Thanks for reporting this.

I fixed this.

(my compilation tests would have picked that up otherwise)

> 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/
> 
                  Sébastien Boisvert
                  http://github.com/sebhtml/ray

                                                     Sébastien
________________________________________
De : Matthew MacManes [macma...@gmail.com]
Date d'envoi : 22 juillet 2011 13:36
À : Ray Mailing List
Objet : [Denovoassembler-users] make error with latest version

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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