Compiling problem

Charlie Liu <[email protected]>
Newsgroups gmane.comp.science.photonic-bands
Message-ID <[email protected]> 
Dear Mr.Johnson and MPB users:
  I am a new MPB user. I installed MPB without HDF5 first and it worked well.
Later I tried to install MPB with HDF5, but there comes error when I type 
make. Here is the log:

Making all in src/util
make[1]: Entering directory `/home/lab-101/mpb-1.4.2/src/util'
cc -DHAVE_CONFIG_H -I.  -I/usr/local/include -pthread -c -g -O2 -Wall -W -Wbad
-function-cast -Wcast-qual -Wpointer-arith -Wcast-align -pedantic 
debug_malloc.c
 -o debug_malloc.o
debug_malloc.c:35: warning: ‘my_malloc_hook’ initialized and declared ‘extern’
cc -DHAVE_CONFIG_H -I.  -I/usr/local/include -pthread -c -g -O2 -Wall -W -Wbad
-function-cast -Wcast-qual -Wpointer-arith -Wcast-align -pedantic 
mpi_utils.c -o
 mpi_utils.o
mpi_utils.c: In function ‘mpi_assert_equal’:
mpi_utils.c:72: warning: unused parameter ‘x’
mpi_utils.c: In function ‘mpi_begin_critical_section’:
mpi_utils.c:99: warning: unused variable ‘status’
mpi_utils.c: In function ‘mpi_end_critical_section’:
mpi_utils.c:107: warning: unused parameter ‘tag’
rm -f util.a
ar r util.a debug_malloc.o mpi_utils.o
ar: creating util.a
ranlib util.a
make[1]: Leaving directory `/home/lab-101/mpb-1.4.2/src/util'
Making all in src/matrices
make[1]: Entering directory `/home/lab-101/mpb-1.4.2/src/matrices'
cc -DHAVE_CONFIG_H -I../util -I.  -I/usr/local/include -pthread -c -g -O2 -Wall 
-W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align -pedantic 
eigensolver.c -o eigensolver.o
cc -DHAVE_CONFIG_H -I../util -I.  -I/usr/local/include -pthread -c -g -O2 -Wall 
-W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align -pedantic 
eigensolver_utils.c -o eigensolver_utils.o
cc -DHAVE_CONFIG_H -I../util -I.  -I/usr/local/include -pthread -c -g -O2 -Wall 
-W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align -pedantic 
evectmatrix.c -o evectmatrix.o
evectmatrix.c:29: warning: ‘evectmatrix_flops’ initialized and 
declared ‘extern’
evectmatrix.c: In function ‘evectmatrix_copy_slice’:
evectmatrix.c:56: warning: statement with no effect
evectmatrix.c:56: warning: ‘i’ is used uninitialized in this function
cc -DHAVE_CONFIG_H -I../util -I.  -I/usr/local/include -pthread -c -g -O2 -Wall 
-W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align -pedantic 
sqmatrix.c -o sqmatrix.o
cc -DHAVE_CONFIG_H -I../util -I.  -I/usr/local/include -pthread -c -g -O2 -Wall 
-W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align -pedantic 
matrices.c -o matrices.o
cc -DHAVE_CONFIG_H -I../util -I.  -I/usr/local/include -pthread -c -g -O2 -Wall 
-W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align -pedantic 
blasglue.c -o blasglue.o
cc -DHAVE_CONFIG_H -I../util -I.  -I/usr/local/include -pthread -c -g -O2 -Wall 
-W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align -pedantic 
minpack2-linmin.c -o minpack2-linmin.o
cc -DHAVE_CONFIG_H -I../util -I.  -I/usr/local/include -pthread -c -g -O2 -Wall 
-W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align -pedantic 
linmin.c -o linmin.o
cc -DHAVE_CONFIG_H -I../util -I.  -I/usr/local/include -pthread -c -g -O2 -Wall 
-W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align -pedantic 
eigensolver_davidson.c -o eigensolver_davidson.o
rm -f matrices.a
ar r matrices.a eigensolver.o eigensolver_utils.o evectmatrix.o sqmatrix.o 
matrices.o blasglue.o minpack2-linmin.o linmin.o eigensolver_davidson.o
ar: creating matrices.a
ranlib matrices.a
make[1]: Leaving directory `/home/lab-101/mpb-1.4.2/src/matrices'
Making all in src/maxwell
make[1]: Entering directory `/home/lab-101/mpb-1.4.2/src/maxwell'
cc -DHAVE_CONFIG_H -I../util -I../matrices  -I/usr/local/include -pthread -c -g 
-O2 -Wall -W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align 
-pedantic maxwell.c -o maxwell.o
cc -DHAVE_CONFIG_H -I../util -I../matrices  -I/usr/local/include -pthread -c -g 
