Re: Error when doing make from Dimitry Ayzenberg on 2009-09-10 (GADGET General Discussion Mailing List)

From: Dimitry Ayzenberg <dayzenbe_at_andrew.cmu.edu>
Date: Wed, 9 Sep 2009 22:35:47 -0400

After a quick google search I fixed that issue. Now I have one that's much
odder. I'll just paste the part of the make output where it goes wrong.

io.o: In function `write_header_attributes_in_hdf5':
io.c:(.text+0x4d2): undefined reference to `H5Screate'
io.c:(.text+0x4f3): undefined reference to `H5Sset_extent_simple'
io.c:(.text+0x4f8): undefined reference to `H5open'
io.c:(.text+0x4fd): undefined reference to `H5T_NATIVE_INT_g'
io.c:(.text+0x51d): undefined reference to `H5Acreate'
io.c:(.text+0x524): undefined reference to `H5open'
io.c:(.text+0x529): undefined reference to `H5T_NATIVE_UINT_g'
io.c:(.text+0x53d): undefined reference to `H5Awrite'
io.c:(.text+0x545): undefined reference to `H5Aclose'
io.c:(.text+0x54d): undefined reference to `H5Sclose'
io.c:(.text+0x559): undefined reference to `H5Screate'
io.c:(.text+0x57a): undefined reference to `H5Sset_extent_simple'
io.c:(.text+0x57f): undefined reference to `H5open'
io.c:(.text+0x584): undefined reference to `H5T_NATIVE_UINT_g'
io.c:(.text+0x5a4): undefined reference to `H5Acreate'
io.c:(.text+0x5ab): undefined reference to `H5open'
io.c:(.text+0x5b0): undefined reference to `H5T_NATIVE_UINT_g'
io.c:(.text+0x5c4): undefined reference to `H5Awrite'
io.c:(.text+0x5cc): undefined reference to `H5Aclose'
io.c:(.text+0x5d4): undefined reference to `H5Sclose'
io.c:(.text+0x5e0): undefined reference to `H5Screate'
io.c:(.text+0x601): undefined reference to `H5Sset_extent_simple'
io.c:(.text+0x606): undefined reference to `H5open'
io.c:(.text+0x60b): undefined reference to `H5T_NATIVE_UINT_g'
io.c:(.text+0x62b): undefined reference to `H5Acreate'
io.c:(.text+0x632): undefined reference to `H5open'
io.c:(.text+0x637): undefined reference to `H5T_NATIVE_UINT_g'
io.c:(.text+0x64b): undefined reference to `H5Awrite'
io.c:(.text+0x653): undefined reference to `H5Aclose'
io.c:(.text+0x65b): undefined reference to `H5Sclose'
io.c:(.text+0x667): undefined reference to `H5Screate'
io.c:(.text+0x688): undefined reference to `H5Sset_extent_simple'
io.c:(.text+0x68d): undefined reference to `H5open'
io.c:(.text+0x692): undefined reference to `H5T_NATIVE_DOUBLE_g'
io.c:(.text+0x6b2): undefined reference to `H5Acreate'
io.c:(.text+0x6b9): undefined reference to `H5open'
io.c:(.text+0x6be): undefined reference to `H5T_NATIVE_DOUBLE_g'
io.c:(.text+0x6d2): undefined reference to `H5Awrite'
io.c:(.text+0x6da): undefined reference to `H5Aclose'
io.c:(.text+0x6e2): undefined reference to `H5Sclose'
io.c:(.text+0x6ee): undefined reference to `H5Screate'
io.c:(.text+0x6f5): undefined reference to `H5open'
io.c:(.text+0x6fa): undefined reference to `H5T_NATIVE_DOUBLE_g'
io.c:(.text+0x71a): undefined reference to `H5Acreate'
io.c:(.text+0x721): undefined reference to `H5open'
io.c:(.text+0x726): undefined reference to `H5T_NATIVE_DOUBLE_g'
io.c:(.text+0x73a): undefined reference to `H5Awrite'
io.c:(.text+0x742): undefined reference to `H5Aclose'
io.c:(.text+0x74a): undefined reference to `H5Sclose'
io.c:(.text+0x756): undefined reference to `H5Screate'
io.c:(.text+0x75d): undefined reference to `H5open'
io.c:(.text+0x762): undefined reference to `H5T_NATIVE_DOUBLE_g'
io.c:(.text+0x782): undefined reference to `H5Acreate'
io.c:(.text+0x789): undefined reference to `H5open'
io.c:(.text+0x78e): undefined reference to `H5T_NATIVE_DOUBLE_g'
io.c:(.text+0x7a2): undefined reference to `H5Awrite'
io.c:(.text+0x7aa): undefined reference to `H5Aclose'
io.c:(.text+0x7b2): undefined reference to `H5Sclose'
io.c:(.text+0x7be): undefined reference to `H5Screate'
io.c:(.text+0x7c5): undefined reference to `H5open'
io.c:(.text+0x7ca): undefined reference to `H5T_NATIVE_DOUBLE_g'
io.c:(.text+0x7ea): undefined reference to `H5Acreate'
io.c:(.text+0x7f1): undefined reference to `H5open'
io.c:(.text+0x7f6): undefined reference to `H5T_NATIVE_DOUBLE_g'
io.c:(.text+0x80a): undefined reference to `H5Awrite'
