gusdev-gusdev

[Gusdev-gusdev] java compilation problems

[<fed...@bi...>]

Hi!
I'm new to linux and to Gus; I've got some problem whit the installation.
I modified build.xml and sample.prop as the protocol suggets but while
compiling GUS/Model component javac doesn't find BLATAlignement class. It
tells me:
Installing GUS/Model
     [copy] Copying 20 files to /opt/GUS/lib/perl/GUS/Model
    [javac] Compiling 3 source files to /opt/GUS/projects/GUS/Model/classes
    [javac]
/opt/GUS/projects/GUS/Model/src/java/org/gusdb/model/DoTS/BLATAlignment.java:26:
cannot resolve symbol
    [javac] symbol  : class BLATAlignment_Row
    [javac] location: class org.gusdb.model.DoTS.BLATAlignment
    [javac] public class BLATAlignment extends BLATAlignment_Row {


I got the same problems also whit other classes.

Can anyone help me?
Thank you very much, it's a long time I try to solve this problem!
Federica

Re: [Gusdev-gusdev] java compilation problems

[Dave B. <db...@pc...>]

Hey Federica,

Can you do two things for me to help me discover the source of your 
problem:

% cd /opt/GUS/projects/GUS/Model/src/java/org/gusdb/model/DoTS

and let me know what is in that directory.

Also, in the database itself, run this query:

'select count(*) from core.tableinfo where name = 'BLATAlignment'

and let me know if it returns 0 or 1.

Other GUS folks;  I think the problem is that Federica's TableInfo is not 
populated, as the only objects that are getting compiled are the 
hand-edited objects.  The rest all depend on having entries in TableInfo, 
and I don't think that is the case.  I am not that familiar with the GUS 
installation process; does TableInfo come prepopulated, or is there a step 
one has to do in order to get it there?

Dave

On Fri, 5 Nov 2004 fed...@bi... wrote:

> Hi!
> I'm new to linux and to Gus; I've got some problem whit the installation.
> I modified build.xml and sample.prop as the protocol suggets but while
> compiling GUS/Model component javac doesn't find BLATAlignement class. It
> tells me:
> Installing GUS/Model
>     [copy] Copying 20 files to /opt/GUS/lib/perl/GUS/Model
>    [javac] Compiling 3 source files to /opt/GUS/projects/GUS/Model/classes
>    [javac]
> /opt/GUS/projects/GUS/Model/src/java/org/gusdb/model/DoTS/BLATAlignment.java:26:
> cannot resolve symbol
>    [javac] symbol  : class BLATAlignment_Row
>    [javac] location: class org.gusdb.model.DoTS.BLATAlignment
>    [javac] public class BLATAlignment extends BLATAlignment_Row {
>
>
> I got the same problems also whit other classes.
>
> Can anyone help me?
> Thank you very much, it's a long time I try to solve this problem!
> Federica
>
>
>
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>

Re: [Gusdev-gusdev] java compilation problems

[Michael S. <msa...@pc...>]

core.tableinfo should be populated at the same time the database is 
created-- The rows are in 
$GUS_HOME/schema/oracle/core-TableInfo-rows.sql and this is called from 
the $GUS_HOME/schema/oracle/create-db.sh script.  Best I know, this 
script must be called manually, but that's likely already been done if 
any GUS table already exists.

--Mike


Dave Barkan wrote:
> Hey Federica,
> 
> Can you do two things for me to help me discover the source of your 
> problem:
> 
> % cd /opt/GUS/projects/GUS/Model/src/java/org/gusdb/model/DoTS
> 
> and let me know what is in that directory.
> 
> Also, in the database itself, run this query:
> 
> 'select count(*) from core.tableinfo where name = 'BLATAlignment'
> 
> and let me know if it returns 0 or 1.
> 
> Other GUS folks;  I think the problem is that Federica's TableInfo is 
> not populated, as the only objects that are getting compiled are the 
> hand-edited objects.  The rest all depend on having entries in 
> TableInfo, and I don't think that is the case.  I am not that familiar 
> with the GUS installation process; does TableInfo come prepopulated, or 
> is there a step one has to do in order to get it there?
> 
> Dave
> 
> On Fri, 5 Nov 2004 fed...@bi... wrote:
> 
>> Hi!
>> I'm new to linux and to Gus; I've got some problem whit the installation.
>> I modified build.xml and sample.prop as the protocol suggets but while
>> compiling GUS/Model component javac doesn't find BLATAlignement class. It
>> tells me:
>> Installing GUS/Model
>>     [copy] Copying 20 files to /opt/GUS/lib/perl/GUS/Model
>>    [javac] Compiling 3 source files to 
>> /opt/GUS/projects/GUS/Model/classes
>>    [javac]
>> /opt/GUS/projects/GUS/Model/src/java/org/gusdb/model/DoTS/BLATAlignment.java:26: 
>>
>> cannot resolve symbol
>>    [javac] symbol  : class BLATAlignment_Row
>>    [javac] location: class org.gusdb.model.DoTS.BLATAlignment
>>    [javac] public class BLATAlignment extends BLATAlignment_Row {
>>
>>
>> I got the same problems also whit other classes.
>>
>> Can anyone help me?
>> Thank you very much, it's a long time I try to solve this problem!
>> Federica
>>
>>
>>
>> -------------------------------------------------------
>> This SF.Net email is sponsored by:
>> Sybase ASE Linux Express Edition - download now for FREE
>> LinuxWorld Reader's Choice Award Winner for best database on Linux.
>> http://ads.osdn.com/?ad_id=5588&alloc_id=12065&op=click
>> _______________________________________________
>> Gusdev-gusdev mailing list
>> Gus...@li...
>> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
>>
> 
> 
> -------------------------------------------------------
> This SF.Net email is sponsored by:
> Sybase ASE Linux Express Edition - download now for FREE
> LinuxWorld Reader's Choice Award Winner for best database on Linux.
> http://ads.osdn.com/?ad_id=5588&alloc_id=12065&op=click
> _______________________________________________
> Gusdev-gusdev mailing list
> Gus...@li...
> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev

Re: [Gusdev-gusdev] java compilation problems

[Dave B. <db...@pc...>]

Hey Federica,

This sounds a lot like the problem you mentioned last week.  Here was my 
suggestion to handle the java compile problem; let me know if you've tried 
either of these and what the result was. (scroll down for that email).

From your latest email, it also seems as though you are having problems 
connecting to the database 
after installation.  If you have a database administrator on your end, you 
might want to ask them if they can help.  I'm not too familiar with 
solving database connection problems, so unless someone else on the gusdev 
list has any insight, your DBA would be the best option.

Good luck,
Dave

On Fri, 5 Nov 2004, Dave Barkan wrote:

> Hey Federica,
>
> Can you do two things for me to help me discover the source of your problem:
>
> % cd /opt/GUS/projects/GUS/Model/src/java/org/gusdb/model/DoTS
>
> and let me know what is in that directory.
>
> Also, in the database itself, run this query:
>
> 'select count(*) from core.tableinfo where name = 'BLATAlignment'
>
> and let me know if it returns 0 or 1.
>
> Other GUS folks;  I think the problem is that Federica's TableInfo is not 
> populated, as the only objects that are getting compiled are the hand-edited 
> objects.  The rest all depend on having entries in TableInfo, and I don't 
> think that is the case.  I am not that familiar with the GUS installation 
> process; does TableInfo come prepopulated, or is there a step one has to do 
> in order to get it there?
>
> Dave
>
> On Fri, 5 Nov 2004 fed...@bi... wrote:
>
>> Hi!
>> I'm new to linux and to Gus; I've got some problem whit the installation.
>> I modified build.xml and sample.prop as the protocol suggets but while
>> compiling GUS/Model component javac doesn't find BLATAlignement class. It
>> tells me:
>> Installing GUS/Model
>>     [copy] Copying 20 files to /opt/GUS/lib/perl/GUS/Model
>>    [javac] Compiling 3 source files to /opt/GUS/projects/GUS/Model/classes
>>    [javac]
>> /opt/GUS/projects/GUS/Model/src/java/org/gusdb/model/DoTS/BLATAlignment.java:26:
>> cannot resolve symbol
>>    [javac] symbol  : class BLATAlignment_Row
>>    [javac] location: class org.gusdb.model.DoTS.BLATAlignment
>>    [javac] public class BLATAlignment extends BLATAlignment_Row {
>> 
>> 
>> I got the same problems also whit other classes.
>> 
>> Can anyone help me?
>> Thank you very much, it's a long time I try to solve this problem!
>> Federica
>> 
>> 
>> 
>> -------------------------------------------------------
>> This SF.Net email is sponsored by:
>> Sybase ASE Linux Express Edition - download now for FREE
>> LinuxWorld Reader's Choice Award Winner for best database on Linux.
>> http://ads.osdn.com/?ad_id=5588&alloc_id=12065&op=click
>> _______________________________________________
>> Gusdev-gusdev mailing list
>> Gus...@li...
>> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
>> 
>

[Gusdev-gusdev] PostgreSQL version

[Jeetendra S. <so...@vb...>]

Hello all,

      Our group is eagerly waiting on the PostgreSQL version of GUS. I
would greatly appreciate if someone could comment on when it is
expected to be released.
       This would help us plan our research.

Thanks a lot,
Jeetendra.

Re: [Gusdev-gusdev] PostgreSQL version

[Michael S. <msa...@pc...>]

Hello Jeetendra,

The PostgreSQL version of GUS is my responsibility, and it's release is 
part of the recent GUS Administrative Toolkit which is under development 
(see the GUSDBA mailing list for more).  The short answer to your 
question is that I hope to release beta SQL scripts for PostgreSQL 
before Thanksgiving, and an official release by the end of the year (and 
I expect little to change in the actual SQL scripts between these 
releases-- the primary differences will be tool that generates the scripts).

As you plan to use PostgreSQL, please remember that there's a large code 
base that will have been built against Oracle, and while we've done 
preliminary evaluations, some amount of issues are expected and extra 
time planned should be scheduled to address them.

Thanks,

--Mike

Jeetendra Soneja wrote:
> Hello all,
> 
>       Our group is eagerly waiting on the PostgreSQL version of GUS. I
> would greatly appreciate if someone could comment on when it is
> expected to be released.
>        This would help us plan our research.
> 
> Thanks a lot,
> Jeetendra.
> 
> 
> -------------------------------------------------------
> This SF.Net email is sponsored by:
> Sybase ASE Linux Express Edition - download now for FREE
> LinuxWorld Reader's Choice Award Winner for best database on Linux.
> http://ads.osdn.com/?ad_id=5588&alloc_id=12065&op=click
> _______________________________________________
> Gusdev-gusdev mailing list
> Gus...@li...
> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev