[CIG-MC] Ask help for CitcomS installation

Thu Jul 5 11:03:01 PDT 2007

Hi

I am a graduate student in Johns Hopkins University. I failed to install CitcomS -2.2.2 on my computer. There are 
some problems. Could you help me figure them out? Thank you very much!

I cannot finish the "configure" step. Here is the error information.

"
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking for a Python interpreter with version >= 2.3... python
checking for python... /usr/bin/python
checking for python version... 2.3
checking for python platform... linux2
checking for python script directory... ${prefix}/lib/python2.3/site-packages
checking for python extension module directory... ${exec_prefix}/lib64/python2.3/site-packages
checking python sysconfig... ok
configure: downloading missing Python dependencies
configure: error: cannot download missing Python dependencies
See `config.log' for more details.
"

And the 'config.log' is

"
This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.

It was created by CitcomS configure 2.2.2, which was
generated by GNU Autoconf 2.61.  Invocation command line was

  $ ./configure 

## --------- ##
## Platform. ##
## --------- ##

hostname = lear
uname -m = x86_64
uname -r = 2.6.9-5.ELsmp
uname -s = Linux
uname -v = #1 SMP Wed Jan 5 19:29:47 EST 2005

/usr/bin/uname -p = unknown
/bin/uname -X     = unknown

/bin/arch              = x86_64
/usr/bin/arch -k       = unknown
/usr/convex/getsysinfo = unknown
/usr/bin/hostinfo      = unknown
/bin/machine           = unknown
/usr/bin/oslevel       = unknown
/bin/universe          = unknown

PATH: /usr/kerberos/sbin
PATH: /opt/mpich-1.2.5/bin
PATH: /opt/Acrobat5/bin
PATH: /sbin
PATH: /home/clint/citcom/CitcomS/bin
PATH: /home/clint/citcom/CitcomS/scripts
PATH: .
PATH: /home/bwu/bin
PATH: /opt/GMT4.1.3/bin
PATH: /opt/ImageMagick-5.4.9/utilities
PATH: /opt/netscape
PATH: /usr/kerberos/bin
PATH: /usr/local/bin
PATH: /usr/bin
PATH: /bin
PATH: /usr/X11R6/bin
PATH: /home/bwu/bin
PATH: /usr/lib
PATH: /usr/lib64

## ----------- ##
## Core tests. ##
## ----------- ##

configure:2017: checking for a BSD-compatible install
configure:2073: result: /usr/bin/install -c
configure:2084: checking whether build environment is sane
configure:2127: result: yes
configure:2192: checking for gawk
configure:2208: found /usr/bin/gawk
configure:2219: result: gawk
configure:2230: checking whether make sets $(MAKE)
configure:2251: result: yes
configure:2521: checking for a Python interpreter with version >= 2.3
configure:2536: python -c import sys, string # split strings by '.' and convert to numeric. Append some zeros # 
because we need at least 4 digits for the hex conversion. minver = map(int, string.split('2.3', '.')) + [0, 0, 0] 
minverhex = 0 for i in xrange(0, 4): minverhex = (minverhex << 8) + minver[i] sys.exit(sys.hexversion < 
minverhex)
configure:2539: $? = 0
configure:2546: result: python
configure:2554: checking for python
configure:2572: found /usr/bin/python
configure:2584: result: /usr/bin/python
configure:2604: checking for python version
configure:2611: result: 2.3
configure:2623: checking for python platform
configure:2630: result: linux2
configure:2637: checking for python script directory
configure:2645: result: ${prefix}/lib/python2.3/site-packages
configure:2654: checking for python extension module directory
configure:2662: result: ${exec_prefix}/lib64/python2.3/site-packages
configure:2678: checking python sysconfig
configure:2755: result: ok
configure:2805: downloading missing Python dependencies
configure:2808: /usr/bin/python setup.py install_deps -f /opt/CitcomS-2.2.2/deps -zmxd /opt/CitcomS-2.2.2/deps 
>&5 2>&5
Traceback (most recent call last):
  File "setup.py", line 3, in ?
    use_merlin()
  File "/home/bwu/software/CitcomS-2.2.2/archimedes/__init__.py", line 56, in use_merlin
  File "/home/bwu/software/CitcomS-2.2.2/archimedes/__init__.py", line 46, in bootstrap
OverflowError: signed integer is greater than maximum
configure:2811: $? = 1
configure:2816: error: cannot download missing Python dependencies
See `config.log' for more details.

## ---------------- ##
## Cache variables. ##
## ---------------- ##

ac_cv_env_CCC_set=
ac_cv_env_CCC_value=
ac_cv_env_CC_set=
ac_cv_env_CC_value=
ac_cv_env_CFLAGS_set=
ac_cv_env_CFLAGS_value=
ac_cv_env_CPPFLAGS_set=
ac_cv_env_CPPFLAGS_value=
ac_cv_env_CPP_set=
ac_cv_env_CPP_value=
ac_cv_env_CXXCPP_set=
ac_cv_env_CXXCPP_value=
ac_cv_env_CXXFLAGS_set=
ac_cv_env_CXXFLAGS_value=
ac_cv_env_CXX_set=
ac_cv_env_CXX_value=
ac_cv_env_LDFLAGS_set=
ac_cv_env_LDFLAGS_value=
ac_cv_env_LIBS_set=
ac_cv_env_LIBS_value=
ac_cv_env_PHDF5_HOME_set=
ac_cv_env_PHDF5_HOME_value=
ac_cv_env_PYTHONPATH_set=set
ac_cv_env_PYTHONPATH_value=/home/clint/citcom/CitcomS/scripts
ac_cv_env_PYTHON_set=
ac_cv_env_PYTHON_value=
ac_cv_env_build_alias_set=
ac_cv_env_build_alias_value=
ac_cv_env_host_alias_set=
ac_cv_env_host_alias_value=
ac_cv_env_target_alias_set=
ac_cv_env_target_alias_value=
ac_cv_path_PYTHON=/usr/bin/python
ac_cv_path_install='/usr/bin/install -c'
ac_cv_prog_AWK=gawk
ac_cv_prog_make_make_set=yes
am_cv_pathless_PYTHON=python
am_cv_python_platform=linux2
am_cv_python_pyexecdir='${exec_prefix}/lib64/python2.3/site-packages'
am_cv_python_pythondir='${prefix}/lib/python2.3/site-packages'
am_cv_python_version=2.3

