[phenixbb] Switching refinement to higher resolution

[Francis E Reyes]

[chem171-152-dhcp:~] francisreyes% ./cci_apps_install_script.csh 2
Build tag:
2008_05_25_1144
Number of available CPUs: 2
Python 2.5.2

Precompiling all .py files. This may take a minute or two.
Traceback (most recent call last):
   File "/Users/francisreyes/cci_apps_sources/libtbx/libtbx/ 
command_line/py_compile_all.py", line 2, in <module>
     import cStringIO
ImportError: No module named cStringIO

Configuring cci_apps build directory
Traceback (most recent call last):
   File "/Users/francisreyes/cci_apps_sources/libtbx/configure.py",  
line 20, in <module>
     run()
   File "/Users/francisreyes/cci_apps_sources/libtbx/configure.py",  
line 16, in run
     import libtbx.config
   File "/Users/francisreyes/cci_apps_sources/libtbx/libtbx/ 
config.py", line 3, in <module>
     from libtbx.option_parser import option_parser
   File "/Users/francisreyes/cci_apps_sources/libtbx/libtbx/ 
option_parser.py", line 1, in <module>
     from libtbx.utils import Sorry
   File "/Users/francisreyes/cci_apps_sources/libtbx/libtbx/utils.py",  
line 11, in <module>
     import md5
   File "/Users/francisreyes/cci_apps_build/base/lib/python2.5/ 
md5.py", line 6, in <module>
     from hashlib import md5
   File "/Users/francisreyes/cci_apps_build/base/lib/python2.5/ 
hashlib.py", line 135, in <module>
     sha224 = __get_builtin_constructor('sha224')
   File "/Users/francisreyes/cci_apps_build/base/lib/python2.5/ 
hashlib.py", line 63, in __get_builtin_constructor
     import _sha256
ImportError: No module named _sha256
setpaths.csh: No such file or directory.
[chem171-152-dhcp:~] francisreyes% /usr/bin/sw_vers
ProductName:	Mac OS X
ProductVersion:	10.5.3
BuildVersion:	9D34
[chem171-152-dhcp:~] francisreyes% where gcc
/usr/bin/gcc
[chem171-152-dhcp:~] francisreyes% gcc --version
powerpc-apple-darwin9-gcc-4.0.1 (GCC) 4.0.1 (Apple Inc. build 5465)
Copyright (C) 2005 Free Software Foundation, Inc.
This is free software; see the source for copying conditions.  There  
is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR  
PURPOSE.

[chem171-152-dhcp:~] francisreyes% echo $PATH
/usr/local/phenix-1.3b-rc5/build/mac-ppc-osx/bin:/sw/share/xtal/ 
ccp4-6.0.2/ccp4i/bin:/sw/share/xtal/ccp4-6.0.2/bin:/sw/share/xtal/ 
ccp4-6.0.2/etc:/sw/bin:/sw/sbin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/ 
local/bin:/usr/X11/bin:/Users/francisreyes/blast-2.2.17/bin/:/Users/ 
francisreyes/compass/:/usr/local/mvim:/sw/share/xtal/mosflm_scripts:/ 
usr/X11R6/bin
[chem171-152-dhcp:~] francisreyes%

On Jun 19, 2008, at 11:00 AM, Ralf W. Grosse-Kunstleve wrote:

> Hi Francis,
>
>> Is it necessary to rebuild Python when I already have 2.5.2 from  
>> fink?
>> import cStringIO using the fink python works just fine.
>
> You can use any existing Python installation as long as it is Python
> version >= 2.2:
>
>  cd /Users/francisreyes
>  rm -rf Python-2.5.2_cci
>  ./cci_apps_install_script.csh 2
>
> This will pick the first "python" on PATH.
> Or run
>
>  ./cci_apps_install_script.csh /some/path/bin/python 2
>
> To force the use of a specific python installation.
>
>> ImportError: No module named _sha256
>> setpaths.csh: No such file or directory.
>
> Ouch, this is the first time I see this message on a Mac.
> We bundle the Python sources because that's supposed to ensure that
> the CCI Apps installation never fails ("slow but certain"). I'd like
> to understand why it fails. Could you send me the output of
>
>  /usr/bin/sw_vers
>
>  where gcc
>
>  gcc --version
>
>  echo $PATH
>
> Ralf
> _______________________________________________
> phenixbb mailing list
> phenixbb at phenix-online.org
> http://www.phenix-online.org/mailman/listinfo/phenixbb

---------------------------------------------
Francis Reyes M.Sc.
215 UCB
University of Colorado at Boulder

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