io.c:(.text+0x812): undefined reference to `H5Aclose'
io.c:(.text+0x81a): undefined reference to `H5Sclose'
io.c:(.text+0x826): undefined reference to `H5Screate'
io.c:(.text+0x82d): undefined reference to `H5open'
io.c:(.text+0x832): undefined reference to `H5T_NATIVE_INT_g'
io.c:(.text+0x852): undefined reference to `H5Acreate'
io.c:(.text+0x859): undefined reference to `H5open'
io.c:(.text+0x85e): undefined reference to `H5T_NATIVE_INT_g'
io.c:(.text+0x872): undefined reference to `H5Awrite'
io.c:(.text+0x87a): undefined reference to `H5Aclose'
io.c:(.text+0x882): undefined reference to `H5Sclose'
io.c:(.text+0x88e): undefined reference to `H5Screate'
io.c:(.text+0x895): undefined reference to `H5open'
io.c:(.text+0x89a): undefined reference to `H5T_NATIVE_DOUBLE_g'
io.c:(.text+0x8ba): undefined reference to `H5Acreate'
io.c:(.text+0x8c1): undefined reference to `H5open'
io.c:(.text+0x8c6): undefined reference to `H5T_NATIVE_DOUBLE_g'
io.c:(.text+0x8da): undefined reference to `H5Awrite'
io.c:(.text+0x8e2): undefined reference to `H5Aclose'
io.c:(.text+0x8ea): undefined reference to `H5Sclose'
io.c:(.text+0x8f6): undefined reference to `H5Screate'
io.c:(.text+0x8fd): undefined reference to `H5open'
io.c:(.text+0x902): undefined reference to `H5T_NATIVE_DOUBLE_g'
io.c:(.text+0x922): undefined reference to `H5Acreate'
io.c:(.text+0x929): undefined reference to `H5open'
io.c:(.text+0x92e): undefined reference to `H5T_NATIVE_DOUBLE_g'
io.c:(.text+0x942): undefined reference to `H5Awrite'
io.c:(.text+0x94a): undefined reference to `H5Aclose'
io.c:(.text+0x952): undefined reference to `H5Sclose'
io.c:(.text+0x95e): undefined reference to `H5Screate'
io.c:(.text+0x965): undefined reference to `H5open'
io.c:(.text+0x96a): undefined reference to `H5T_NATIVE_DOUBLE_g'
io.c:(.text+0x98a): undefined reference to `H5Acreate'
io.c:(.text+0x991): undefined reference to `H5open'
io.c:(.text+0x996): undefined reference to `H5T_NATIVE_DOUBLE_g'
io.c:(.text+0x9aa): undefined reference to `H5Awrite'
io.c:(.text+0x9b2): undefined reference to `H5Aclose'
io.c:(.text+0x9ba): undefined reference to `H5Sclose'
io.c:(.text+0x9c6): undefined reference to `H5Screate'
io.c:(.text+0x9cd): undefined reference to `H5open'
io.c:(.text+0x9d2): undefined reference to `H5T_NATIVE_INT_g'
io.c:(.text+0x9f2): undefined reference to `H5Acreate'
io.c:(.text+0x9f9): undefined reference to `H5open'
io.c:(.text+0x9fe): undefined reference to `H5T_NATIVE_INT_g'
io.c:(.text+0xa12): undefined reference to `H5Awrite'
io.c:(.text+0xa1a): undefined reference to `H5Aclose'
io.c:(.text+0xa22): undefined reference to `H5Sclose'
io.c:(.text+0xa2e): undefined reference to `H5Screate'
io.c:(.text+0xa35): undefined reference to `H5open'
io.c:(.text+0xa3a): undefined reference to `H5T_NATIVE_INT_g'
io.c:(.text+0xa5a): undefined reference to `H5Acreate'
io.c:(.text+0xa61): undefined reference to `H5open'
io.c:(.text+0xa66): undefined reference to `H5T_NATIVE_INT_g'
io.c:(.text+0xa7a): undefined reference to `H5Awrite'
io.c:(.text+0xa82): undefined reference to `H5Aclose'
io.c:(.text+0xa8a): undefined reference to `H5Sclose'
io.c:(.text+0xa96): undefined reference to `H5Screate'
io.c:(.text+0xa9d): undefined reference to `H5open'
io.c:(.text+0xaa2): undefined reference to `H5T_NATIVE_INT_g'
io.c:(.text+0xac2): undefined reference to `H5Acreate'
io.c:(.text+0xac9): undefined reference to `H5open'
io.c:(.text+0xace): undefined reference to `H5T_NATIVE_INT_g'
io.c:(.text+0xae2): undefined reference to `H5Awrite'
io.c:(.text+0xaea): undefined reference to `H5Aclose'
io.c:(.text+0xaf2): undefined reference to `H5Sclose'
io.c:(.text+0xafe): undefined reference to `H5Screate'
io.c:(.text+0xb05): undefined reference to `H5open'
io.c:(.text+0xb0a): undefined reference to `H5T_NATIVE_INT_g'
io.c:(.text+0xb2a): undefined reference to `H5Acreate'
io.c:(.text+0xb31): undefined reference to `H5open'
io.c:(.text+0xb36): undefined reference to `H5T_NATIVE_INT_g'
io.c:(.text+0xb4a): undefined reference to `H5Awrite'
io.c:(.text+0xb52): undefined reference to `H5Aclose'
io.c:(.text+0xb5a): undefined reference to `H5Sclose'
