On Tue, 2007-08-07 at 11:30 +0200, [EMAIL PROTECTED]
wrote:
>
> hi Syed,
>
> >I am willing to offer my best, but its good to ask ensembl help desk
> and
> >web team as well. They have carried out the integration and they know
> >their system quite well.
>
> Yes, thanks for trying.
>
> >try using the following debug statements, might help [...]
>
> They show the correct paths.
>
> >also edit the file log4perl.conf under conf, and set the
> >log4perl.threshold = FATAL
> >to
> >log4perl.threshold = WARN
> >once done, kill and restart the server. your error_log should now
> have
> >detailed logging. and the print statement above should print the
> paths
> >to browser. hopefully this would help.
>
> I applied this but I only get these warnings:
> BioMart.Web:416:WARN> Creating new session and rewriting URL to
> http://byzvse:1235/biomart/martview/417a0ffccd1eca18e188d3a0d51a7f51,
> then redirecting
> BioMart.Web:423:WARN> Restoring existing session
> 417a0ffccd1eca18e188d3a0d51a7f51
thats better. Now as it retrieves the session correctly I guess.
some more debugging, hope its ok..
in the same Web.pm,
find the following line:
$self->process_template( "main.tt", {
and just above this line, paste the follwoing print statement
print "<br/>Processing -1";
also find the following line:
# complete HTML page as in 0.5
and just above this line, paste the following line:
print "<br/>Processing -2";
Kill/restart your server and let me know what appears in the browser
when you navigate to YOURSERVER:PORT/biomart/martview
could also send me the response of the follwoing
YOURSERVER:PORT/biomart/martservice?type=registry
cheers
syed
>
> Do you have any more suggestions?
>
> Thanks and Best Regards,
>
> Felix Natter
> _________________________________________
>
> Bayer HealthCare AG
> BHC-PK
> Elberfeld, 0500
> Phone:
> Fax:
> E-mail: [EMAIL PROTECTED]
> Web: http://www.bayerhealthcare.com
>
> Vorstand: Arthur Higgins, Vorsitzender | Werner Baumann, Hartmut
> Klusik, Lykele van der Broek, Gunnar Riemann
> Vorsitzender des Aufsichtsrats: Richard Pott
> Sitz der Gesellschaft: Leverkusen | Eintragung: Amtsgericht Köln,
> HRB 49894
>
>
> ================================
> Die vorangehende e-mail inkl. jeglicher Anhänge beinhaltet
> Informationen, die vertraulich oder nicht für die Öffentlichkeit
> bestimmt sein könnten. Sie ist nur für den/die designierten Empfänger
> bestimmt. Sollten Sie nicht der designierte Empfänger sein,
> informieren Sie bitte den Absender und löschen Sie die Nachricht aus
> Ihrem System. Gebrauch, Verbreitung, Verteilung oder Reproduktion
> dieser Nachricht sind untersagt und können rechtswidrig sein.
>
>
> ================================
> The preceding e-mail message (including any attachments) contains
> information that may be confidential, or constitute non-public
> information. It is intended to be conveyed only to the designated
> recipient(s). If you are not an intended recipient of this message,
> please notify the sender by replying to this message and then delete
> it from your system. Use, dissemination, distribution, or
> reproduction of this message by unintended recipients is not
> authorized and may be unlawful.