## ----------------- ##
## Output variables. ##
## ----------------- ##

ACLOCAL='${SHELL} /opt/CitcomS-2.2.2/aux-config/missing --run aclocal-1.9'
AMDEPBACKSLASH=''
AMDEP_FALSE=''
AMDEP_TRUE=''
AMTAR='${SHELL} /opt/CitcomS-2.2.2/aux-config/missing --run tar'
AR=''
AUTOCONF='${SHELL} /opt/CitcomS-2.2.2/aux-config/missing --run autoconf'
AUTOHEADER='${SHELL} /opt/CitcomS-2.2.2/aux-config/missing --run autoheader'
AUTOMAKE='${SHELL} /opt/CitcomS-2.2.2/aux-config/missing --run automake-1.9'
AWK='gawk'
CC=''
CCDEPMODE=''
CFLAGS=''
COND_EMBEDDING_FALSE='#'
COND_EMBEDDING_TRUE=''
COND_HDF5_FALSE=''
COND_HDF5_TRUE=''
COND_PYRE_FALSE='#'
COND_PYRE_TRUE=''
CPP=''
CPPFLAGS=''
CXX=''
CXXCPP=''
CXXDEPMODE=''
CXXFLAGS=''
CYGPATH_W='echo'
DEFS=''
DEPDIR=''
ECHO='echo'
ECHO_C=''
ECHO_N='-n'
ECHO_T=''
EGREP=''
EXEEXT=''
GREP=''
INSTALL_DATA='${INSTALL} -m 644'
INSTALL_PROGRAM='${INSTALL}'
INSTALL_SCRIPT='${INSTALL}'
INSTALL_STRIP_PROGRAM='${SHELL} $(install_sh) -c -s'
LDFLAGS=''
LIBOBJS=''
LIBS=''
LIBTOOL=''
LN_S=''
LTLIBOBJS=''
MAKEINFO='${SHELL} /opt/CitcomS-2.2.2/aux-config/missing --run makeinfo'
OBJEXT=''
PACKAGE='CitcomS'
PACKAGE_BUGREPORT='cig-mc at geodynamics.org'
PACKAGE_NAME='CitcomS'
PACKAGE_STRING='CitcomS 2.2.2'
PACKAGE_TARNAME='CitcomS'
PACKAGE_VERSION='2.2.2'
PATH_SEPARATOR=':'
PHDF5_HOME=''
PYCONFIG=''
PYTHON='/usr/bin/python'
PYTHONPATH='/opt/CitcomS-2.2.2/python:/home/clint/citcom/CitcomS/scripts'
PYTHON_BLDLIBRARY='-L/usr/lib64 -L/usr/lib64/python2.3/config -lpython2.3'
PYTHON_EGG_CFLAGS=''
PYTHON_EGG_CPPFLAGS=''
PYTHON_EGG_LDFLAGS=''
PYTHON_EXEC_PREFIX='${exec_prefix}'
PYTHON_INCDIR='/usr/include/python2.3'
PYTHON_LDFLAGS='-L/usr/kerberos/lib -L/usr/kerberos/lib64'
PYTHON_LDLAST=''
PYTHON_LDLIBRARY='libpython2.3.so'
PYTHON_LIBDIR='/usr/lib64'
PYTHON_LIBP='/usr/lib64/python2.3'
PYTHON_LIBPL='/usr/lib64/python2.3/config'
PYTHON_LIBS='-lpthread -ldl -lutil'
PYTHON_LINKFORSHARED='-Xlinker -export-dynamic'
PYTHON_MODLIBS=''
PYTHON_PLATFORM='linux2'
PYTHON_PREFIX='${prefix}'
PYTHON_SYSLIBS='-lm'
PYTHON_VERSION='2.3'
RANLIB=''
SET_MAKE=''
SHELL='/bin/sh'
STRIP=''
VERSION='2.2.2'
ac_ct_CC=''
ac_ct_CXX=''
am__fastdepCC_FALSE=''
am__fastdepCC_TRUE=''
am__fastdepCXX_FALSE=''
am__fastdepCXX_TRUE=''
am__include=''
am__leading_dot='.'
am__quote=''
am__tar='${AMTAR} chof - "$$tardir"'
am__untar='${AMTAR} xf -'
bindir='${exec_prefix}/bin'
build=''
build_alias=''
build_cpu=''
build_os=''
build_vendor=''
datadir='${datarootdir}'
datarootdir='${prefix}/share'
docdir='${datarootdir}/doc/${PACKAGE_TARNAME}'
dvidir='${docdir}'
exec_prefix='NONE'
host=''
host_alias=''
host_cpu=''
host_os=''
host_vendor=''
htmldir='${docdir}'
includedir='${prefix}/include'
infodir='${datarootdir}/info'
install_sh='/opt/CitcomS-2.2.2/aux-config/install-sh'
libdir='${exec_prefix}/lib'
libexecdir='${exec_prefix}/libexec'
localedir='${datarootdir}/locale'
localstatedir='${prefix}/var'
mandir='${datarootdir}/man'
mkdir_p='mkdir -p --'
oldincludedir='/usr/include'
pdfdir='${docdir}'
pkgpyexecdir='${pyexecdir}/CitcomS'
pkgpythondir='${pythondir}/CitcomS'
pkgsysconfdir=''
prefix='NONE'
program_transform_name='s,x,x,'
psdir='${docdir}'
pyexecdir='${exec_prefix}/lib64/python2.3/site-packages'
pythondir='${prefix}/lib/python2.3/site-packages'
sbindir='${exec_prefix}/sbin'
sharedstatedir='${prefix}/com'
sysconfdir='${prefix}/etc'
target_alias=''

## ----------- ##
## confdefs.h. ##
## ----------- ##

#define PACKAGE_NAME "CitcomS"
#define PACKAGE_TARNAME "CitcomS"
#define PACKAGE_VERSION "2.2.2"
#define PACKAGE_STRING "CitcomS 2.2.2"
#define PACKAGE_BUGREPORT "cig-mc at geodynamics.org"
#define PACKAGE "CitcomS"
#define VERSION "2.2.2"

configure: exit 1
"

Thanks!

Best Wishes!
Benjun Wu