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From: <fab...@de...> - 2005-07-04 02:18:37
|
Hello all,
=20
We=92re trying to install the new GUS 3.5 release, and we=92re having a =
problem
when we have to run =93build GUS install -append -installDBSchema=94. =
After a
time running the building process stops whit many errors like this:
=20
[javac]/usr/local/GUS/GUS35/project_home/GUS/Model/src/java/org/gusdb/mod=
el/
Core/AlgorithmInvocation_Row.java:99: cannot resolve symbol
[javac]symbol : class notdefyet=20
[javac]location: class org.gusdb.model.Core.AlgorithmInvocation_Row
[javac]public notdefyet getModificationDate () { return
(notdefyet)get_Attribute("modification_date"); }
[javac] ^
=20
Despite these errors, the schema was generated in our postgres, but we =
don=92t
know if it=92s complete.
=20
We tried to build again using only the command =93build GUS install =
=96append=94
and we put the output in a file as you can see here:
=20
http://www.de9.ime.eb.br/~fabricio/out.txt
=20
Can you tell us why the notdefyet class isn=92t found?=20
=20
Thanks a lot,
=20
Fabr=EDcio.
=20
=20
=20
|
|
From: <sfi...@pc...> - 2005-07-01 21:25:07
|
Folks- I have had a number of discussions with people at CBIL about how to manage GUS version numbers and releases in the source code repository. I have posted a proposal for this on the wiki at http://www.gusdb.org/wiki/index.php/GusVersionBranch If you have a chance to take a look before the GUS conference, this might make a good topic for discussion. Steve |
|
From: Jian Lu <jl...@vb...> - 2005-06-28 21:42:47
|
I have modified gus_schema.xml for different tableapaces and commented
that line of Java code. The installation is successful.
Michael Saffitz wrote:
>You'll also need to comment out line 95 in
>$PROJECT_HOME/GUS/Schema/src/java/org/gusdb/schema/InstallSchemaTask.java
>
>This is experimental and "not supported"
>
>Just out of curiosity, why do you want more than one tablespace?
>
>--Mike
>
>
>On 6/27/05 3:38 PM, "Jian Lu" <jl...@vb...> wrote:
>
>
>
>>Yes, that is only change I made. Before I had ant 1.6.4.
>>
>>So if I modify the gus_shema.xml for different tablespaces, the
>>installation will skip tablespace defined in gus.config. Is that right?
>>
>>
>>Michael Saffitz wrote:
>>
>>
>>
>>>Hi Jian,
>>>
>>>That's very strange-- I'm running with ant 1.6.2 here without issue. Just
>>>to confirm-- the only change you made was to move to ant 1.6.5?
>>>
>>>GUS 3.5 by default installs into a single tablespace (as defined in the
>>>gus.config file). If you want it to install into more than one, you'd need
>>>to update the gus_schema.xml to use the proper tablespaces for the relevant
>>>objects, and comment out the lines in the DBAdmin sources that do tablespace
>>>name translation.
>>>
>>>If having more than one tablespace is a feature you'd like, submit a feature
>>>request in the issue tracker.
>>>
>>>Also, since you had a failed install, you'll need to make sure that any
>>>objects that were created (i.e. Users) are deleted before trying again.
>>>
>>>I'll create an issue to make sure that the documentation is updated to
>>>include more details about configuring the tablespaces.
>>>
>>>--Mike
>>>
>>>On 6/27/05 3:17 PM, "Jian Lu" <jl...@vb...> wrote:
>>>
>>>
>>>
>>>
>>>
>>>>I ran installation again under apache-ant 1.6.5. It went through for
>>>>schema installation. I had the following error:
>>>>
>>>>[InstallSchema] INFO: Writing Database
>>>>
>>>>BUILD FAILED
>>>>/home/brcgusts/GUS/project_home/install/build.xml:28: The following
>>>>error occurred while executing this line:
>>>>/home/brcgusts/GUS/project_home/GUS/build.xml:92: java.io.IOException:
>>>>Error executing SQL: '
>>>>ALTER USER PROT QUOTA UNLIMITED ON GUS' Error: ORA-00959: tablespace
>>>>'GUS' does not exist
>>>>
>>>>It sounds like looking for tablespace called GUS which defined within
>>>>gus.config file:
>>>>
>>>># Username, group, and project info from the relevant Core tables
>>>>
>>>>userName=$ENV{USER}
>>>>group=dba
>>>>project=GUS
>>>>
>>>>tablespace=GUS
>>>>
>>>>My question: does GUS 3.5 uses only one tablespace called GUS? As I
>>>>know, GUS 3.0 has at least 12 tablespaces. Please clarify it. Thanks.
>>>>
>>>>
>>>>
>>>>-------------------------------------------------------
>>>>SF.Net email is sponsored by: Discover Easy Linux Migration Strategies
>>>>from IBM. Find simple to follow Roadmaps, straightforward articles,
>>>>informative Webcasts and more! Get everything you need to get up to
>>>>speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click
>>>>_______________________________________________
>>>>Gusdev-gusdev mailing list
>>>>Gus...@li...