>
>
>
> Syed Haider <[EMAIL PROTECTED]>
> Gesendet von:
> [EMAIL PROTECTED]
>
> 07.08.2007 10:53
>
>
> An
> [EMAIL PROTECTED]
> Kopie
> Arek Kasprzyk
> <[EMAIL PROTECTED]>,
> [email protected], [EMAIL PROTECTED]
> Thema
> Re: Antwort: Re:
> Antwort: Re:
> [mart-dev]
> Problems with
> biomart 0.6
> as part
> ofensembl
>
>
>
>
>
>
>
>
> On Tue, 2007-08-07 at 10:09 +0200, [EMAIL PROTECTED]
> wrote:
> >
> > hi Syed,
> >
> > the output of ls -lh biomart-perl/conf/templates/cached/ is:
> > total 636K
> > -rw-r--r-- 1 ensembl users 56K Aug 6 17:01
> > attributepanel_default.msd.tt
> > -rw------- 1 ensembl users 149K Aug 6 17:01
> > attributepanel_default.msd.ttc
> > -rw-r--r-- 1 ensembl users 40K Aug 6 17:01
> > attributepanel_default.uniprot.tt
> > -rw------- 1 ensembl users 102K Aug 6 17:01
> > attributepanel_default.uniprot.ttc
> > -rw-r--r-- 1 ensembl users 36K Aug 6 17:01
> > filterpanel_default.msd.tt
> > -rw------- 1 ensembl users 70K Aug 6 17:01
> > filterpanel_default.msd.ttc
> > -rw-r--r-- 1 ensembl users 56K Aug 6 17:01
> > filterpanel_default.uniprot.tt
> > -rw------- 1 ensembl users 95K Aug 6 17:01
> > filterpanel_default.uniprot.ttc
> > Maybe ensembl-related entries are missing?
> >
>
> This looks fine, as your templates are being compiled correctly.
>
> > > From your installation process what I can remotely guess is some
> > paths
> > > not being correctly mapped to the directory containing templates
> of
> > your
> > > datasets.
> > in /lib/BioMart/Web.pm I see this:
> > $tt_processor = Template->new({ INCLUDE_PATH => [
> > $self->get_cached_tt_dir,
> >
> > $self->get_custom_tt_dir,
> >
> > $self->get_default_tt_dir ],
> > DEFAULT =>
> > 'notfound.tt',
> > RELATIVE => 1,
> >
> > and $self->get_*_tt_dir seems to be correct too
> (conf/templates/...).
> >
> > > and see if all your directories have permissions assigned to
> > apache.
> >
> > This is the case.
> >
> > > In addition, the problem seems to be an ENSEMBL integration
> problem
> > and
> > > you need to contact 'ensembl help desk' to get the best help on
> the
> > > matter.
> >
> > I already wrote the helpdesk about this. They say they cannot help
> me
> > unless I set up biomart standalone.
> > (which I've done now, but the error does not appear there).
> >
> > Maybe you can help me in finding the problem because you know
> > something about the biomart source-code?
>
> I am willing to offer my best, but its good to ask ensembl help desk
> and
> web team as well. They have carried out the integration and they know
> their system quite well.
>
> >
> > Can you say something about these warnings:
> > Use of uninitialized value in concatenation (.) or string
> > at /u1/ET/ensembl/ensembl/biomart-perl/lib/BioMart/Web.pm line
> 1787.
> > Use of uninitialized value in split
> > at /u1/ET/ensembl/ensembl/biomart-perl/lib/BioMart/Web.pm line
> 1788.
> > ?
> > this is line 1787 in my Web.pm:
> > $logger->debug("Got outputformats ".$atttree." for attpage
> > $attributepage, in dataset $dataset_name");
>
> The above warnings are normal, so dont worry about these :)
>
> > I get this error: ERROR: requested template missing. Is there a way
> to
> > find out which template is missing?
>
> try using the following debug statements, might help
>
> biomart/lib/Biomart/Web.pm:
>
> find the following line:
>
> # NOTE TO SELF: check if dirs exist & can be used
>
> and add this afterwards.
>
> print "<br/>", $self->get_cached_tt_dir," --- ",
> $self->get_custom_tt_dir, " --- ",$self->get_default_tt_dir, " --- ";
>
>
> also edit the file log4perl.conf under conf, and set the
> log4perl.threshold = FATAL
> to
> log4perl.threshold = WARN
>
> once done, kill and restart the server. your error_log should now have
> detailed logging. and the print statement above should print the paths
> to browser. hopefully this would help.