io.c:(.text+0xb66): undefined reference to `H5Screate'
io.c:(.text+0xb6d): undefined reference to `H5open'
io.c:(.text+0xb72): undefined reference to `H5T_NATIVE_INT_g'
io.c:(.text+0xb92): undefined reference to `H5Acreate'
io.c:(.text+0xb99): undefined reference to `H5open'
io.c:(.text+0xb9e): undefined reference to `H5T_NATIVE_INT_g'
io.c:(.text+0xbb2): undefined reference to `H5Awrite'
io.c:(.text+0xbba): undefined reference to `H5Aclose'
io.c:(.text+0xbc2): undefined reference to `H5Sclose'
io.c:(.text+0xbd8): undefined reference to `H5Screate'
io.c:(.text+0xbf9): undefined reference to `H5Sset_extent_simple'
io.c:(.text+0xbfe): undefined reference to `H5open'
io.c:(.text+0xc03): undefined reference to `H5T_NATIVE_UINT_g'
io.c:(.text+0xc23): undefined reference to `H5Acreate'
io.c:(.text+0xc2a): undefined reference to `H5open'
io.c:(.text+0xc2f): undefined reference to `H5T_NATIVE_UINT_g'
io.c:(.text+0xc43): undefined reference to `H5Awrite'
io.c:(.text+0xc4b): undefined reference to `H5Aclose'
io.c:(.text+0xc53): undefined reference to `H5Sclose'
io.o: In function `write_file':
io.c:(.text+0x1d1f): undefined reference to `H5Sselect_hyperslab'
io.c:(.text+0x1d7a): undefined reference to `H5Screate_simple'
io.c:(.text+0x1db3): undefined reference to `H5Dwrite'
io.c:(.text+0x1dbb): undefined reference to `H5Sclose'
io.c:(.text+0x20dd): undefined reference to `H5Dclose'
io.c:(.text+0x20eb): undefined reference to `H5Sclose'
io.c:(.text+0x20f9): undefined reference to `H5Tclose'
io.c:(.text+0x212c): undefined reference to `H5open'
io.c:(.text+0x2131): undefined reference to `H5T_NATIVE_FLOAT_g'
io.c:(.text+0x2139): undefined reference to `H5Tcopy'
io.c:(.text+0x21df): undefined reference to `H5Screate_simple'
io.c:(.text+0x2214): undefined reference to `H5Dcreate'
io.c:(.text+0x25e0): undefined reference to `H5open'
io.c:(.text+0x25e5): undefined reference to `H5T_NATIVE_UINT_g'
io.c:(.text+0x25ed): undefined reference to `H5Tcopy'
io.c:(.text+0x2655): undefined reference to `H5Gclose'
io.c:(.text+0x266b): undefined reference to `H5Gclose'
io.c:(.text+0x2679): undefined reference to `H5Fclose'
io.c:(.text+0x26d2): undefined reference to `H5check_version'
io.c:(.text+0x26f2): undefined reference to `H5Fcreate'
io.c:(.text+0x2710): undefined reference to `H5Gcreate'
io.c:(.text+0x275f): undefined reference to `H5Gcreate'
read_ic.o: In function `read_header_attributes_in_hdf5':
read_ic.c:(.text+0x1e4): undefined reference to `H5check_version'
read_ic.c:(.text+0x1fc): undefined reference to `H5Fopen'
read_ic.c:(.text+0x20e): undefined reference to `H5Gopen'
read_ic.c:(.text+0x220): undefined reference to `H5Aopen_name'
read_ic.c:(.text+0x227): undefined reference to `H5open'
read_ic.c:(.text+0x22c): undefined reference to `H5T_NATIVE_INT_g'
read_ic.c:(.text+0x240): undefined reference to `H5Aread'
read_ic.c:(.text+0x248): undefined reference to `H5Aclose'
read_ic.c:(.text+0x258): undefined reference to `H5Aopen_name'
read_ic.c:(.text+0x25f): undefined reference to `H5open'
read_ic.c:(.text+0x264): undefined reference to `H5T_NATIVE_UINT_g'
read_ic.c:(.text+0x278): undefined reference to `H5Aread'
read_ic.c:(.text+0x280): undefined reference to `H5Aclose'
read_ic.c:(.text+0x290): undefined reference to `H5Aopen_name'
read_ic.c:(.text+0x297): undefined reference to `H5open'
read_ic.c:(.text+0x29c): undefined reference to `H5T_NATIVE_UINT_g'
read_ic.c:(.text+0x2b0): undefined reference to `H5Aread'
read_ic.c:(.text+0x2b8): undefined reference to `H5Aclose'
read_ic.c:(.text+0x2c8): undefined reference to `H5Aopen_name'
read_ic.c:(.text+0x2cf): undefined reference to `H5open'
read_ic.c:(.text+0x2d4): undefined reference to `H5T_NATIVE_DOUBLE_g'
read_ic.c:(.text+0x2e8): undefined reference to `H5Aread'
read_ic.c:(.text+0x2f0): undefined reference to `H5Aclose'
read_ic.c:(.text+0x300): undefined reference to `H5Aopen_name'
read_ic.c:(.text+0x307): undefined reference to `H5open'
read_ic.c:(.text+0x30c): undefined reference to `H5T_NATIVE_DOUBLE_g'
read_ic.c:(.text+0x320): undefined reference to `H5Aread'
