<html><head><style type="text/css"><!-- DIV {margin:0px;} --></style></head><body><div style="font-family:arial,helvetica,sans-serif;font-size:10pt">Hi Jeff<br>Thanks for the reply. However, the .matplotlib directory does not contain any rc file as shown in the following :<br><br><div style="font-family: arial,helvetica,sans-serif; font-size: 10pt;">$> ls -tls ~/.matplotlib/<br>total 244<br> 4 drwx--x--x 2 vega users 4096 2010-08-08 22:47 tex.cache/<br>240 -rw------- 1 vega users 243287 2010-08-08 22:47 fontList.cache<br>$> <br><br>I downloaded yt by svn and installed manually which gave no error.<br>Regs<br>Abhijit<br><br><br><br><br><div style="font-family: tahoma,new york,times,serif; font-size: 10pt;"><font face="Tahoma" size="2"><hr size="1"><b><span style="font-weight: bold;">From:</span></b> j s oishi <jsoishi@gmail.com><br><b><span style="font-weight: bold;">To:</span></b> Discussion of the yt analysis package
<yt-users@lists.spacepope.org><br><b><span style="font-weight: bold;">Sent:</span></b> Sun, 8 August, 2010 10:38:08 PM<br><b><span style="font-weight: bold;">Subject:</span></b> Re: [yt-users] IYT gives problem after updation of system<br></font><br>Hi Abhijit,<br><br>Since you said that your OpenSUSE upgrade excluded /usr/local, I'm<br>assuming that you build this matplotlib either from the yt install<br>script or manually. It looks like the tkagg backend was excluded<br>during the matplotlib process, possibly because the pacakges it relies<br>on aren't installed by default in your new OpenSUSE distribution.<br>First, try changing the backend in your .matplotlibrc file, which you<br>can find in<br><br>~/.matplotlib/matplotlibrc<br><br>If you're using GNOME, try GTKAgg; if you're using KDE, try Qt4Agg.<br><br>TkAgg has very few requirements, but you may not have the tk-devel<br>package (or its OpenSUSE equivalent; I don't use that distribution,
so<br>I don't know exactly what it's called).<br><br>Finally, you can verify that matplotlib works without a GUI backend by<br>writing a very simple yt script that plots and saves a file, something<br>like<br><br>from yt.mods import *<br><br>pf =load("DD0010/data0010")<br>pc = PlotCollection(pf)<br><br>for i in range(3):<br> pc.add_slice("Density",i)<br><br>pc.save('test')<br><br><br>and then do<br><br>$ python the_above_script.py -dAgg<br><br>and it will attempt to run that script using the Agg matplotlib<br>backend, which requires no GUI.<br><br>Hope this is helpful,<br><br>Jeff<br><br>On Sun, Aug 8, 2010 at 12:57 AM, Dr. ABHIJIT BHATTACHARYYA<br><<a ymailto="mailto:b_abhijit2k@yahoo.co.in" href="mailto:b_abhijit2k@yahoo.co.in">b_abhijit2k@yahoo.co.in</a>> wrote:<br>> Hi<br>> I did, but result is -ve. I feel that may be, matplotlib or other python<br>> related routine has error. I am using Python 2.6.5 (r265:79063,
Jul 5 2010,<br>> 11:46:13) and IPython 0.10. After unsuccessful attempt I tried to re-install<br>> yt manually using svn which did not give any error. However, still iyt is<br>> not working.<br>> regs<br>> Abhi<br>><br>> $> iyt<br>> Traceback (most recent call last):<br>> File "/usr/local/bin/iyt", line 5, in <module><br>> pkg_resources.run_script('yt==1.7', 'iyt')<br>> File<br>> "/usr/local/lib64/python2.6/site-packages/distribute-0.6.10-py2.6.egg/pkg_resources.py",<br>> line 461, in run_script<br>> self.require(requires)[0].run_script(script_name, ns)<br>> File<br>> "/usr/local/lib64/python2.6/site-packages/distribute-0.6.10-py2.6.egg/pkg_resources.py",<br>> line 1194, in run_script<br>> execfile(script_filename, namespace, namespace)<br>> File<br>>