>
>
> All the best.
> syed
>
>
>
> > Thanks and Best Regards,
> >
> > Felix Natter
> > _________________________________________
> >
> > Bayer HealthCare AG
> > BHC-PK
> > Elberfeld, 0500
> > Phone:
> > Fax:
> > E-mail: [EMAIL PROTECTED]
> > Web: http://www.bayerhealthcare.com
> >
> > Vorstand: Arthur Higgins, Vorsitzender | Werner Baumann, Hartmut
> > Klusik, Lykele van der Broek, Gunnar Riemann
> > Vorsitzender des Aufsichtsrats: Richard Pott
> > Sitz der Gesellschaft: Leverkusen | Eintragung: Amtsgericht
> Köln,
> > HRB 49894
> >
> >
> > ================================
> > Die vorangehende e-mail inkl. jeglicher Anhänge beinhaltet
> > Informationen, die vertraulich oder nicht für die Öffentlichkeit
> > bestimmt sein könnten. Sie ist nur für den/die designierten
> Empfänger
> > bestimmt. Sollten Sie nicht der designierte Empfänger sein,
> > informieren Sie bitte den Absender und löschen Sie die Nachricht aus
> > Ihrem System. Gebrauch, Verbreitung, Verteilung oder Reproduktion
> > dieser Nachricht sind untersagt und können rechtswidrig sein.
>
> >
> >
> > ================================
> > The preceding e-mail message (including any attachments) contains
> > information that may be confidential, or constitute non-public
> > information. It is intended to be conveyed only to the designated
> > recipient(s). If you are not an intended recipient of this message,
> > please notify the sender by replying to this message and then delete
> > it from your system. Use, dissemination, distribution, or
> > reproduction of this message by unintended recipients is not
> > authorized and may be unlawful.
> >
> >
> >
> > Syed Haider <[EMAIL PROTECTED]>
> >
> > 06.08.2007 19:20
> >
> >
> > An
> > [EMAIL PROTECTED]
> > Kopie
> > [email protected], [EMAIL PROTECTED], Arek Kasprzyk
> <[EMAIL PROTECTED]>
> > Thema
> > Re: Antwort: Re:
> > [mart-dev]
> > Problems with
> > biomart 0.6 as
> > part
> > ofensembl
> >
> >
> >
> >
> >
> >
> >
> >
> > Hi Felix
> > nice to know that your biomart independent installation works fine.
> > What
> > >From your installation process what I can remotely guess is some
> > paths
> > not being correctly mapped to the directory containing templates of
> > your
> > datasets.
> >
> > please check whats in the following directory:
> >
> > ls -lh biomart-perl/conf/templates/cached/
> >
> > and see if all your directories have permissions assigned to apache.
> > In addition, the problem seems to be an ENSEMBL integration problem
> > and
> > you need to contact 'ensembl help desk' to get the best help on the
> > matter.
> >
> > Kind Regards
> > Syed
> >
> >
> > On Mon, 2007-08-06 at 18:43 +0200, [EMAIL PROTECTED]
> > wrote:
> > >
> > > hello Syed,
> > >
> > > I just installed biomart 0.6 standalone and it is working. But
> > > unfortunately I still get "ERROR: requested template missing"
> when
> > > running biomart in ensembl.
> > >
> > > here is the output of configure.pl:
> > > [EMAIL PROTECTED]:/u1/ET/ensembl/ensembl/biomart-perl> perl
> > > bin/configure.pl -r
> > > conf/registryURLPointer.xml --clean
> > >
> > > Do you want to install in API only mode [y/n] [n]:
> > >
> > > Checking prerequisites ...[Looks good]
> > >
> > > APACHE: /u1/ET/ensembl/ensembl/apache2/bin/httpd
> > > HOST: localhost
> > > PORT: 9002
> > > Use of uninitialized value in print at
> > >
> >
> > /u1/ET/ensembl/branch-ensembl-45/biomart-perl/bin/configureBioMart.pl
> > > line 116.