read_ic.c:(.text+0x328): undefined reference to `H5Aclose'
read_ic.c:(.text+0x338): undefined reference to `H5Aopen_name'
read_ic.c:(.text+0x33f): undefined reference to `H5open'
read_ic.c:(.text+0x344): undefined reference to `H5T_NATIVE_INT_g'
read_ic.c:(.text+0x358): undefined reference to `H5Aread'
read_ic.c:(.text+0x360): undefined reference to `H5Aclose'
read_ic.c:(.text+0x370): undefined reference to `H5Aopen_name'
read_ic.c:(.text+0x377): undefined reference to `H5open'
read_ic.c:(.text+0x37c): undefined reference to `H5T_NATIVE_INT_g'
read_ic.c:(.text+0x390): undefined reference to `H5Aread'
read_ic.c:(.text+0x398): undefined reference to `H5Aclose'
read_ic.c:(.text+0x3a0): undefined reference to `H5Gclose'
read_ic.o: In function `read_file':
read_ic.c:(.text+0x128b): undefined reference to `H5Dopen'
read_ic.c:(.text+0x12f7): undefined reference to `H5Screate_simple'
read_ic.c:(.text+0x1340): undefined reference to `H5Screate_simple'
read_ic.c:(.text+0x13de): undefined reference to `H5Sselect_hyperslab'
read_ic.c:(.text+0x1411): undefined reference to `H5open'
read_ic.c:(.text+0x1416): undefined reference to `H5T_NATIVE_UINT_g'
read_ic.c:(.text+0x141e): undefined reference to `H5Tcopy'
read_ic.c:(.text+0x1461): undefined reference to `H5Dread'
read_ic.c:(.text+0x146f): undefined reference to `H5Tclose'
read_ic.c:(.text+0x1477): undefined reference to `H5Sclose'
read_ic.c:(.text+0x1485): undefined reference to `H5Sclose'
read_ic.c:(.text+0x1493): undefined reference to `H5Dclose'
read_ic.c:(.text+0x1541): undefined reference to `H5open'
read_ic.c:(.text+0x1546): undefined reference to `H5T_NATIVE_UINT64_g'
read_ic.c:(.text+0x154e): undefined reference to `H5Tcopy'
read_ic.c:(.text+0x1561): undefined reference to `H5open'
read_ic.c:(.text+0x1566): undefined reference to `H5T_NATIVE_FLOAT_g'
read_ic.c:(.text+0x156e): undefined reference to `H5Tcopy'
read_ic.c:(.text+0x173d): undefined reference to `H5Gclose'
read_ic.c:(.text+0x1754): undefined reference to `H5Gclose'
read_ic.c:(.text+0x176b): undefined reference to `H5Gclose'
read_ic.c:(.text+0x1783): undefined reference to `H5Gclose'
read_ic.c:(.text+0x179b): undefined reference to `H5Gclose'
read_ic.o:read_ic.c:(.text+0x17b3): more undefined references to
`H5Gclose' follow
read_ic.o: In function `read_file':
read_ic.c:(.text+0x17c1): undefined reference to `H5Fclose'
read_ic.c:(.text+0x1a65): undefined reference to `H5check_version'
read_ic.c:(.text+0x1a83): undefined reference to `H5Fopen'
read_ic.c:(.text+0x1ad2): undefined reference to `H5Gopen'
read_ic.c:(.text+0x1b22): undefined reference to `H5Gopen'
read_ic.c:(.text+0x1b72): undefined reference to `H5Gopen'
read_ic.c:(.text+0x1bc2): undefined reference to `H5Gopen'
read_ic.c:(.text+0x1c12): undefined reference to `H5Gopen'
read_ic.o:read_ic.c:(.text+0x1c66): more undefined references to `H5Gopen'
follow
read_ic.o: In function `read_header_attributes_in_hdf5':
read_ic.c:(.text+0x3af): undefined reference to `H5Fclose'
collect2: ld returned 1 exit status
make: *** [Gadget2] Error 1

Dimitry

On Wed, September 9, 2009 22:07, Dimitry Ayzenberg wrote:
>

> No that didn't fix it. Same error. Seems like it can't find srfftw_mpi.h.
> What would that not being there be caused by? The fftw install or the
> mpi install?
>
> Dimitry
>
>
>
> On Wed, September 9, 2009 21:40, Dimitry Ayzenberg wrote:
>
>>
>
>> I figured out the problem, I think. I used version 3 of fftw which
>> apparently doesn't work. Retrying with version 2 and using the extra
>> configuration options that are shown in the guide.
>>
>> Dimitry
>>
>>
>>
>>
>> On Wed, September 9, 2009 21:35, Dimitry Ayzenberg wrote:
>>
>>
>>>
>>
>>> No I'm pretty sure those are properly set, especially since make got
>>> past the part where it checks if all the headers are available.
>>>
>>> Dimitry
>>>
>>>
>>>
>>>
>>>
>>> On Wed, September 9, 2009 20:58, SangHoon Oh wrote:
>>>
>>>
>>>
>>>> Hi,
>>>>
>>>>
>>>>
>>>>
>>>>
>>>> Perhaps you didn't include the FFTW headers properly.
>>>> Please check the CFLAGS whether -I/PATH/TO/FFTW/HEADERS
>>>> is set to correct the path.
>>>>
>>>> Good luck,
>>>>
>>>>
>>>>
>>>>
>>>>
>>>> SangHoon
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>> On Thu, Sep 10, 2009 at 8:09 AM, Dimitry
>>>> Ayzenberg<dayzenbe_at_andrew.cmu.edu> wrote:
>>>>
>>>>
>>>>
>>>>
>>>>>
>>>>> Okay so that worked after I switched to version 1.6.9 and that
>>>>> error didn't come up again. But now this comes up: (sorry that I
>>>>> pasted all of it but I figure that would help whoever helps me
>>>>> figure it out easier)
>>>>>
>>>>>
>>>>>
>>>>> dimitry_at_Phoenix:~/Desktop/Gadget-2.0.4/Gadget2$ sudo make
>>>>> mpicc Â Â -O3 -Wall -DPERIODIC Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o main.o
>>>>> main.c mpicc Â Â -O3 -Wall -DPERIODIC Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o run.o
>>>>> run.c run.c: In function â€˜runâ€™:
>>>>> run.c:102: warning: ignoring return value of â€˜systemâ€™,
>>>>> declared with attribute warn_unused_result mpicc Â Â -O3 -Wall
>>>>> -DPERIODIC
>>>>> Â -DUNEQUALSOFTENINGS -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o predict.o
>>>>> predict.c mpicc Â Â -O3 -Wall -DPERIODIC Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o begrun.o
>>>>> begrun.c begrun.c: In function â€˜read_parameter_fileâ€™:
>>>>> begrun.c:602:
>>>>> warning: ignoring return value of â€˜fgetsâ€™, declared
>>>>> with attribute warn_unused_result begrun.c:653: warning: ignoring
>>>>> return value of â€˜systemâ€™, declared with attribute
>>>>> warn_unused_result mpicc Â Â -O3 -Wall -DPERIODIC
>>>>> Â -DUNEQUALSOFTENINGS -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o endrun.o
>>>>> endrun.c mpicc Â Â -O3 -Wall -DPERIODIC Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o global.o
>>>>> global.c mpicc Â Â -O3 -Wall -DPERIODIC Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o
>>>>> timestep.o timestep.c mpicc Â Â -O3 -Wall -DPERIODIC
>>>>> Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o init.o
>>>>> init.c mpicc Â Â -O3 -Wall -DPERIODIC Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o restart.o
>>>>> restart.c restart.c: In function â€˜restartâ€™: restart.c:78:
>>>>> warning:
>>>>> ignoring return value of â€˜systemâ€™, declared with attribute
>>>>> warn_unused_result mpicc Â Â -O3 -Wall -DPERIODIC
>>>>> Â -DUNEQUALSOFTENINGS -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o io.o io.c
>>>>> io.c: In function â€˜write_fileâ€™:
>>>>> io.c:687: warning: â€˜rankâ€™ may be used uninitialized in this
>>>>> function mpicc Â Â -O3 -Wall -DPERIODIC Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o accel.o
>>>>> accel.c mpicc Â Â -O3 -Wall -DPERIODIC Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o read_ic.o
>>>>> read_ic.c read_ic.c: In function â€˜find_filesâ€™:
>>>>> read_ic.c:649:
>>>>> warning: ignoring return value of â€˜freadâ€™, declared
>>>>> with attribute warn_unused_result read_ic.c:650: warning: ignoring
>>>>> return value of â€˜freadâ€™, declared with attribute
>>>>> warn_unused_result read_ic.c:651: warning: ignoring return value
>>>>> of â€˜freadâ€™, declared with attribute warn_unused_result
>>>>> read_ic.c:652:
>>>>> warning: ignoring return
>>>>> value of â€˜freadâ€™, declared with attribute warn_unused_result
>>>>> read_ic.c:655: warning: ignoring return value of â€˜freadâ€™,
>>>>> declared with attribute warn_unused_result read_ic.c:656: warning:
>>>>> ignoring return value of â€˜freadâ€™, declared with attribute
>>>>> warn_unused_result read_ic.c:657: warning: ignoring return value
>>>>> of â€˜freadâ€™, declared with attribute warn_unused_result
>>>>> read_ic.c:681:
>>>>> warning: ignoring return
>>>>> value of â€˜freadâ€™, declared with attribute warn_unused_result
>>>>> read_ic.c:682: warning: ignoring return value of â€˜freadâ€™,
>>>>> declared with attribute warn_unused_result read_ic.c:683: warning:
>>>>> ignoring return value of â€˜freadâ€™, declared with attribute
>>>>> warn_unused_result read_ic.c:684: warning: ignoring return value
>>>>> of â€˜freadâ€™, declared with attribute warn_unused_result
>>>>> read_ic.c:687:
>>>>> warning: ignoring return
>>>>> value of â€˜freadâ€™, declared with attribute warn_unused_result
>>>>> read_ic.c:688: warning: ignoring return value of â€˜freadâ€™,
>>>>> declared with attribute warn_unused_result read_ic.c:689: warning:
>>>>> ignoring return value of â€˜freadâ€™, declared with attribute
>>>>> warn_unused_result read_ic.c: In function â€˜read_fileâ€™:
>>>>> read_ic.c:260: warning: â€˜hdf5_fileâ€™ may be used uninitialized
>>>>> in this function read_ic.c:261: warning: â€˜hdf5_datatypeâ€™ may
>>>>> be used uninitialized in this function mpicc Â Â -O3 -Wall
>>>>> -DPERIODIC
>>>>> Â -DUNEQUALSOFTENINGS -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o ngb.o
>>>>> ngb.c mpicc Â Â -O3 -Wall -DPERIODIC Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o system.o
>>>>> system.c mpicc Â Â -O3 -Wall -DPERIODIC Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o
>>>>> allocate.o allocate.c mpicc Â Â -O3 -Wall -DPERIODIC
>>>>> Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o density.o
>>>>> density.c mpicc Â Â -O3 -Wall -DPERIODIC Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o
>>>>> gravtree.o gravtree.c mpicc Â Â -O3 -Wall -DPERIODIC
>>>>> Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o hydra.o
>>>>> hydra.c mpicc Â Â -O3 -Wall -DPERIODIC Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o
>>>>> driftfac.o driftfac.c mpicc Â Â -O3 -Wall -DPERIODIC
>>>>> Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o domain.o
>>>>> domain.c mpicc Â Â -O3 -Wall -DPERIODIC Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o allvars.o
