*Hi,* * * *Thanks to both of you for your quick responses. Ubuntu (lucid) does not have libxml2-dev installed by default, but it was a simple matter of searching for it in the Ubuntu Software Center and installing. The pathfinder configure script overcame the previous error and produced the following:* ... ... checking for xml2-config.32... no checking for xml2-32-config... no checking for xml2-config... /usr/bin/xml2-config checking for libxml/parser.h... yes checking for xmlParseDocument in -lxml2... yes checking libxml/SAX2.h usability... yes checking libxml/SAX2.h presence... yes checking for libxml/SAX2.h... yes configure: The following compiler options will be used to integrate the libxml2 XML parsing library: To find the libxml2 include files: -I/usr/include/libxml2 To find the libxml2 library: -lxml2 SAX2 support: HAVE_SAX2=1 checking for dlopen in -ldl... (cached) yes checking for pthread_create in -lpthread... yes checking gc.h usability... no checking gc.h presence... no checking for gc.h... no configure: WARNING: Unable to find the Hans Boehm garbage collector. Please go get it from http://www.hpl.hp.com/personal/Hans_Boehm/gc/ (Compilation will use memory allocation only strategy instead.) checking time.h usability... yes checking time.h presence... yes ... ... ... config.status: creating src/sqlhelpers/xmlshred/Makefile config.status: creating pf_config.h config.status: executing depfiles commands config.status: executing libtool commands *The script ended with a series of config.status outputs as indicated above, with no mention of success or failure (but I assumed this to mean that the script was successful). Unfortunately, running Mserver with the pathfinder module again still produced the error mentioned in my last email. * * * *I also tried installing using the pre-compiled binaries as you suggested, and I followed the steps successfully, creating the URL file, installing the public key, running update, none of which produced any errors. However, the following did: * *sudo apt-get install monetdb-xquery monetdb-client* Reading package lists... Done Building dependency tree Reading state information... Done E: Couldn't find package monetdb-xquery *I then tried the following:* *sudo apt-get install -y $(sed -n '/Build-Depends: */{s///;s/*([^)]*)//g;s/, */ /g;p;}' */debian/control | tr -s ' ' '\012' | sort -u | grep -v monetdb)* sed: can't read */debian/control: No such file or directory Reading package lists... Done Building dependency tree Reading state information... Done 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. *Incidentally, the reason I want to use MonetDB is for an undergraduate XML data mining project in collaboration with the Interoperable Systems Group in DCU, Dublin. * Regards, -Rob On Tue, Nov 30, 2010 at 8:46 AM, Sjoerd Mullender wrote:

To make sure that you have installed all packages that you need for building MonetDB, do this in the top-level directory of MonetDB (all on one line):

sudo apt-get install -y $(sed -n '/Build-Depends: */{s///;s/ *([^)]*)//g;s/, */ /g;p;}' */debian/control | tr -s ' ' '\012' | sort -u | grep -v monetdb)

What this does is install all packages that are mentioned as Build-Depends in the Debian (and Ubuntu) configuration files.

Leave out the -y if you want interaction (i.e. apt-get asking you whether you want to install those packages).

...

Hi Rob,

I'm everything but a Ubuntu expert, but on other Linux flavors like Fedora and Debian, to use libxml2 for development, in addition to a libxml2 package, also a libxml2-dev or libxml2-devel package needs to be installed that among others provides the xml2-config script and the header files

...

configure is looking for.

Hence, could you please check, whether such libxml2-dev(el) package also exists for Ubuntu, and if so, whether it is installed on your machine?

Alternatively, you could consider installing the prebuilt binary packages as available from http://dev.monetdb.org/downloads/deb/ instead of compiling MonetDB yourself.

Stefan

On Mon, Nov 29, 2010 at 11:54:04PM +0000, Rob Fynes wrote:

...

Hello,

Apologies if this is the improper place to be asking this. I'm a new user to MonetDB, and I'm having trouble installing MonetDB/XQuery on Ubuntu 10.04 32-bit. Actually, the installation did seem to succeed (running the auto install script from the super source tarball) and I can start MServer, but with the error:

# MonetDB Server v4.40.2 # based on GDK v1.40.2 # not released # Copyright (c) 1993-July 2008, CWI. All rights reserved. # Copyright (c) August 2008-2010, MonetDB B.V.. All rights reserved. # Compiled for i686-pc-linux-gnu/32bit with 32bit OIDs; dynamically

...

...

# Detected 3.919 GiB (4208013312 bytes) main-memory. # Visit http://monetdb.cwi.nl/ for further information. !ERROR: moduleClient: module(pathfinder) load error.

The problem, its seems anyway, is during the configuration of

...

...

... ... checking for signal.h... yes checking return type of signal handlers... (cached) void checking for strings.h... (cached) yes checking for strcasecmp... yes checking for xml2-config.32... no checking for xml2-32-config... no checking for xml2-config... no checking for libxml/parser.h... no configure: error: in `/home/rob/MonetDB': configure: error: The libxml2 XML parsing library and/or include files

were

...

not found or you have requested to not use it. This is required dependence, core components like the XML Schema import functionality depends on it. See `config.log' for more details.