> > > PROXY:
> > > LOCATION: biomart
> > >
> > > You can change the above configuration by editing
> > > "biomart-perl/conf/settings.conf"
> > >
> > >
> > >
> > > Got usable Apache in /u1/ET/ensembl/ensembl/apache2/bin/httpd,
> > probing
> > > for version &
> > >
> > > ModPerl configuration
> > > Have Apache DSO-support and ModPerl library file present,
> > configuring
> > > ModPerl in
> > >
> > > httpd.conf.
> > > Have auxiliary Perl libdirs in $PERL5LIB, adding to @INC
> > > Libdir /u1/ET/ensembl/branch-ensembl-45/biomart-perl/lib is not in
> > > @INC, adding to
> > >
> > > @INC
> > >
> > > Connection parameters of [UNIPROT PROTOTYPE (EBI)] [ OK ]
> > > Connection parameters of [MSD PROTOTYPE (EBI)] [ OK ]
> > >
> > >
> > >
> > >
> > > [NEW CONFIGURATION] .... WITH MEMORY [default]
> > > default ... UNIPROT PROTOTYPE (EBI) .. 001/006 ...
> uniprot_location
> > >
> > > .......................... (WEB) www.biomart.org:80 ............
> ->
> > > upgrading to
> > >
> > > 0.6 ... OK
> > > default ... UNIPROT PROTOTYPE (EBI) .. 002/006 ...
> uniprot_sequence
> > >
> > > .......................... (WEB) www.biomart.org:80 ............
> ->
> > > upgrading to
> > >
> > > 0.6 ... OK
> > > default ... UNIPROT PROTOTYPE (EBI) .. 003/006 ...
> > > uniprot_cell_component
> > >
> > > .................... (WEB) www.biomart.org:80 ............ ->
> > > upgrading to 0.6 ...
> > >
> > > OK
> > > default ... UNIPROT PROTOTYPE (EBI) .. 004/006 ...
> > > uniprot_biol_process
> > >
> > > ...................... (WEB) www.biomart.org:80 ............ ->
> > > upgrading to 0.6
> > >
> > > ... OK
> > > default ... UNIPROT PROTOTYPE (EBI) .. 005/006 ... uniprot
> > >
> > > ................................... (WEB)
> > > www.biomart.org:80 ............ ->
> > >
> > > upgrading to 0.6 ... OK
> > > default ... UNIPROT PROTOTYPE (EBI) .. 006/006 ...
> > > uniprot_mol_function
> > >
> > > ...................... (WEB) www.biomart.org:80 ............ ->
> > > upgrading to 0.6
> > >
> > > ... OK
> > > default ... MSD PROTOTYPE (EBI) ...... 001/001 ... msd
> > >
> > > ....................................... (WEB)
> > > www.biomart.org:80 ............ ->
> > >
> > > upgrading to 0.6 ... OK
> > > Setting possible links between datasets
> > > ....(scanning) 100%
> > > ....(linking) 100%
> > > ....(sorting) 100%
> > > ....(clustering) 7/7
> > > ....(resolving) 100%
> > > Building templates for visible datasets
> > > .... 100%
> > > Compiling templates for visible datasets
> > > [1/2] Attribute Panel of Dataset.. :uniprot
> > > [1/2] Filter Panel of Dataset..... :uniprot
> > > [2/2] Attribute Panel of Dataset.. :msd
> > > [2/2] Filter Panel of Dataset..... :msd
> > >
> > > ========================================
> > > this is the content of conf/settings.conf:
> > > #########################################################
> > > ################ httpd.conf settings ####################
> > >
> > > [httpdSettings]
> > > #apacheBinary=/usr/sbin/httpd
> > > apacheBinary=/u1/ET/ensembl/ensembl/apache2/bin/httpd
> > > #serverHost=test.biomart.org
> > > serverHost=localhost
> > > port=9002
> > > #port=3128
> > > # to use proxying set the proxy port below (even if its 80) and
> set
> > > serverHost as
> > >
> > > your proxy host
> > > #proxy=3128
> > > location=biomart
> > >
> > >
> > > # Colours settings for MARTVIEW
> > > # A good online tool help with picking a palette is;
> > > # http://slayeroffice.com/tools/color_palette/
> > > [cssSettings]
> > >
> > > # The default theme, based on a 6-level grey scale from black to
> > > white.