>>>>> allvars.c mpicc Â Â -O3 -Wall -DPERIODIC Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o
>>>>> potential.o potential.c mpicc Â Â -O3 -Wall -DPERIODIC
>>>>> Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o
>>>>> forcetree.o forcetree.c mpicc Â Â -O3 -Wall -DPERIODIC
>>>>> Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o peano.o
>>>>> peano.c mpicc Â Â -O3 -Wall -DPERIODIC Â -DUNEQUALSOFTENINGS
>>>>> -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o
>>>>> gravtree_forcetest.o gravtree_forcetest.c mpicc Â Â -O3 -Wall
>>>>> -DPERIODIC
>>>>> Â -DUNEQUALSOFTENINGS -DPEANOHILBERT
>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>> -I/usr/local/include -I/usr/local/include
>>>>> -I/home/dimitry/Desktop/hdf5-1.6.9/hdf5/include Â -c -o
>>>>> pm_periodic.o pm_periodic.c pm_periodic.c:21:28: error:
>>>>> srfftw_mpi.h: No such file
>>>>> or directory pm_periodic.c:34: error: expected â€˜=â€™, â€˜,â€™,
>>>>> â€˜;â€™, â€˜asmâ€™ or â€˜__attribute__â€™ before
>>>>> â€˜fft_forward_planâ€™ pm_periodic.c:45: error: expected â€˜=â€™,
>>>>> â€˜,â€™, â€˜;â€™, â€˜asmâ€™ or â€˜__attribute__â€™ before
>>>>> â€˜*â€™ token pm_periodic.c:46: error: expected â€˜=â€™, â€˜,â€™,
>>>>> â€˜;â€™, â€˜asmâ€™ or â€˜__attribute__â€™ before â€˜*â€™ token
>>>>> pm_periodic.c:
>>>>> In function â€˜pm_init_periodicâ€™:
>>>>> pm_periodic.c:65: error: â€˜fft_forward_planâ€™ undeclared (first
>>>>> use in this function) pm_periodic.c:65: error: (Each undeclared
>>>>> identifier is reported only once pm_periodic.c:65: error: for
>>>>> each function it appears in.) pm_periodic.c:65: warning: implicit
>>>>> declaration of function â€˜rfftw3d_mpi_create_planâ€™
>>>>> pm_periodic.c:66: error:
>>>>> â€˜FFTW_REAL_TO_COMPLEXâ€™ undeclared (first use in this function)
>>>>> pm_periodic.c:66: error: â€˜FFTW_ESTIMATEâ€™ undeclared (first
>>>>> use in this function) pm_periodic.c:66: error: â€˜FFTW_IN_PLACEâ€™
>>>>> undeclared (first use in this function) pm_periodic.c:67: error:
>>>>> â€˜fft_inverse_planâ€™ undeclared (first use in this function)
>>>>> pm_periodic.c:68: error: â€˜FFTW_COMPLEX_TO_REALâ€™
>>>>> undeclared (first use in this function) pm_periodic.c:72: warning:
>>>>> implicit declaration of function â€˜rfftwnd_mpi_local_sizesâ€™
>>>>> pm_periodic.c: In function
>>>>> â€˜pm_init_periodic_allocateâ€™:
>>>>> pm_periodic.c:124: error: â€˜rhogridâ€™ undeclared (first use in
>>>>> this function) pm_periodic.c:124: error: â€˜fftw_realâ€™
>>>>> undeclared (first
>>>>> use in this function) pm_periodic.c:124: error: expected
>>>>> expression before â€˜)â€™ token pm_periodic.c:132: error:
>>>>> â€˜forcegridâ€™ undeclared (first use in this function)
>>>>> pm_periodic.c:132: error:
>>>>> expected expression before â€˜)â€™ token pm_periodic.c:139: error:
>>>>> â€˜workspaceâ€™ undeclared (first use in this function)
>>>>> pm_periodic.c:139: error: expected expression before â€˜)â€™
>>>>> token pm_periodic.c:153: error: â€˜fft_of_rhogridâ€™ undeclared
>>>>> (first use
>>>>> in this function) pm_periodic.c:153: error: â€˜fftw_complexâ€™
>>>>> undeclared (first use in this function) pm_periodic.c:153: error:
>>>>> expected expression before â€˜)â€™ token pm_periodic.c: In
>>>>> function â€˜pm_init_periodic_freeâ€™:
>>>>> pm_periodic.c:163: error: â€˜workspaceâ€™ undeclared (first use in
>>>>> this function) pm_periodic.c:164: error: â€˜forcegridâ€™
>>>>> undeclared (first
>>>>> use in this function) pm_periodic.c:165: error: â€˜rhogridâ€™
>>>>> undeclared (first use in this function) pm_periodic.c: In
>>>>> function â€˜pmforce_periodicâ€™:
>>>>> pm_periodic.c:246: error: â€˜workspaceâ€™ undeclared (first use in
>>>>> this function) pm_periodic.c:284: error: â€˜rhogridâ€™
>>>>> undeclared (first use
>>>>> in this function) pm_periodic.c:330: error: â€˜fftw_realâ€™
>>>>> undeclared (first use in this function) pm_periodic.c:331: error:
>>>>> â€˜forcegridâ€™ undeclared (first use in this function)
>>>>> pm_periodic.c:375: warning: implicit declaration of
>>>>> function â€˜rfftwnd_mpiâ€™ pm_periodic.c:375: error:
>>>>> â€˜fft_forward_planâ€™ undeclared (first use in this function)
>>>>> pm_periodic.c:375: error:
>>>>> â€˜FFTW_TRANSPOSED_ORDERâ€™ undeclared (first use in this
>>>>> function) pm_periodic.c:426: error: â€˜fft_of_rhogridâ€™
>>>>> undeclared (first use in this function) pm_periodic.c:436: error:
>>>>> â€˜fft_inverse_planâ€™ undeclared (first use in this function)
>>>>> pm_periodic.c: In function
>>>>> â€˜pmpotential_periodicâ€™:
>>>>> pm_periodic.c:755: error: â€˜workspaceâ€™ undeclared (first use in
>>>>> this function) pm_periodic.c:793: error: â€˜rhogridâ€™
>>>>> undeclared (first use
>>>>> in this function) pm_periodic.c:839: error: â€˜fftw_realâ€™
>>>>> undeclared (first use in this function) pm_periodic.c:840: error:
>>>>> â€˜forcegridâ€™ undeclared (first use in this function)
>>>>> pm_periodic.c:886: error: â€˜fft_forward_planâ€™
>>>>> undeclared (first use in this function) pm_periodic.c:886: error:
>>>>> â€˜FFTW_TRANSPOSED_ORDERâ€™ undeclared (first use in this
>>>>> function) pm_periodic.c:934: error:
>>>>> â€˜fft_of_rhogridâ€™ undeclared (first use in this function)
>>>>> pm_periodic.c:944: error: â€˜fft_inverse_planâ€™ undeclared
>>>>> (first
>>>>> use in this function) make: *** [pm_periodic.o] Error 1
>>>>>
>>>>>
>>>>>
>>>>> Thanks,
>>>>> Dimitry
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> On Wed, September 9, 2009 18:00, Jay Billings wrote:
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>> Ah, this error is much more subtle than the others. :) I
>>>>>> believe this one is caused by using the wrong version of the
>>>>>> HDF5 library.