"/usr/local/lib64/python2.6/site-packages/yt-1.7-py2.6-linux-x86_64.egg/EGG-INFO/scripts/iyt",<br>> line 32, in <module><br>> ip_shell = IPython.Shell.IPShellMatplotlib(user_ns=namespace)<br>> File "/usr/local/lib/python2.6/site-packages/IPython/Shell.py", line 1106,<br>> in __init__<br>> shell_class=MatplotlibShell)<br>> File "/usr/local/lib/python2.6/site-packages/IPython/Shell.py", line 73,<br>> in __init__<br>> debug=debug,shell_class=shell_class)<br>> File "/usr/local/lib/python2.6/site-packages/IPython/ipmaker.py", line<br>> 100, in make_IPython<br>> embedded=embedded,**kw)<br>> File "/usr/local/lib/python2.6/site-packages/IPython/Shell.py", line 627,<br>> in __init__<br>> user_ns,user_global_ns,b2 =<br>> self._matplotlib_config(name,user_ns,user_global_ns)<br>> File
"/usr/local/lib/python2.6/site-packages/IPython/Shell.py", line 556,<br>> in _matplotlib_config<br>> import matplotlib.pylab as pylab<br>> File "/usr/lib64/python2.6/site-packages/matplotlib/pylab.py", line 259,<br>> in <module><br>> from matplotlib.pyplot import *<br>> File "/usr/lib64/python2.6/site-packages/matplotlib/pyplot.py", line 95,<br>> in <module><br>> new_figure_manager, draw_if_interactive, show = pylab_setup()<br>> File "/usr/lib64/python2.6/site-packages/matplotlib/backends/__init__.py",<br>> line 25, in pylab_setup<br>> globals(),locals(),[backend_name])<br>> ImportError: No module named backend_tkagg<br>> $><br>> $> setenv HDF5_DISABLE_VERSION_CHECK 2<br>> $> iyt<br>> Traceback (most recent call last):<br>> File "/usr/local/bin/iyt", line 5, in
<module><br>> pkg_resources.run_script('yt==1.7', 'iyt')<br>> File<br>> "/usr/local/lib64/python2.6/site-packages/distribute-0.6.10-py2.6.egg/pkg_resources.py",<br>> line 461, in run_script<br>> self.require(requires)[0].run_script(script_name, ns)<br>> File<br>> "/usr/local/lib64/python2.6/site-packages/distribute-0.6.10-py2.6.egg/pkg_resources.py",<br>> line 1194, in run_script<br>> execfile(script_filename, namespace, namespace)<br>> File<br>> "/usr/local/lib64/python2.6/site-packages/yt-1.7-py2.6-linux-x86_64.egg/EGG-INFO/scripts/iyt",<br>> line 32, in <module><br>> ip_shell = IPython.Shell.IPShellMatplotlib(user_ns=namespace)<br>> File "/usr/local/lib/python2.6/site-packages/IPython/Shell.py", line 1106,<br>> in __init__<br>> shell_class=MatplotlibShell)<br>>
File "/usr/local/lib/python2.6/site-packages/IPython/Shell.py", line 73,<br>> in __init__<br>> debug=debug,shell_class=shell_class)<br>> File "/usr/local/lib/python2.6/site-packages/IPython/ipmaker.py", line<br>> 100, in make_IPython<br>> embedded=embedded,**kw)<br>> File "/usr/local/lib/python2.6/site-packages/IPython/Shell.py", line 627,<br>> in __init__<br>> user_ns,user_global_ns,b2 =<br>> self._matplotlib_config(name,user_ns,user_global_ns)<br>> File "/usr/local/lib/python2.6/site-packages/IPython/Shell.py", line 556,<br>> in _matplotlib_config<br>> import matplotlib.pylab as pylab<br>> File "/usr/lib64/python2.6/site-packages/matplotlib/pylab.py", line 259,<br>> in <module><br>> from matplotlib.pyplot import *<br>> File
