Personal Website: http://macmanes.com/
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