xiaoni wrote: > Jeff, > Just to be safe because I am going to operate on the root: > 1) ls -l /usr/local/lib: > libgeos-3.2.0.so > libgeos.so -> libgeos-3.2.0.so Xianoi: I'm assuming you installed libgeos 3.2.0rc1 yourself in /usr/local, and nothing is linked against it besides your non-working basemap? If so, it should be safe to do
rm /usr/local/lib/libgeos* > > shall I just remove libgeos-3.2.0.so ? But then the link for > libgeos.so may not work. > > 2) ls /usr/local/include: > geos geos_c.h geos.h rm /usr/local/include/geos*h > > and in the folder of geos, there are a lot of files and headers. > To remove the geos3.2 headers, shall I just remove > /usr/local/include/geos_c.h and /usr/local/include/geos.h ? I can not > tell where the headers of geos3.1. presumably in /usr/include. If not, you probably need to install a libgeos-dev package or somesuch. -Jeff > > Many thanks again ! > > xiaoni > > ------------------------------------------------------------------------ > *From:* Jeff Whitaker <jsw...@fastmail.fm> > *To:* xiaoni <wang...@yahoo.com> > *Cc:* Matplotlib Users <matplotlib-users@lists.sourceforge.net> > *Sent:* Wed, December 2, 2009 5:55:58 PM > *Subject:* Re: [Matplotlib-users] basemap099.4 and geos > > xiaoni wrote: > > Jeff, > > Many thanks ! > > > > ----ldd /usr/local/lib/python2.6/dist-packages/_geoslib.so > > The results are: > > linux-gate.so <http://linux-gate.so>.1 => (0x00cf2000) > > libgeos_c.so <http://libgeos_c.so>.1 => > /usr/local/lib/libgeos_c.so.1 (0x00944000) > > libgeos-3.1.0.so <http://libgeos-3.1.0.so> => > /usr/lib/libgeos-3.1.0.so (0x005cd000) > > libpthread.so <http://libpthread.so>.0 => > /lib/tls/i686/cmov/libpthread.so.0 (0x00a0e000) > > libc.so <http://libc.so>.6 => /lib/tls/i686/cmov/libc.so.6 > (0x00165000) > > libgeos-3.2.0.so <http://libgeos-3.2.0.so> => > /usr/local/lib/libgeos-3.2.0.so (0xb75c1000) > > libstdc++.so.6 => /usr/lib/libstdc++.so.6 (0x00d5c000) > > libm.so <http://libm.so>.6 => /lib/tls/i686/cmov/libm.so.6 > (0x00cf7000) > > libgcc_s.so <http://libgcc_s.so>.1 => /lib/libgcc_s.so.1 > (0x00f77000) > > /lib/ld-linux.so.2 (0x00148000) > > > > It seems that it mixed geos3.1 and 3.2 ? > > Xianoi: Yep, there's your problem right there. My suggestion is to > remove the 3.2.0 geos lib and headers from /usr/local/lib and > /usr/local/include and try again. > > -Jeff > > > > If I have to clean out all the old versions of basemap, _geoslib.so > <http://_geoslib.so> and libgeos, then rebuild again, What is the safe > way to do so ? I am afraid that I may damage the system if I simplely > apply "rm". Do you have some suggestion about the steps of deleting ? > > > > Many thanks !! > > > > xiaoni > > > > > > ------------------------------------------------------------------------ > > *From:* Jeff Whitaker <jsw...@fastmail.fm <mailto:jsw...@fastmail.fm>> > > *To:* xiaoni <wang...@yahoo.com <mailto:wang...