>>>>>> You are
>>>>>> probably Â using version 1.8.2 and need something like version
>>>>>> 1.6.2.
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> There were some updates to the HDF5 API when they did version
>>>>>> 1.8.
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> Jay
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> On Wed, Sep 9, 2009 at 5:20 PM, Dimitry Ayzenberg
>>>>>> <dayzenbe_at_andrew.cmu.edu>wrote:
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>>
>>>>>>> So I think I have all the libraries and whatever else I need
>>>>>>> properly installed and linked. But when I run make I get an
>>>>>>> odd error that I have Â no idea how to fix. This is the full
>>>>>>> display when I do "make":
>>>>>>>
>>>>>>> dimitry_at_Phoenix:~/Desktop/Gadget-2.0.4/Gadget2$ sudo make
>>>>>>> mpicc Â Â -O3 -Wall -DPERIODIC Â -DUNEQUALSOFTENINGS
>>>>>>> -DPEANOHILBERT
>>>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>>>> -I/usr/local/include -I/usr/local/include
>>>>>>> -I/home/dimitry/Desktop/hdf5-1.8.3/hdf5/include Â -c -o
>>>>>>> main.o main.c mpicc Â Â -O3 -Wall -DPERIODIC
>>>>>>> Â -DUNEQUALSOFTENINGS
>>>>>>> -DPEANOHILBERT
>>>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>>>> -I/usr/local/include -I/usr/local/include
>>>>>>> -I/home/dimitry/Desktop/hdf5-1.8.3/hdf5/include Â -c -o run.o
>>>>>>> run.c run.c: In function â€˜runâ€™: run.c:102: warning:
>>>>>>> ignoring return value of â€˜systemâ€™, declared with attribute
>>>>>>> warn_unused_result mpicc Â Â -O3 -Wall -DPERIODIC
>>>>>>> -DUNEQUALSOFTENINGS -DPEANOHILBERT
>>>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>>>> -I/usr/local/include -I/usr/local/include
>>>>>>> -I/home/dimitry/Desktop/hdf5-1.8.3/hdf5/include Â -c -o
>>>>>>> predict.o predict.c mpicc Â Â -O3 -Wall -DPERIODIC
>>>>>>> Â -DUNEQUALSOFTENINGS
>>>>>>> -DPEANOHILBERT
>>>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>>>> -I/usr/local/include -I/usr/local/include
>>>>>>> -I/home/dimitry/Desktop/hdf5-1.8.3/hdf5/include Â -c -o
>>>>>>> begrun.o begrun.c begrun.c: In function
>>>>>>> â€˜read_parameter_fileâ€™:
>>>>>>> begrun.c:602: warning: ignoring return value of â€˜fgetsâ€™,
>>>>>>> declared with attribute warn_unused_result begrun.c:653:
>>>>>>> warning:
>>>>>>> ignoring return value of â€˜systemâ€™, declared with attribute
>>>>>>> warn_unused_result mpicc Â Â -O3 -Wall -DPERIODIC
>>>>>>> Â -DUNEQUALSOFTENINGS -DPEANOHILBERT
>>>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>>>> -I/usr/local/include -I/usr/local/include
>>>>>>> -I/home/dimitry/Desktop/hdf5-1.8.3/hdf5/include Â -c -o
>>>>>>> endrun.o endrun.c mpicc Â Â -O3 -Wall -DPERIODIC
>>>>>>> Â -DUNEQUALSOFTENINGS
>>>>>>> -DPEANOHILBERT
>>>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>>>> -I/usr/local/include -I/usr/local/include
>>>>>>> -I/home/dimitry/Desktop/hdf5-1.8.3/hdf5/include Â -c -o
>>>>>>> global.o global.c mpicc Â Â -O3 -Wall -DPERIODIC
>>>>>>> Â -DUNEQUALSOFTENINGS
>>>>>>> -DPEANOHILBERT
>>>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>>>> -I/usr/local/include -I/usr/local/include
>>>>>>> -I/home/dimitry/Desktop/hdf5-1.8.3/hdf5/include Â -c -o
>>>>>>> timestep.o timestep.c mpicc Â Â -O3 -Wall -DPERIODIC
>>>>>>> Â -DUNEQUALSOFTENINGS
>>>>>>> -DPEANOHILBERT
>>>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>>>> -I/usr/local/include -I/usr/local/include
>>>>>>> -I/home/dimitry/Desktop/hdf5-1.8.3/hdf5/include Â -c -o
>>>>>>> init.o init.c mpicc Â Â -O3 -Wall -DPERIODIC
>>>>>>> Â -DUNEQUALSOFTENINGS
>>>>>>> -DPEANOHILBERT
>>>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>>>> -I/usr/local/include -I/usr/local/include
>>>>>>> -I/home/dimitry/Desktop/hdf5-1.8.3/hdf5/include Â -c -o
>>>>>>> restart.o restart.c restart.c: In function â€˜restartâ€™:
>>>>>>> restart.c:78:
>>>>>>> warning: ignoring return value of â€˜systemâ€™, declared with
>>>>>>> attribute warn_unused_result mpicc Â Â -O3 -Wall -DPERIODIC
>>>>>>> -DUNEQUALSOFTENINGS -DPEANOHILBERT
>>>>>>> -DWALLCLOCK Â Â -DPMGRID=128 -DSYNCHRONIZATION -DHAVE_HDF5
>>>>>>> -I/usr/local/include -I/usr/local/include
>>>>>>> -I/home/dimitry/Desktop/hdf5-1.8.3/hdf5/include Â -c -o io.o
>>>>>>> io.c io.c: In function â€˜write_fileâ€™: io.c:774: error: too
>>>>>>> few arguments to function â€˜H5Gcreate2â€™ io.c:781: error:
>>>>>>> too few arguments to function â€˜H5Gcreate2â€™ io.c:880:
>>>>>>> error: too few arguments to function â€˜H5Dcreate2â€™
>>>>>>> io.c: In function â€˜write_header_attributes_in_hdf5â€™:
>>>>>>> io.c:1005: error: too few arguments to function
>>>>>>> â€˜H5Acreate2â€™ io.c:1012: error: too few arguments to
>>>>>>> function â€˜H5Acreate2â€™ io.c:1019: error: too few arguments
>>>>>>> to function â€˜H5Acreate2â€™ io.c:1027: error: too few
>>>>>>> arguments to function â€˜H5Acreate2â€™ io.c:1033: error: too
>>>>>>> few arguments to function â€˜H5Acreate2â€™ io.c:1039: error:
>>>>>>> too few arguments to function â€˜H5Acreate2â€™ io.c:1045:
>>>>>>> error: too few arguments to function
>>>>>>> â€˜H5Acreate2â€™ io.c:1051: error: too few arguments to
>>>>>>> function â€˜H5Acreate2â€™ io.c:1057: error: too few arguments
>>>>>>> to function â€˜H5Acreate2â€™ io.c:1063: error: too few
>>>>>>> arguments to function â€˜H5Acreate2â€™ io.c:1069: error: too
>>>>>>> few arguments to function â€˜H5Acreate2â€™ io.c:1075: error:
>>>>>>> too few arguments to function â€˜H5Acreate2â€™ io.c:1081:
>>>>>>> error: too few arguments to function
>>>>>>> â€˜H5Acreate2â€™ io.c:1087: error: too few arguments to
>>>>>>> function â€˜H5Acreate2â€™ io.c:1093: error: too few arguments
>>>>>>> to function â€˜H5Acreate2â€™ io.c:1099: error: too few
>>>>>>> arguments to function â€˜H5Acreate2â€™ io.c:1108: error: too
>>>>>>> few arguments to function â€˜H5Acreate2â€™ make: *** [io.o]
>>>>>>> Error 1
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> Can someone please help me?
>>>>>>> Thanks,
>>>>>>> Dimitry
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> -----------------------------------------------------------
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> If you wish to unsubscribe from this mailing, send mail to
>>>>>>> minimalist_at_MPA-Garching.MPG.de with a subject of:
>>>>>>> Â unsubscribe
>>>>>>> gadget-list A web-archive of this mailing list is available
>>>>>>> here:
>>>>>>> http://www.mpa-garching.mpg.de/gadget/gadget-list
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>
>>>>>
>>>>>
>>>>> --
>>>>> Dimitry Ayzenberg
>>>>> Carnegie Mellon University
>>>>> Physics - Class of 2012
>>>>> Cell:(732)-425-4534
>>>>> Email: dayzenbe_at_andrew.cmu.edu
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> -----------------------------------------------------------
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> If you wish to unsubscribe from this mailing, send mail to
>>>>> minimalist_at_MPA-Garching.MPG.de with a subject of: Â unsubscribe
>>>>> gadget-list A web-archive of this mailing list is available here:
>>>>> http://www.mpa-garching.mpg.de/gadget/gadget-list
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>
>>>>
>>>
>>>
>>> --
>>> Dimitry Ayzenberg
>>> Carnegie Mellon University
>>> Physics - Class of 2012
>>> Cell:(732)-425-4534
>>> Email: dayzenbe_at_andrew.cmu.edu
>>>
>>>
>>>
>>>
>>>
>>>
>>>
>>> -----------------------------------------------------------
>>>
>>>
>>>
>>>
>>> If you wish to unsubscribe from this mailing, send mail to
>>> minimalist_at_MPA-Garching.MPG.de with a subject of: unsubscribe
>>> gadget-list A web-archive of this mailing list is available here:
>>> http://www.mpa-garching.mpg.de/gadget/gadget-list
>>>
>>>
>>>
>>>
>>>
>>
>>
>> --
>> Dimitry Ayzenberg
>> Carnegie Mellon University
>> Physics - Class of 2012
>> Cell:(732)-425-4534
>> Email: dayzenbe_at_andrew.cmu.edu
>>
>>
>>
>>
>>
>>
>> -----------------------------------------------------------
>>
>>
>>
>> If you wish to unsubscribe from this mailing, send mail to
>> minimalist_at_MPA-Garching.MPG.de with a subject of: unsubscribe
>> gadget-list A web-archive of this mailing list is available here:
>> http://www.mpa-garching.mpg.de/gadget/gadget-list
>>
>>
>>
>>
>
>
> --
> Dimitry Ayzenberg
> Carnegie Mellon University
> Physics - Class of 2012
> Cell:(732)-425-4534
> Email: dayzenbe_at_andrew.cmu.edu
>
>
>
>
>
> -----------------------------------------------------------
>
>
> If you wish to unsubscribe from this mailing, send mail to
> minimalist_at_MPA-Garching.MPG.de with a subject of: unsubscribe gadget-list
> A web-archive of this mailing list is available here:
> http://www.mpa-garching.mpg.de/gadget/gadget-list
>
>
>

-- 
Dimitry Ayzenberg
Carnegie Mellon University
Physics - Class of 2012
Cell:(732)-425-4534
Email: dayzenbe_at_andrew.cmu.edu

Received on 2009-09-10 04:35:50