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<p class=MsoNormal><font size=2 color=navy face=Arial><span style='font-size:
10.0pt;font-family:Arial;color:navy'>Thanks, it does work now<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span style='font-size:
10.0pt;font-family:Arial;color:navy'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span style='font-size:
10.0pt;font-family:Arial;color:navy'>It would probably be a good thing to
document what are the ‘minimal’ requirements for the build process.
<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span style='font-size:
10.0pt;font-family:Arial;color:navy'>I just found README.developers that
does tell me to upgrade in case of errors, but it does not tell me what
versions are required.<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span style='font-size:
10.0pt;font-family:Arial;color:navy'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span style='font-size:
10.0pt;font-family:Arial;color:navy'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span style='font-size:
10.0pt;font-family:Arial;color:navy'>Piotr<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span style='font-size:
10.0pt;font-family:Arial;color:navy'><o:p> </o:p></span></font></p>
<div>
<p class=MsoNormal><font size=2 color=navy face=Arial><span style='font-size:
10.0pt;font-family:Arial;color:navy'> __________________________________________________________________<br>
Piotr Adam Zolnierczuk<br>
<st1:place w:st="on"><st1:PlaceName w:st="on">Indiana</st1:PlaceName> <st1:PlaceType
w:st="on">University</st1:PlaceType></st1:place>
phone: (812) 855-3613<br>
Cyclotron
Facility
fax: (812) 855-6645<br>
<st1:Street w:st="on"><st1:address w:st="on">2401 Milo B Sampson Ln</st1:address></st1:Street>
e-mail: <a href="mailto:pzolnier@indiana.edu">pzolnier@indiana.edu</a><br>
<st1:place w:st="on"><st1:City w:st="on">Bloomington</st1:City>,<st1:State
w:st="on">IN</st1:State> <st1:PostalCode w:st="on">47408</st1:PostalCode>, <st1:country-region
w:st="on">USA</st1:country-region></st1:place> <a
href="http://www.iucf.indiana.edu/u/pzolnier">http://www.iucf.indiana.edu/u/pzolnier</a><br>
__________________________________________________________________<br>
written on recycled electrons </span></font><o:p></o:p></p>
</div>
<div>
<div class=MsoNormal align=center style='text-align:center'><font size=3
face="Times New Roman"><span style='font-size:12.0pt'>
<hr size=2 width="100%" align=center tabindex=-1>
</span></font></div>
<p class=MsoNormal><b><font size=2 face=Tahoma><span style='font-size:10.0pt;
font-family:Tahoma;font-weight:bold'>From:</span></font></b><font size=2
face=Tahoma><span style='font-size:10.0pt;font-family:Tahoma'> Akeroyd, FA
(Freddie) [mailto:F.A.Akeroyd@rl.ac.uk] <br>
<b><span style='font-weight:bold'>Sent:</span></b> Sunday, February 10, 2008
6:28 PM<br>
<b><span style='font-weight:bold'>To:</span></b> <st1:PersonName w:st="on">Zolnierczuk,
Piotr</st1:PersonName>; nexus@nexusformat.org<br>
<b><span style='font-weight:bold'>Subject:</span></b> RE: [Nexus] problems with
nxpython</span></font><o:p></o:p></p>
</div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span lang=EN-GB
style='font-size:10.0pt;font-family:Arial;color:navy'>Hi,<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span lang=EN-GB
style='font-size:10.0pt;font-family:Arial;color:navy'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span lang=EN-GB
style='font-size:10.0pt;font-family:Arial;color:navy'>The problem with missing
symbols should now be fixed in the latest 4.1 branch snapshot which is
available from<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span lang=EN-GB
style='font-size:10.0pt;font-family:Arial;color:navy'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span lang=EN-GB
style='font-size:10.0pt;font-family:Arial;color:navy'><a
href="http://download.nexusformat.org/kits/snapshots.shtml">http://download.nexusformat.org/kits/snapshots.shtml</a><o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span lang=EN-GB
style='font-size:10.0pt;font-family:Arial;color:navy'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span lang=EN-GB
style='font-size:10.0pt;font-family:Arial;color:navy'>though all the functions
were present in the NeXus library, they were not exported correctly in all
circumstances.<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span lang=EN-GB
style='font-size:10.0pt;font-family:Arial;color:navy'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span lang=EN-GB
style='font-size:10.0pt;font-family:Arial;color:navy'>With regard to building
from svn, you are using the correct sequence of commands and just need to
update your installed copy of autoconf - the new INT64 support requires
autoconf-2.61 or higher. <o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span lang=EN-GB
style='font-size:10.0pt;font-family:Arial;color:navy'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span lang=EN-GB