@yahoo.com>>; > Matplotlib Users <matplotlib-users@lists.sourceforge.net > <mailto:matplotlib-users@lists.sourceforge.net>> > > *Sent:* Wed, December 2, 2009 5:42:17 PM > > *Subject:* Re: [Matplotlib-users] basemap099.4 and geos > > > > xiaoni wrote: > > > Jeff, > > > Many thanks for your help ! The problem was : there was a > segmentation error when I call Basemap. I applied the following steps, > and then tried to launch ipython, it still has the same problem. > > > --add export GEOS_DIR=/usr/local/lib > > > --download basemap 099.4 to /home/xiaoni/software, where the > previous version099.3 is saved also > > > -- sudo python setup.py <http://setup.py> <http://setup.py> install > > > > > > The installation is OK. Then I test: > > > --ls -l /usr/local/lib/libgeos.so : /usr/local/lib/libgeos.so -> > libgeos-3.2.0.so <http://libgeos-3.2.0.so> > > > --ls -l /usr/lib/libgeos.so : /usr/lib/libgeos.so -> > libgeos-3.1.0.so <http://libgeos-3.1.0.so> > > > --ls -l /usr/local/lib/libgeos.so : /usr/local/lib/libgeos.so -> > libgeos-3.2.0.so > > > --locate libgeos.so <http://libgeos.so> <http://libgeos.so> > : /usr/lib/libgeos.so , and /usr/local/lib/libgeos.so > > > --locate _geoslib : > > > > /home/xiaoni/software/basemap-0.99.3/build/lib.linux-i686-2.6/_geoslib.so > > > > /home/xiaoni/software/basemap-0.99.3/build/temp.linux-i686-2.6/src/_geoslib.o > > > /home/xiaoni/software/basemap-0.99.3/src/_geoslib.c > > > /home/xiaoni/software/basemap-0.99.3/src/_geoslib.pyx > > > /usr/local/lib/python2.6/dist-packages/_geoslib.so > > > (in fact I have saved both basemap -099.3 and basemap-0.99.4 in > the /home/xiaoni/software. This result only shows 0.99.3 and is > strange to me). > > > > > > Many thanks again !! > > > > > > xiaoni > > > > Xiaoni: Is there no traceback? Can you run ldd on the _geoslib.so > <http://_geoslib.so> that you are actually importing when the error > occurs (presumably > /usr/local/lib/python2.6/dist-packages/_geoslib.so)? That will tell > you what version of the geos library you actually linked. I don't > think I can be of much help here - all I can suggest is that you clean > out all old versions of basemap, _geoslib.so and libgeos, then rebuild > again. The fact that there are so may versions floating around > increases the chance that you have a version mismatch somewhere. > > > > Also check the build output and make sure there were no errors > building _geoslib.so. > > > > > > -Jeff > > > > > > > > > > > > ------------------------------------------------------------------------ > > > *From:* Jeff Whitaker <jsw...@fastmail.fm > <mailto:jsw...@fastmail.fm> <mailto:jsw...@fastmail.fm > <mailto:jsw...@fastmail.fm>>> > > > *To:* xiaoni <wang...@yahoo.com <mailto:wang...@yahoo.com> > <mailto:wang...@yahoo.com <mailto:wang...@yahoo.com>>> > > > *Cc:* matplotlib-users@lists.sourceforge.net > <mailto:matplotlib-users@lists.sourceforge.net> > <mailto:matplotlib-users@lists.sourceforge.net > <mailto:matplotlib-users@lists.sourceforge.net>> > > > *Sent:* Wed, December 2, 2009 4:47:51 PM > > > *Subject:* Re: [Matplotlib-users] basemap099.4 and geos > > > > > > xiaoni wrote: > > > > Hello, all, > > > > I have some problem with basemap and geos， and can not use > Basemap。 > > > > In the below I list the information about basemap and geos in my > computer. Hope someone would help me to figure out why it does not > work. Many thanks in adance ! > > > > > > > > 1) I type: > > > > ---from mpl_toolkits.basemap import Basemap; > > > > ---mpl_toolkits.basemap.__path__ > > > > ---mpl_toolkits.basemap.