"/usr/lib64/python2.6/site-packages/matplotlib/pyplot.py", line 95,<br>> in <module><br>> new_figure_manager, draw_if_interactive, show = pylab_setup()<br>> File "/usr/lib64/python2.6/site-packages/matplotlib/backends/__init__.py",<br>> line 25, in pylab_setup<br>> globals(),locals(),[backend_name])<br>> ImportError: No module named backend_tkagg<br>> $><br>><br>> Dr. Abhijit Bhattacharyya [Scientific Officer]<br>> Control Instrumentation Division (CnID)<br>> Electronics and Instrumentation Group (E&I Group)<br>> Reactor Control Division Building (RCnD Building)<br>> Bhabha Atomic Research Center (BARC)<br>> Trombay, Mumbai - 400 085<br>> Phone: +91.22.2559.5493<br>> Email: <a ymailto="mailto:vega@barc.gov.in" href="mailto:vega@barc.gov.in">vega@barc.gov.in</a><br>> Residence:<br>> 811 Akashdeep<br>> Anushakti Nagar<br>><br>> Mumbai-
400094<br>> Phone: +91.22.2558.0930<br>> Mobile: +91.98201.49770<br>><br>> GPS: 19 deg 01 min 54.52 secs North;<br>><br>> 72 deg 55 min 46.30 secs East<br>><br>> ________________________________<br>> From: Matthew Turk <<a ymailto="mailto:matthewturk@gmail.com" href="mailto:matthewturk@gmail.com">matthewturk@gmail.com</a>><br>> To: Discussion of the yt analysis package <<a ymailto="mailto:yt-users@lists.spacepope.org" href="mailto:yt-users@lists.spacepope.org">yt-users@lists.spacepope.org</a>><br>> Sent: Sun, 8 August, 2010 3:13:14 AM<br>> Subject: Re: [yt-users] IYT gives problem after updation of system<br>><br>> Hi Abhijit,<br>><br>> Setting HDF5_DISABLE_VERSION_CHECK to 2 should be okay in this case. Let us<br>> know if it acts up, though!<br>><br>> -Matt<br>><br>> On Aug 7, 2010 2:22 PM, "Dr. ABHIJIT
BHATTACHARYYA"<br>> <<a ymailto="mailto:b_abhijit2k@yahoo.co.in" href="mailto:b_abhijit2k@yahoo.co.in">b_abhijit2k@yahoo.co.in</a>> wrote:<br>><br>> Hi<br>><br>> I upgraded my system to OpenSUSE 11.3. I kept 'iyt' and 'enzo' in<br>> '/usr/local' while I only upgraded '/' while '/' and '/usr/local' are two<br>> different partitions. Now Enzo is working while iyt gives following error.<br>><br>> $> iyt<br>> Warning! ***HDF5 library version mismatched error***<br>> The HDF5 header files used to compile this application do not match<br>> the version used by the HDF5 library to which this application is linked.<br>> Data corruption or segmentation faults may occur if the application<br>> continues.<br>> This can happen when an application was compiled by one version of HDF5 but<br>> linked with a different version of static or shared HDF5 library.<br>> You should recompile the application or check
your shared library related<br>> settings such as 'LD_LIBRARY_PATH'.<br>> You can, at your own risk, disable this warning by setting the environment<br>> variable 'HDF5_DISABLE_VERSION_CHECK' to a value of '1'.<br>> Setting it to 2 or higher will suppress the warning messages totally.<br>> Headers are 1.8.5, library is 1.8.4<br>> SUMMARY OF THE HDF5 CONFIGURATION<br>> =================================<br>><br>> General Information:<br>> -------------------<br>> HDF5 Version: 1.8.4-patch1<br>> Configured on: Sat May 29 02:41:00 IST 2010<br>>
Configured by: root@Pakudidi<br>> Configure mode: production<br>> Host system: x86_64-unknown-linux-gnu<br>> Uname information: Linux Pakudidi 2.6.31-rc9-7-default #1 SMP<br>> 2009-09-08 18:49:15 +0200 x86_64 x86_64 x86_64 GNU/Linux<br>> Byte sex: little-endian<br>> Libraries:<br>>
Installation point: /usr/local<br>><br>> Compiling Options:<br>> ------------------<br>> Compilation Mode: production<br>> C Compiler: /usr/bin/gcc (gcc-4.4.1)<br>> CFLAGS:<br>> H5_CFLAGS: -std=c99 -pedantic -Wall -Wextra -Wundef<br>> -Wshadow -Wpointer-arith -Wbad-function-cast -Wcast-qual -Wcast-align<br>> -Wwrite-strings -Wconversion -Waggregate-return -Wstrict-prototypes<br>>