> > > colour_saturation0=black
> > > colour_saturation20=black
> > > colour_saturation40=#666666
> > > colour_saturation60=#CCCCCC
> > > colour_saturation80=#E5E5E5
> > > colour_saturation100=white
> > >
> > > # The blue theme used for WormMart
> > > #colour_saturation0=black
> > > #colour_saturation20=#5870A3
> > > #colour_saturation40=#8294BA
> > > #colour_saturation60=#D5DBE8
> > > #colour_saturation80=#EFF1F6
> > > #colour_saturation100=white
> > >
> > > font_colour_top_bottom_menubar = #000
> > > font_colour_rest = #000
> > > summary_panel_bgcolour = #ffffdd
> > > main_panel_bgcolour = #fff
> > > top_bottom_menubar_bgcolour = #efefef
> > > blocks_outline_colour = #efefef
> > > summary_panel_highlight_border_colour = #ffd9af
> > > summary_panel_highlight_bgcolour = #ffd9af
> > >
> > >
> > > # These settings relate to the text displayed in the interface
> drop
> > > downs
> > >
> > > [aliases]
> > > Schema=- CHOOSE SCHEMA -
> > > Database=- CHOOSE DATABASE -
> > > Dataset=- CHOOSE DATASET -
> > >
> > >
> > > # If an attribute URL is specified relatively such as
> '/geneview/?=%
> > > s'
> > > # then by default this will be used relative to the current host
> > > # However if you set exturl below then this will be prefixed
> > > # to these URLs
> > >
> > > [urlPrefixes]
> > > exturl=http://byzvse:1235
> > >
> > >
> > > # These settings are used to control how the background
> > > # results jobs are managed.
> > > #
> > > # Set resultsDirCount to the number of results directories
> > > # you want to use. Then, use resultsDir1, resultsDir2 etc.
> > > # to assign names for these directories, up to resultsDirN
> > > # where N is the value of resultsDirCount. Background jobs
> > > # will be assigned to each of these resultsDir locations
> > > # by a hash function which is intended to distribute them
> > > # evenly.
> > > #
> > > # Use resultsDir to specify where
> > > # files containing results from background jobs are stored.
> > > # This folder must (a) exist and (b) be writable by the
> > > # owner of the web server process.
> > > #
> > > # The enable setting should have a value of 'yes'
> > > # if you want background jobs to be available to the user.
> > > # Any other value, including non-lowercase versions of 'yes'
> > > # will turn background jobs off.
> > >
> > > [background]
> > > resultsDirCount=1
> > > #resultsDir1=/ebi/www/biomart/test/files
> > > resultsDir1=/u1/ET/ensembl/ensembl/biomart-results
> > > enable=yes
> > >
> > > # Mail settings are used for informing users when their
> > > # background tasks are finished. The mailerType defines
> > > # the way in which mail is sent, as understood by
> > > # Mail::Mailer. For details of how to control this, see:
> > > #
> > > # http://search.cpan.org/dist/MailTools/Mail/Mailer.pm
> > > #
> > > # The from address is the address that messages will
> > > # appear to be from.
> > >
> > > [mailSettings]
> > > mailerType=sendmail
> > > subject=Your BioMart results are ready
> > > [EMAIL PROTECTED]
> > >
> > > # These settings relate to sessions.