-O2 -Wall -W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align 
-pedantic maxwell_op.c -o maxwell_op.o
maxwell_op.c: In function ‘maxwell_vectorfield_otherhalf’:
maxwell_op.c:461: warning: unused parameter ‘d’
maxwell_op.c:461: warning: unused parameter ‘field’
maxwell_op.c:462: warning: unused parameter ‘phasex’
maxwell_op.c:462: warning: unused parameter ‘phasey’
maxwell_op.c:462: warning: unused parameter ‘phasez’
maxwell_op.c: In function ‘maxwell_scalarfield_otherhalf’:
maxwell_op.c:667: warning: unused parameter ‘d’
maxwell_op.c:667: warning: unused parameter ‘field’
cc -DHAVE_CONFIG_H -I../util -I../matrices  -I/usr/local/include -pthread -c -g 
-O2 -Wall -W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align 
-pedantic maxwell_pre.c -o maxwell_pre.o
maxwell_pre.c: In function ‘maxwell_simple_precondition’:
maxwell_pre.c:38: warning: unused parameter ‘eigenvals’
maxwell_pre.c: In function ‘maxwell_preconditioner’:
maxwell_pre.c:72: warning: unused parameter ‘Y’
maxwell_pre.c: In function ‘maxwell_target_preconditioner’:
maxwell_pre.c:85: warning: unused variable ‘omega_sqr’
maxwell_pre.c:80: warning: unused parameter ‘Y’
maxwell_pre.c:80: warning: unused parameter ‘eigenvals’
maxwell_pre.c: In function ‘maxwell_preconditioner2’:
maxwell_pre.c:201: warning: unused parameter ‘Y’
maxwell_pre.c:201: warning: unused parameter ‘eigenvals’
cc -DHAVE_CONFIG_H -I../util -I../matrices  -I/usr/local/include -pthread -c -g 
-O2 -Wall -W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align 
-pedantic maxwell_eps.c -o maxwell_eps.o
cc -DHAVE_CONFIG_H -I../util -I../matrices  -I/usr/local/include -pthread -c -g 
-O2 -Wall -W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align 
-pedantic maxwell_constraints.c -o maxwell_constraints.o
rm -f maxwell.a
ar r maxwell.a maxwell.o maxwell_op.o maxwell_pre.o maxwell_eps.o 
maxwell_constraints.o
ar: creating maxwell.a
ranlib maxwell.a
make[1]: Leaving directory `/home/lab-101/mpb-1.4.2/src/maxwell'
Making all in src/matrixio
make[1]: Entering directory `/home/lab-101/mpb-1.4.2/src/matrixio'
cc -DHAVE_CONFIG_H -I../util -I../matrices -I.  -I/usr/local/include -pthread -c
 -g -O2 -Wall -W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align 
-pedantic fieldio.c -o fieldio.o
cc -DHAVE_CONFIG_H -I../util -I../matrices -I.  -I/usr/local/include -pthread -c
 -g -O2 -Wall -W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align 
-pedantic evectmatrixio.c -o evectmatrixio.o
cc -DHAVE_CONFIG_H -I../util -I../matrices -I.  -I/usr/local/include -pthread -c
 -g -O2 -Wall -W -Wbad-function-cast -Wcast-qual -Wpointer-arith -Wcast-align 
-pedantic matrixio.c -o matrixio.o
matrixio.c: In function ‘write_attr’:
matrixio.c:91: error: too few arguments to function ‘H5Dcreate2’
matrixio.c:97: error: too few arguments to function ‘H5Acreate2’
matrixio.c: In function ‘open_attr’:
matrixio.c:112: warning: passing argument 1 of ‘H5Eget_auto2’ makes integer 
from
 pointer without a cast
matrixio.c:112: warning: passing argument 2 of ‘H5Eget_auto2’ from 
incompatible 
pointer type
matrixio.c:112: error: too few arguments to function ‘H5Eget_auto2’
matrixio.c:112: warning: passing argument 1 of ‘H5Eset_auto2’ makes integer 
from
 pointer without a cast
matrixio.c:112: error: too few arguments to function ‘H5Eset_auto2’
matrixio.c:112: error: too few arguments to function ‘H5Dopen2’
matrixio.c:112: warning: passing argument 1 of ‘H5Eset_auto2’ makes integer 
from
 pointer without a cast
matrixio.c:112: warning: ISO C forbids passing argument 2 of ‘H5Eset_auto2’ 
between function pointer and ‘void *’
matrixio.c:112: error: too few arguments to function ‘H5Eset_auto2’
matrixio.c:119: warning: passing argument 1 of ‘H5Eget_auto2’ makes integer 
from
 pointer without a cast
matrixio.c:119: warning: passing argument 2 of ‘H5Eget_auto2’ from 
incompatible 
pointer type