-Wmissing-prototypes -Wmissing-declarations -Wredundant-decls<br>> -Wnested-externs -Winline -Wno-long-long -Wfloat-equal<br>> -Wmissing-format-attribute -Wmissing-noreturn -Wpacked<br>> -Wdisabled-optimization -Wformat=2 -Wunreachable-code -Wendif-labels<br>> -Wdeclaration-after-statement -Wold-style-definition -Winvalid-pch<br>> -Wvariadic-macros -Wnonnull -Winit-self -Wmissing-include-dirs<br>> -Wswitch-default -Wswitch-enum -Wunused-macros -Wunsafe-loop-optimizations<br>> -Wc++-compat -Wstrict-overflow -Wlogical-op -Wlarger-than=2048 -Wvla<br>> -Wsync-nand -Wframe-larger-than=16384 -Wpacked-bitfield-compat -O0<br>> -fomit-frame-pointer -finline-functions<br>> AM_CFLAGS:<br>>
CPPFLAGS:<br>> H5_CPPFLAGS: -D_POSIX_SOURCE -DNDEBUG -UH5_DEBUG_API<br>> AM_CPPFLAGS: -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE<br>> -D_FILE_OFFSET_BITS=64 -D_BSD_SOURCE<br>> Shared Libraries: yes<br>> Static Libraries: yes<br>> Statically Linked Executables: no<br>>
LDFLAGS:<br>> AM_LDFLAGS:<br>> Extra libraries: -lz -lm<br>> Archiver: ar<br>> Ranlib: ranlib<br>> Debugged Packages:<br>>
API Tracing: no<br>><br>> Languages:<br>> ----------<br>> Fortran: yes<br>> Fortran Compiler: ifort<br>> Fortran Flags:<br>> H5 Fortran Flags: -O3<br>> AM Fortran Flags: -fPIC<br>>
C++: yes<br>> C++ Compiler: g++<br>> C++ Flags:<br>> H5 C++ Flags:<br>> AM C++ Flags:<br>><br>> Features:<br>> ---------<br>> Parallel HDF5: no<br>>
High Level library: yes<br>> Threadsafety: no<br>> Default API Mapping: v18<br>> With Deprecated Public Symbols: yes<br>> I/O filters (external): deflate(zlib)<br>> I/O filters (internal): shuffle,fletcher32,nbit,scaleoffset<br>> MPE: no<br>> Direct VFD: no<br>>
dmalloc: no<br>> Clear file buffers before write: yes<br>> Using memory checker: no<br>> Function Stack Tracing: no<br>> GPFS: no<br>> Strict File Format Checks: no<br>> Optimization Instrumentation: no<br>> Linux Large File Support (LFS): yes<br>> Bye...<br>> Abort<br>> $><br>><br>> Can you help me how to proceed?<br>> Thanks and Regs<br>> Abhijit<br>><br>><br>> _______________________________________________<br>> yt-users mailing list<br>> <a
ymailto="mailto:yt-users@lists.spacepope.org" href="mailto:yt-users@lists.spacepope.org">yt-users@lists.spacepope.org</a><br>> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" target="_blank">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a><br>><br>><br>><br>> _______________________________________________<br>> yt-users mailing list<br>> <a ymailto="mailto:yt-users@lists.spacepope.org" href="mailto:yt-users@lists.spacepope.org">yt-users@lists.spacepope.org</a><br>> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" target="_blank">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a><br>><br>><br><br><br><br>-- <br>----------------<br><span>i am dot org: <a target="_blank" href="http://www.jsoishi.org">www.jsoishi.org</a></span><br>_______________________________________________<br>yt-users mailing list<br><a
ymailto="mailto:yt-users@lists.spacepope.org" href="mailto:yt-users@lists.spacepope.org">yt-users@lists.spacepope.org</a><br><a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" target="_blank">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a><br></div></div>
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