style='font-size:10.0pt;font-family:Arial;color:navy'>Regards,<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span lang=EN-GB
style='font-size:10.0pt;font-family:Arial;color:navy'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span lang=EN-GB
style='font-size:10.0pt;font-family:Arial;color:navy'>Freddie<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 color=navy face=Arial><span lang=EN-GB
style='font-size:10.0pt;font-family:Arial;color:navy'><o:p> </o:p></span></font></p>
<div>
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face="Times New Roman"><span style='font-size:12.0pt'>
<hr size=2 width="100%" align=center tabindex=-1>
</span></font></div>
<p class=MsoNormal><b><font size=2 face=Tahoma><span style='font-size:10.0pt;
font-family:Tahoma;font-weight:bold'>From:</span></font></b><font size=2
face=Tahoma><span style='font-size:10.0pt;font-family:Tahoma'>
nexus-bounces@nexusformat.org [mailto:nexus-bounces@nexusformat.org] <b><span
style='font-weight:bold'>On Behalf Of </span></b><st1:PersonName w:st="on">Zolnierczuk,
Piotr</st1:PersonName><br>
<b><span style='font-weight:bold'>Sent:</span></b> 09 February 2008 19:05<br>
<b><span style='font-weight:bold'>To:</span></b> nexus@nexusformat.org<br>
<b><span style='font-weight:bold'>Subject:</span></b> [Nexus] problems with
nxpython</span></font><o:p></o:p></p>
</div>
<p class=MsoNormal><font size=3 face="Times New Roman"><span lang=EN-GB
style='font-size:12.0pt'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>Hi:<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>I am having problems with NeXus Python bindings<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>When I invoke python interpreter and ‘import
nxpython’ I get the following message<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>$ export
PYTHONPATH=$HOME/lib/nexus-r980/lib/python2.4/site-packages
<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>$ export
LD_LIBRARY_PATH=$HOME//lib/nexus-r980/lib:$HOME/lib/nexus-r980/lib/python2.4/site-packages<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>$ python<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>Python 2.4.3 (#1, Apr 7 2007, 17:50:23) <o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>[GCC 4.1.1 20061011 (Red Hat 4.1.1-30)] on linux2<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>Type "help", "copyright",
"credits" or "license" for more information.<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>>>> import nxpython<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>Traceback (most recent call last):<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'> File "<stdin>", line 1, in ?<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'> File
"/home/zolnie/lib/nexus-r980/lib/python2.4/site-packages/nxpython.py",
line 5, in ?<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'> import libnxpython<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>ImportError:
/home/zolnie/lib/nexus-r980/lib/python2.4/site-packages/libnxpython.so:
undefined symbol: putNXDatasetValue<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>>>><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>And when I just try to link I get a host of unresolved
symbols <o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>$ gcc main.c –L$HOME/lib/nexus-r980/lib
–L$HOME/lib/nexus-r980/lib/python2.4/site-packages -lnxpython -lNeXus
-lpython2.4<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>/home/zolnie/lib/nexus-r980/lib/python2.4/site-packages/libnxpython.so:
undefined reference to `putNXDatasetValue'<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>/home/zolnie/lib/nexus-r980/lib/python2.4/site-packages/libnxpython.so:
undefined reference to `getNXDatasetDim'<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>/home/zolnie/lib/nexus-r980/lib/python2.4/site-packages/libnxpython.so:
undefined reference to `getNXDatasetValue'<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>/home/zolnie/lib/nexus-r980/lib/python2.4/site-packages/libnxpython.so:
undefined reference to `dropNXDataset'<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>/home/zolnie/lib/nexus-r980/lib/python2.4/site-packages/libnxpython.so:
undefined reference to `getNXDatasetText'<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>/home/zolnie/lib/nexus-r980/lib/python2.4/site-packages/libnxpython.so:
undefined reference to `createNXDataset'<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>/home/zolnie/lib/nexus-r980/lib/python2.4/site-packages/libnxpython.so:
undefined reference to `getNXDatasetRank'<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>/home/zolnie/lib/nexus-r980/lib/python2.4/site-packages/libnxpython.so:
undefined reference to `createTextNXDataset'<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>/home/zolnie/lib/nexus-r980/lib/python2.4/site-packages/libnxpython.so:
undefined reference to `getNXDatasetType'<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>collect2: ld returned 1 exit status<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>Running nm –B libNeXus.so reveals that the above
symbols are, indeed, defined in libNeXus.so , so I guess I am doing something
silly.<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>I tried r980 and also 4.1, 4.0.<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>My machine is a 2xDualCore AMD64 running Scientific Linux 5
(a virtual clone of RHEL5):<o:p></o:p></span></font></p>
<ul style='margin-top:0in' type=disc>
<li class=MsoNormal style='mso-list:l1 level1 lfo3'><font size=2 face=Arial><span
lang=PL style='font-size:10.0pt;font-family:Arial'>gcc-4.1.1<o:p></o:p></span></font></li>
<li class=MsoNormal style='mso-list:l1 level1 lfo3'><font size=2 face=Arial><span
lang=PL style='font-size:10.0pt;font-family:Arial'>swig-1.3.29<o:p></o:p></span></font></li>
<li class=MsoNormal style='mso-list:l1 level1 lfo3'><font size=2 face=Arial><span
lang=PL style='font-size:10.0pt;font-family:Arial'>automake-1.9.6<o:p></o:p></span></font></li>
<li class=MsoNormal style='mso-list:l1 level1 lfo3'><font size=2 face=Arial><span
lang=PL style='font-size:10.0pt;font-family:Arial'>autoconf-2.59-12<o:p></o:p></span></font></li>
<li class=MsoNormal style='mso-list:l1 level1 lfo3'><font size=2 face=Arial><span
lang=PL style='font-size:10.0pt;font-family:Arial'>libtool-1.5.22<o:p></o:p></span></font></li>
<li class=MsoNormal style='mso-list:l1 level1 lfo3'><font size=2 face=Arial><span
lang=PL style='font-size:10.0pt;font-family:Arial'>python-2.4.3<o:p></o:p></span></font></li>
<li class=MsoNormal style='mso-list:l1 level1 lfo3'><font size=2 face=Arial><span
lang=PL style='font-size:10.0pt;font-family:Arial'>java-1.5.0<o:p></o:p></span></font></li>
</ul>
<p class=MsoNormal><font size=2 face=Arial><span lang=PL style='font-size:10.0pt;
font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=PL style='font-size:10.0pt;
font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>BTW what is the correct way of building when extracting from
svn?<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span lang=PL style='font-size:10.0pt;
font-family:Arial'>./autogen.sh<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>./configure [options]<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>make<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>make install<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>Cause when I run ./autogen.sh I get the following error<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>$ ./autogen.sj<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>Building configure...<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>configure.ac:534: error: possibly undefined macro:
AC_TYPE_INT64_T<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'> If this token and others are
legitimate, please use m4_pattern_allow.<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'> See the Autoconf
documentation.<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>configure.ac:535: error: possibly undefined macro:
AC_TYPE_UINT64_T<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>configure.ac:536: error: possibly undefined macro:
AC_TYPE_LONG_LONG_INT<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>configure.ac:537: error: possibly undefined macro:
AC_TYPE_UNSIGNED_LONG_LONG_INT<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>done.<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'><o:p> </o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>Any ideas what am I missing?<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>Cheers<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>
Piotr<o:p></o:p></span></font></p>
<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'> </span></font><font size=2 face=Arial><span lang=PL
style='font-size:10.0pt;font-family:Arial'>__________________________________________________________________<br>
Piotr Adam Zolnierczuk<br>
Indiana
University
</span></font><font size=2 face=Arial><span style='font-size:10.0pt;font-family:
Arial'>phone: (812) 855-3613<br>
Cyclotron
Facility
fax: (812) 855-6645<br>
<st1:Street w:st="on"><st1:address w:st="on">2401 Milo B Sampson Ln</st1:address></st1:Street>
e-mail: <a href="mailto:pzolnier@indiana.edu">pzolnier@indiana.edu</a><br>
<st1:place w:st="on"><st1:City w:st="on">Bloomington</st1:City>,<st1:State
w:st="on">IN</st1:State> <st1:PostalCode w:st="on">47408</st1:PostalCode>, <st1:country-region
w:st="on">USA</st1:country-region></st1:place> <a
href="http://www.iucf.indiana.edu/u/pzolnier">http://www.iucf.indiana.edu/u/pzolnier</a><br>
__________________________________________________________________<br>
written on recycled electrons </span></font><o:p></o:p></p>
<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><o:p> </o:p></span></font></p>
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