I do have libxml2 installed (by default with Lucid). I've run the

On 2010-11-30 01:56, Stefan Manegold wrote: that linked. pathfinder: pathfinder

...

...

configure script a few times, with the option --with-libxml2=*some variations*, but I'm not really confident about what I'm doing. I was wondering if anyone could point me in the right direction. Thanks.

-Rob

...

---

...

...

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...

_______________________________________________ MonetDB-users mailing list MonetDB-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/monetdb-users

-- Sjoerd Mullender

------------------------------------------------------------------------------ Increase Visibility of Your 3D Game App & Earn a Chance To Win $500! Tap into the largest installed PC base & get more eyes on your game by optimizing for Intel(R) Graphics Technology. Get started today with the Intel(R) Software Partner Program. Five $500 cash prizes are up for grabs. http://p.sf.net/sfu/intelisp-dev2dev _______________________________________________ MonetDB-users mailing list MonetDB-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/monetdb-users

Finally! Everything seems to be working fine now. I didn't re-run the auto install script after installing libxml2-dev, I was just running the configure script for pathfinder, and attempting to "make" and "make install" manually (which wasn't working). But re-running the install script from the superball seems to have done the trick, so the problem was in fact just the missing libxml2-dev package. Thanks for the help, guys. If you want some more feedback on the process, let me know. -Rob On Wed, Dec 1, 2010 at 2:07 PM, Stefan Manegold wrote:

...

*Hi,* * * *Thanks to both of you for your quick responses. Ubuntu (lucid) does not have libxml2-dev installed by default, but it was a simple matter of searching for it in the Ubuntu Software Center and installing. The pathfinder configure script overcame the previous error and produced the following:*

... ... checking for xml2-config.32... no checking for xml2-32-config... no checking for xml2-config... /usr/bin/xml2-config checking for libxml/parser.h... yes checking for xmlParseDocument in -lxml2... yes checking libxml/SAX2.h usability... yes checking libxml/SAX2.h presence... yes checking for libxml/SAX2.h... yes configure: The following compiler options will be used to integrate the libxml2 XML parsing library: To find the libxml2 include files: -I/usr/include/libxml2 To find the libxml2 library: -lxml2 SAX2 support: HAVE_SAX2=1 checking for dlopen in -ldl... (cached) yes checking for pthread_create in -lpthread... yes checking gc.h usability... no checking gc.h presence... no checking for gc.h... no configure: WARNING: Unable to find the Hans Boehm garbage collector. Please go get it from http://www.hpl.hp.com/personal/Hans_Boehm/gc/ (Compilation will use memory allocation only strategy instead.) checking time.h usability... yes checking time.h presence... yes ... ... ... config.status: creating src/sqlhelpers/xmlshred/Makefile config.status: creating pf_config.h config.status: executing depfiles commands config.status: executing libtool commands

*The script ended with a series of config.status outputs as indicated above, with no mention of success or failure (but I assumed this to mean that

...

script was successful). Unfortunately, running Mserver with the

On Tue, Nov 30, 2010 at 05:31:03PM +0000, Rob Fynes wrote: the pathfinder

...

module again still produced the error mentioned in my last email. *

After the above (indeed successful, as far as I can see) configure, did the `make` and `make install` for pathfinder work successfully, too?

Are MonetDB (Common), MonetDB4 (Mserver) and pathfinder installed in the same prefix?

Do all of the following files exist after a successful build (woth prefix <PREFIX>) of MonetDB incl. pathfinder (XQuery): <PREFIX>/lib64/MonetDB4/algebra.mil <PREFIX>/lib64/MonetDB4/lib/lib_algebra.so <PREFIX>/lib64/MonetDB4/pathfinder.mil <PREFIX>/lib64/MonetDB4/lib/lib_pathfinder.so ?

Not being a Ubuntu user (let alone expert) myself, I cannot comment on the remainder.

Stefan

...

* * *I also tried installing using the pre-compiled binaries as you suggested, and I followed the steps successfully, creating the URL file, installing the public key, running update, none of which produced any errors. However, the following did: *

*sudo apt-get install monetdb-xquery monetdb-client* Reading package lists... Done Building dependency tree Reading state information... Done E: Couldn't find package monetdb-xquery

*I then tried the following:*

*sudo apt-get install -y $(sed -n '/Build-Depends: */{s///;s/*([^)]*)//g;s/, */ /g;p;}' */debian/control | tr -s ' ' '\012' | sort -u | grep -v monetdb)* sed: can't read */debian/control: No such file or directory Reading package lists... Done Building dependency tree Reading state information... Done 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.

*Incidentally, the reason I want to use MonetDB is for an undergraduate XML data mining project in collaboration with the Interoperable Systems Group in DCU, Dublin. *

Regards, -Rob

On Tue, Nov 30, 2010 at 8:46 AM, Sjoerd Mullender wrote:

...