> > > #
> > > # The expire setting relates to how long sessions will live
> > > # on disk for. If not accessed for a period of time longer than
> > > # this, then the session will be dropped. Aliases are:
> > > #
> > > # +-----------+---------------+
> > > # | alias | meaning |
> > > # +-----------+---------------+
> > > # | s | Second |
> > > # | m | Minute |
> > > # | h | Hour |
> > > # | d | Day |
> > > # | w | Week |
> > > # | M | Month |
> > > # | y | Year |
> > > # +-----------+---------------+
> > > #
> > > # Driver could have values based on where you want the session to
> > be
> > > # stored. default or no value assigned is set to Berkeley DB
> > > implementation.
> > > # All possible values could be:
> > > # driver=
> > > # driver=default
> > > # driver=files
> > > # driver=mysql
> > > # driver=oracle
> > > # a database table must already exist with any name but with
> strict
> > > columnName/Types
> > > # EXAMPLES
> > > # ========== MySQL ============
> > > # first create the table as
> > > # CREATE TABLE sessions ( id CHAR(32) NOT NULL UNIQUE, a_session
> > > LONGTEXT NOT NULL )
> > >
> > > ;
> > > # then the following settings should follow under [sessions]
> > > # driver=mysql
> > > #
> dsn=DBI:mysql:database=YOU_DATABASE_NAME;host=127.0.0.1;port=3306
> > > # user=root
> > > # pass=
> > > # ========== ORACLE ============
> > > # first create the table as
> > > # CREATE TABLE sessions ( id CHAR(32) NOT NULL UNIQUE, a_session
> > CLOB
> > > NOT NULL ) ;
> > > # then the following settings should follow under [sessions]
> > > # driver=oracle
> > > # dsn=dbi:Oracle:host=172.22.70.89;sid=XE;port=1521
> > > # user=root
> > > # pass=
> > >
> > >
> > > [sessions]
> > > expire=12h
> > > driver=default
> > >
> > > # Web Service Logging options
> > > [webserviceLogging]
> > > mode=ON
> > > log_query=ON
> > > log_IP=ON
> > >
> > > =====================================================
> > > biomart-perl/conf/error_log does not exist as I am using the
> ensembl
> > > web server.
> > > Here is the relevant part of the ensembl apache2 error log:
> > >
> > > [Mon Aug 06 18:31:52 2007] [notice] Apache/2.2.4 (Unix)
> > mod_perl/2.0.3
> > > Perl/v5.8.5 configured -- resuming normal operations
> > > INIT WEB MODULE...
> > >
> >
> at /u1/ET/ensembl/ensembl/public-plugins/mart/modules/BioMart/Web/PageStub.pm
> line 27.
> > > Use of uninitialized value in concatenation (.) or string
> > > at /u1/ET/ensembl/ensembl/biomart-perl/lib/BioMart/Web.pm line
> 1784
> > \
> > > .
> > > INIT WEB MODULE...
> > >
> >
> at /u1/ET/ensembl/ensembl/public-plugins/mart/modules/BioMart/Web/PageStub.pm
> line 27.