matrixio.c:119: error: too few arguments to function ‘H5Eget_auto2’
matrixio.c:119: warning: passing argument 1 of ‘H5Eset_auto2’ makes integer 
from
 pointer without a cast
matrixio.c:119: error: too few arguments to function ‘H5Eset_auto2’
matrixio.c:119: warning: passing argument 1 of ‘H5Eset_auto2’ makes integer 
from
 pointer without a cast
matrixio.c:119: warning: ISO C forbids passing argument 2 of ‘H5Eset_auto2’ 
between function pointer and ‘void *’
matrixio.c:119: error: too few arguments to function ‘H5Eset_auto2’
matrixio.c: In function ‘matrixio_write_string_attr’:
matrixio.c:172: warning: cast discards qualifiers from pointer target type
matrixio.c: In function ‘matrixio_write_data_attr’:
matrixio.c:207: warning: cast discards qualifiers from pointer target type
matrixio.c: In function ‘matrixio_create_sub’:
matrixio.c:419: error: too few arguments to function ‘H5Gcreate2’
matrixio.c:429: error: too few arguments to function ‘H5Gopen2’
matrixio.c: In function ‘matrixio_open_dataset’:
matrixio.c:456: error: too few arguments to function ‘H5Dopen2’
matrixio.c:458: error: too few arguments to function ‘H5Dopen2’
matrixio.c:471: warning: comparison between signed and unsigned
matrixio.c: In function ‘matrixio_create_dataset’:
matrixio.c:523: error: too few arguments to function ‘H5Dcreate2’
matrixio.c:523: error: too few arguments to function ‘H5Dopen2’
matrixio.c: In function ‘matrixio_dataset_exists’:
matrixio.c:551: warning: passing argument 1 of ‘H5Eget_auto2’ makes integer 
from pointer without a cast
matrixio.c:551: warning: passing argument 2 of ‘H5Eget_auto2’ from 
incompatible 
pointer type
matrixio.c:551: error: too few arguments to function ‘H5Eget_auto2’
matrixio.c:551: warning: passing argument 1 of ‘H5Eset_auto2’ makes integer 
from
 pointer without a cast
matrixio.c:551: error: too few arguments to function ‘H5Eset_auto2’
matrixio.c:551: error: too few arguments to function ‘H5Dopen2’
matrixio.c:551: warning: passing argument 1 of ‘H5Eset_auto2’ makes integer 
from
 pointer without a cast
matrixio.c:551: warning: ISO C forbids passing argument 2 of ‘H5Eset_auto2’ 
between function pointer and ‘void *’
matrixio.c:551: error: too few arguments to function ‘H5Eset_auto2’
matrixio.c: In function ‘matrixio_write_real_data’:
matrixio.c:655: warning: pointer targets in passing argument 3 of 
‘H5Sselect_hyperslab’ differ in signedness
matrixio.c:665: warning: pointer targets in passing argument 3 of 
‘H5Sselect_hyperslab’ differ in signedness
matrixio.c: In function ‘matrixio_read_real_data’:
matrixio.c:754: warning: passing argument 1 of ‘H5Eget_auto2’ makes integer 
from
 pointer without a cast
matrixio.c:754: warning: passing argument 2 of ‘H5Eget_auto2’ from 
incompatible 
pointer type
matrixio.c:754: error: too few arguments to function ‘H5Eget_auto2’
matrixio.c:754: warning: passing argument 1 of ‘H5Eset_auto2’ makes integer 
from
 pointer without a cast
matrixio.c:754: error: too few arguments to function ‘H5Eset_auto2’
matrixio.c:754: error: too few arguments to function ‘H5Dopen2’
matrixio.c:754: warning: passing argument 1 of ‘H5Eset_auto2’ makes integer 
from
 pointer without a cast
matrixio.c:754: warning: ISO C forbids passing argument 2 of ‘H5Eset_auto2’ 
between function pointer and ‘void *’
matrixio.c:754: error: too few arguments to function ‘H5Eset_auto2’
matrixio.c:784: warning: comparison between signed and unsigned
matrixio.c:822: warning: pointer targets in passing argument 3 of 
‘H5Sselect_hyperslab’ differ in signedness
matrixio.c:827: warning: pointer targets in passing argument 3 of 
‘H5Sselect_hyperslab’ differ in signedness
make[1]: *** [matrixio.o] Error 1
make[1]: Leaving directory `/home/lab-101/mpb-1.4.2/src/matrixio'
make: *** [all-recursive] Error 1

  I don't know what the problem is since I am a linux newbie. Could anyone 
help me to find out what I need to do now?


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