__version__ > > > > The results: > > > > /usr/local/lib/python2.6/dist-packages/mpl_toolkits/basemap > > > > '0.99.4' > > > > > > > > 2) I also checked the same for matplotlib: > > > > /usr/lib/pymodules/python2.6/matplotlib > > > > 0.99.0 > > > > > > > > 3) I type: locate _geoslib: > > > > > > > > > /home/xiaoni/software/basemap-0.99.3/build/lib.linux-i686-2.6/_geoslib.so > > > > > /home/xiaoni/software/basemap-0.99.3/build/temp.linux-i686-2.6/src/_geoslib.o > > > > /home/xiaoni/software/basemap-0.99.3/src/_geoslib.c > > /home/xiaoni/software/basemap-0.99.3/src/_geoslib.pyx > /usr/local/lib/python2.6/dist-packages/_geoslib.so > > > > > /home/xiaoni/software/temp/basemap-0.99.3-backup/build/lib.linux-i686-2.6/_geoslib.so > > > > /home/xiaoni/software/temp/basemap-0.99.3-backup/src/_geoslib.c > > > > /home/xiaoni/software/temp/basemap-0.99.3-backup/src/_geoslib.pyx > > > > > > > > > > > > 4) I type: locate libgeos.so <http://libgeos.so> > <http://libgeos.so/> > > > > > > > > > /home/xiaoni/software/temp/basemap-0.99.3-backup/geos-2.2.3/source/geom/.libs/libgeos.so > > > > > /home/xiaoni/software/temp/basemap-0.99.3-backup/geos-2.2.3/source/geom/.libs/libgeos.so.2 > > > > > /home/xiaoni/software/temp/basemap-0.99.3-backup/geos-2.2.3/source/geom/.libs/libgeos.so.2.2.3 > > > > /home/xiaoni/software/temp/geos-3.2.0rc1/source/.libs/libgeos.so > > > > /home/xiaoni/software/temp/lib/libgeos.so > > > > /home/xiaoni/software/temp/lib/libgeos.so.2 > > > > /home/xiaoni/software/temp/lib/libgeos.so.2.2.3 > > > > /usr/lib/libgeos.so > > > > /usr/local/lib/libgeos.so > > > > /usr/local/lib/backup2/libgeos.so > > > > /usr/local/lib/backup2/libgeos.so.2 > > > > /usr/local/lib/backup2/libgeos.so.2.2.3 > > > > > > > > 5) locate libgeos_c.so <http://libgeos_c.so> > <http://libgeos_c.so> <http://libgeos_c.so/> > > > > > > > > > /home/xiaoni/software/temp/basemap-0.99.3-backup/geos-2.2.3/source/capi/.libs/libgeos_c.so > > > > > /home/xiaoni/software/temp/basemap-0.99.3-backup/geos-2.2.3/source/capi/.libs/libgeos_c.so.1 > > > > > /home/xiaoni/software/temp/basemap-0.99.3-backup/geos-2.2.3/source/capi/.libs/libgeos_c.so.1.1.1 > > > > > /home/xiaoni/software/temp/basemap-0.99.3-backup/geos-2.2.3/source/capi/.libs/libgeos_c.so.1.1.1T > > > > /home/xiaoni/software/temp/geos-3.2.0rc1/capi/.libs/libgeos_c.so > > > > /home/xiaoni/software/temp/geos-3.2.0rc1/capi/.libs/libgeos_c.so.1 > > > > > /home/xiaoni/software/temp/geos-3.2.0rc1/capi/.libs/libgeos_c.so.1.6.0 > > > > > /home/xiaoni/software/temp/geos-3.2.0rc1/capi/.libs/libgeos_c.so.1.6.0T > > > > /home/xiaoni/software/temp/lib/libgeos_c.so > > > > /home/xiaoni/software/temp/lib/libgeos_c.so.1 > > > > /home/xiaoni/software/temp/lib/libgeos_c.so.1.1.1 > > > > /usr/lib/libgeos_c.so > > > > /usr/lib/libgeos_c.so.1 > > > > /usr/lib/libgeos_c.so.1.5.0 > > > > /usr /local/lib/libgeos_c.so.1 > > > > /us r/local/lib/libgeos_c.so.1.6.0 > > > > /usr/local/lib/backup2/libgeos_c.so > > > > /usr/local/lib/backup2/libgeos_c.so.1 > > > > /usr/local/lib/backup2/libgeos_c.so.1.1.1 > > > > > > > > > 6) I also type: > > > > ls -l /usr/local/lib/python2.6/dist-packages/_geoslib.so > > > > It does not linked to any files (no pointer) > > > > > > > > 2) ls -l /usr/local/lib/libgeos.so > > > > /usr/local/lib/libgeos.so -> libgeos-3.2.0.so > <http://libgeos-3.2.0.so> <http://libgeos-3.2.0.so/> > > > > > > > > 3) ls -l /usr/local/lib/libgeos.so > > > > /usr/local/lib/libgeos.so -> libgeos-3.2.0.so > > > > > > > > 4) ls -l /usr/local/lib/backup2/libgeos.so.2 > > > > /usr/local/lib/backup2/libgeos.so.2 -> libgeos.so > <http://libgeos.so/>.2.2.3 > > > > > > > > 5) ls -l /usr/local/lib/backup2/libgeos.so.2.2.3 > > > > /usr/local/lib/backup2/libgeos.so.2.2.3, no links > > > > > > > > > > > > It seems that Basemap can not be used because of something wrong > with the installation of GEOS ? Anyone would give some hints for help > ? I appreciate it a lot !! > > > > > > > > xiaoni > > > > > > > > > > > Xianoi: You never said what the actual problem is with basemap. > I have seen segfaults when there are two versions of geos installed > (version 2 and version 3) and you pick up the header from one version > and lib from the other version. I suggest setting the GEOS_DIR env > var to /usr/local/lib and re-running the basemap install (python > setup.py <http://setup.py> install), after deleting the existing build > directory. Hopefully then it will grab both the header and lib for > version 3.2.0 (which by the way is a pre-release, as yet untested with > basemap). > > > > > > -Jeff > > > > > > > > > -- Jeffrey S. Whitaker Phone : (303)497-6313 > > > Meteorologist FAX : (303)497-6449 > > > NOAA/OAR/PSD R/PSD1 Email : jeffrey.s.whita...@noaa.gov > <mailto:jeffrey.s.whita...@noaa.gov> > <mailto:jeffrey.s.whita...@noaa.gov > <mailto:jeffrey.s.whita...@noaa.gov>> > <mailto:jeffrey.s.whita...@noaa.gov > <mailto:jeffrey.s.whita...@noaa.gov> > <mailto:jeffrey.s.whita...@noaa.gov <mailto:jeffrey.s.whita...@noaa.gov>>> > > > 325 Broadway Office : Skaggs Research Cntr 1D-113 > > > Boulder, CO, USA 80303-3328 Web : http://tinyurl.com/5telg > > > > > > > > > > > > -- Jeffrey S. Whitaker Phone : (303)497-6313 > > Meteorologist FAX : (303)497-6449 > > NOAA/OAR/PSD R/PSD1 Email : jeffrey.s.whita...@noaa.gov > <mailto:jeffrey.s.whita...@noaa.gov> > <mailto:jeffrey.s.whita...@noaa.gov <mailto:jeffrey.s.whita...@noaa.gov>> > > 325 Broadway Office : Skaggs Research Cntr 1D-113 > > Boulder, CO, USA 80303-3328 Web : http://tinyurl.com/5telg > > > > > > > -- Jeffrey S. Whitaker Phone : (303)497-6313 > Meteorologist FAX : (303)497-6449 > NOAA/OAR/PSD R/PSD1 Email : jeffrey.s.whita...@noaa.gov > <mailto:jeffrey.s.whita...@noaa.gov> > 325 Broadway Office : Skaggs Research Cntr 1D-113 > Boulder, CO, USA 80303-3328 Web : http://tinyurl.com/5telg > > -- Jeffrey S. Whitaker Phone : (303)497-6313 Meteorologist FAX : (303)497-6449 NOAA/OAR/PSD R/PSD1 Email : jeffrey.s.whita...@noaa.gov 325 Broadway Office : Skaggs Research Cntr 1D-113 Boulder, CO, USA 80303-3328 Web : http://tinyurl.com/5telg ------------------------------------------------------------------------------ Join us December 9, 2009 for the Red Hat Virtual Experience, a free event focused on virtualization and cloud computing. Attend in-depth sessions from your desk. Your couch. Anywhere. http://p.sf.net/sfu/redhat-sfdev2dev _______________________________________________ Matplotlib-users mailing list Matplotlib-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/matplotlib-users