> > >
> > > These are the relevant lines in Web.pm:
> > > my $allAttributeTrees =
> > > $registry->getConfigTreeForDataset($dataset_name, $schema_nam\
> > > e, 'default')->getAllAttributeTrees();
> > > my $atttree =
> > > $allAttributeTrees->[0]; # first one is supposed to be the default
> > > one
> > > $logger->debug("Got
> > > outputformats ".$atttree." for attpage $attributepage, in dataset
> \
> > > $dataset_name");
> > >
> > > Thanks for your help and Best Regards,
> > >
> > > Felix Natter
> > > _________________________________________
> > >
> > > Bayer HealthCare AG
> > > BHC-PK
> > > Elberfeld, 0500
> > > Phone:
> > > Fax:
> > > E-mail: [EMAIL PROTECTED]
> > > Web: http://www.bayerhealthcare.com
> > >
> > > Vorstand: Arthur Higgins, Vorsitzender | Werner Baumann,
> Hartmut
> > > Klusik, Lykele van der Broek, Gunnar Riemann
> > > Vorsitzender des Aufsichtsrats: Richard Pott
> > > Sitz der Gesellschaft: Leverkusen | Eintragung: Amtsgericht
> > Köln,
> > > HRB 49894
> > >
> > >
> > > ================================
> > > Die vorangehende e-mail inkl. jeglicher Anhänge beinhaltet
> > > Informationen, die vertraulich oder nicht für die Öffentlichkeit
> > > bestimmt sein könnten. Sie ist nur für den/die designierten
> > Empfänger
> > > bestimmt. Sollten Sie nicht der designierte Empfänger sein,
> > > informieren Sie bitte den Absender und löschen Sie die Nachricht
> aus
> > > Ihrem System. Gebrauch, Verbreitung, Verteilung oder Reproduktion
> > > dieser Nachricht sind untersagt und können rechtswidrig sein.
> >
> > >
> > >
> > > ================================
> > > The preceding e-mail message (including any attachments) contains
> > > information that may be confidential, or constitute non-public
> > > information. It is intended to be conveyed only to the designated
> > > recipient(s). If you are not an intended recipient of this
> message,
> > > please notify the sender by replying to this message and then
> delete
> > > it from your system. Use, dissemination, distribution, or
> > > reproduction of this message by unintended recipients is not
> > > authorized and may be unlawful.
> > >
> > >
> > >
> > > Syed Haider <[EMAIL PROTECTED]>
> > > Gesendet von:
> > > [EMAIL PROTECTED]
> > >
> > > 03.08.2007 12:00
> > >
> > >
> > > An
> > > [EMAIL PROTECTED]
> > > Kopie
> > > [email protected]
> > > Thema
> > > Re: [mart-dev]
> > > Problems with
> > > biomart 0.6 as
> > > part ofensembl
> > >
> > >
> > >
> > >
> > >
> > >
> > >
> > >
> > > Hi Felix
> > >
> > > could you please forward me
> > >
> > > - the onscreen response once you execute
> > >
> > > perl bin/configure.pl -r conf/registryURLPointer.xml --clean
> > >
> > > - your biomart-perl/conf/settings.conf
> > >
> > > - conf/error_log
> > >
> > > and most important of all, have you tried installing biomart
> > > independently first and see if it works for you, then we can take
> a
> > > step
> > > forward to get this to work with Ensembl.
> > > for instructions about how to install biomart independently,
> follow
> > > DOCS
> > > tab on www.biomart.org
> > >
> > > for any further help, free to write back.
> > >
> > > kind regards
> > > syed
> > >
> > >
> > >
> > >
> > > On Fri, 2007-08-03 at 11:51 +0200,
> [EMAIL PROTECTED]
> > > wrote:
> > > > perl bin/configure.pl -r conf/registryURLPointer.xml
> > > --
> > > ======================================
> > > Syed Haider.
> > > EMBL-European Bioinformatics Institute
> > > Wellcome Trust Genome Campus, Hinxton,
> > > Cambridge CB10 1SD, UK.
> > > ======================================
> > >
> > >
> > --
> > ======================================
> > Syed Haider.
> > EMBL-European Bioinformatics Institute
> > Wellcome Trust Genome Campus, Hinxton,
> > Cambridge CB10 1SD, UK.
> > ======================================
> >
> >
> --
> ======================================
> Syed Haider.
> EMBL-European Bioinformatics Institute
> Wellcome Trust Genome Campus, Hinxton,
> Cambridge CB10 1SD, UK.
> ======================================
>
>
--
======================================
Syed Haider.
EMBL-European Bioinformatics Institute
Wellcome Trust Genome Campus, Hinxton,
Cambridge CB10 1SD, UK.
======================================