To make sure that you have installed all packages that you need for building MonetDB, do this in the top-level directory of MonetDB (all on one line):

sudo apt-get install -y $(sed -n '/Build-Depends: */{s///;s/ *([^)]*)//g;s/, */ /g;p;}' */debian/control | tr -s ' ' '\012' | sort -u | grep -v monetdb)

What this does is install all packages that are mentioned as Build-Depends in the Debian (and Ubuntu) configuration files.

Leave out the -y if you want interaction (i.e. apt-get asking you whether you want to install those packages).

...

Hi Rob,

I'm everything but a Ubuntu expert, but on other Linux flavors like Fedora and Debian, to use libxml2 for development, in addition to a libxml2 package, also a libxml2-dev or libxml2-devel package needs to be installed that among others provides the xml2-config script and the header files

...

configure is looking for.

Hence, could you please check, whether such libxml2-dev(el) package also exists for Ubuntu, and if so, whether it is installed on your machine?

Alternatively, you could consider installing the prebuilt binary

...

available from http://dev.monetdb.org/downloads/deb/ instead of compiling MonetDB yourself.

Stefan

On Mon, Nov 29, 2010 at 11:54:04PM +0000, Rob Fynes wrote:

...

Hello,

Apologies if this is the improper place to be asking this. I'm a new user to MonetDB, and I'm having trouble installing MonetDB/XQuery on Ubuntu 10.04 32-bit. Actually, the installation did seem to succeed (running the auto install script from the super source tarball) and I can start MServer, but with the error:

# MonetDB Server v4.40.2 # based on GDK v1.40.2 # not released # Copyright (c) 1993-July 2008, CWI. All rights reserved. # Copyright (c) August 2008-2010, MonetDB B.V.. All rights reserved. # Compiled for i686-pc-linux-gnu/32bit with 32bit OIDs; dynamically

...

...

# Detected 3.919 GiB (4208013312 bytes) main-memory. # Visit http://monetdb.cwi.nl/ for further information. !ERROR: moduleClient: module(pathfinder) load error.

The problem, its seems anyway, is during the configuration of

...

...

... ... checking for signal.h... yes checking return type of signal handlers... (cached) void checking for strings.h... (cached) yes checking for strcasecmp... yes checking for xml2-config.32... no checking for xml2-32-config... no checking for xml2-config... no checking for libxml/parser.h... no configure: error: in `/home/rob/MonetDB': configure: error: The libxml2 XML parsing library and/or include

files were

...

not found or you have requested to not use it. This is required dependence, core components like the XML Schema import functionality depends on it. See `config.log' for more details.

I do have libxml2 installed (by default with Lucid). I've run the

On 2010-11-30 01:56, Stefan Manegold wrote: that packages as linked. pathfinder: pathfinder

...

...

configure script a few times, with the option --with-libxml2=*some variations*, but I'm not really confident about what I'm doing. I was wondering if anyone could point me in the right direction. Thanks.

-Rob

...

---

...

...

...

...

Increase Visibility of Your 3D Game App & Earn a Chance To Win $500! Tap into the largest installed PC base & get more eyes on your game by optimizing for Intel(R) Graphics Technology. Get started today with the Intel(R) Software Partner Program. Five $500 cash prizes are up for grabs. http://p.sf.net/sfu/intelisp-dev2dev

...

_______________________________________________ MonetDB-users mailing list MonetDB-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/monetdb-users

-- Sjoerd Mullender

---

...

...

Increase Visibility of Your 3D Game App & Earn a Chance To Win $500! Tap into the largest installed PC base & get more eyes on your game by optimizing for Intel(R) Graphics Technology. Get started today with the Intel(R) Software Partner Program. Five $500 cash prizes are up for grabs. http://p.sf.net/sfu/intelisp-dev2dev _______________________________________________ MonetDB-users mailing list MonetDB-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/monetdb-users

...

------------------------------------------------------------------------------

...

Increase Visibility of Your 3D Game App & Earn a Chance To Win $500! Tap into the largest installed PC base & get more eyes on your game by optimizing for Intel(R) Graphics Technology. Get started today with the Intel(R) Software Partner Program. Five $500 cash prizes are up for grabs. http://p.sf.net/sfu/intelisp-dev2dev

...

_______________________________________________ MonetDB-users mailing list MonetDB-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/monetdb-users

-- | Stefan.Manegold @ CWI.nl | DB Architectures (INS1) | | http://CWI.nl/~manegold/ | Science Park 123 (L321) | | Tel.: +31 (0)20 592-4212 | 1098 XG Amsterdam (NL) |

------------------------------------------------------------------------------ Increase Visibility of Your 3D Game App & Earn a Chance To Win $500! Tap into the largest installed PC base & get more eyes on your game by optimizing for Intel(R) Graphics Technology. Get started today with the Intel(R) Software Partner Program. Five $500 cash prizes are up for grabs. http://p.sf.net/sfu/intelisp-dev2dev _______________________________________________ MonetDB-users mailing list MonetDB-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/monetdb-users