>>>>https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
>>>>
>>>>
>>>>
>>>>
>>>
>>>
>>>
>>>
>
>
>
|
|
From: Ed R. <ero...@ug...> - 2005-06-28 15:02:11
|
Yes, but explicitly separating your tables spaces gives you much more flexibility in your management options. Everyone who is using GUS has a different server set-up, so you want to give their DBAs options. Separating your tablespaces is simple standard practice that should be maintained in the architecture. -ed ---- Original message ---- >Date: Tue, 28 Jun 2005 09:52:15 -0400 >From: Michael Saffitz <msa...@pc...> >Subject: Re: [GUSDEV] GUS 3.5 installation success >To: Haiming Wang <hw...@ug...> >Cc: Jian Lu <jl...@vb...>, Steve Fischer <sfi...@pc...>, Gusdev gusdev-gusdev <gus...@li...> > > > > >On 6/28/05 9:27 AM, "Haiming Wang" <hw...@ug...> wrote: > >> According to the Optimal Flexible Architecture (OFA) standard for Oracle >> , it would be a best practice for having separate indexes from the data. >> Create your primary key and all other indexes in a separate tablespace >> and put that on a separate disk and controller. > >A single tablespace can span multiple disks. I think the only advantages to >multiple tablespaces for GUS are: > >1) When dictated by varying storage demands, such as the example below > >2) Administrative ease. For example, we regularly migrate our data from >build to production. On production, we simply drop the "gusver" tablespace, >containing the version tables that we don't need available publicly. I >think there's a trade-off here, however. I'd much prefer to manage 1 >tablespace than the 10~12 tablespaces (as the default in 3.0). > >--Mike > >> >> Thanks for adding this support in the next GUS release. >> >> -Haiming >> >> On Tue, 2005-06-28 at 09:09, Michael Saffitz wrote: >> >>>> 1) 3.0 has separate tablespaces for each name space and its index. Do >>>> you want to keep those tablespaces or merge them into one? >>> >>> We anticipate that most installations of GUS really only need one >>> tablespace, since data storage parameters are likely to be the same for all >>> GUS tables. This being said, I could foresee someone wanting to run >>> standard tables in archivelog mode, and version tables in noarchivelog mode. >>> One of my to do items for the next release is to better support the multiple >>> tablespaces. >> >> >> >> ------------------------------------------------------- >> SF.Net email is sponsored by: Discover Easy Linux Migration Strategies >> from IBM. Find simple to follow Roadmaps, straightforward articles, >> informative Webcasts and more! Get everything you need to get up to >> speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click >> _______________________________________________ >> Gusdev-gusdev mailing list >> Gus...@li... >> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev > > > > >------------------------------------------------------- >SF.Net email is sponsored by: Discover Easy Linux Migration Strategies >from IBM. Find simple to follow Roadmaps, straightforward articles, >informative Webcasts and more! Get everything you need to get up to >speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click >_______________________________________________ >Gusdev-gusdev mailing list >Gus...@li... >https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev ----------------- Ed Robinson Center for Tropical and Emerging Global Diseases University of Georgia, Athens, GA 30602 ero...@ug.../(706)542.1447/254.8883 |
|
From: Haiming W. <hw...@ug...> - 2005-06-28 14:59:54
|
I agree with you. 10-12 tablespaces (as the default in 3.0) are hard to manage. Personally, I prefer to two tablespaces - one for data and one for index. -Haiming On Tue, 2005-06-28 at 09:52, Michael Saffitz wrote: > > On 6/28/05 9:27 AM, "Haiming Wang" <hw...@ug...> wrote: > > > According to the Optimal Flexible Architecture (OFA) standard for Oracle > > , it would be a best practice for having separate indexes from the data. > > Create your primary key and all other indexes in a separate tablespace > > and put that on a separate disk and controller. > > A single tablespace can span multiple disks. I think the only advantages to > multiple tablespaces for GUS are: > > 1) When dictated by varying storage demands, such as the example below > > 2) Administrative ease. For example, we regularly migrate our data from > build to production. On production, we simply drop the "gusver" tablespace, > containing the version tables that we don't need available publicly. I > think there's a trade-off here, however. I'd much prefer to manage 1 > tablespace than the 10~12 tablespaces (as the default in 3.0). > > --Mike > > > > > Thanks for adding this support in the next GUS release. > > > > -Haiming > > > > On Tue, 2005-06-28 at 09:09, Michael Saffitz wrote: > > > >>> 1) 3.0 has separate tablespaces for each name space and its index. Do > >>> you want to keep those tablespaces or merge them into one? > >> > >> We anticipate that most installations of GUS really only need one > >> tablespace, since data storage parameters are likely to be the same for all > >> GUS tables. This being said, I could foresee someone wanting to run > >> standard tables in archivelog mode, and version tables in noarchivelog mode. > >> One of my to do items for the next release is to better support the multiple > >> tablespaces. > > > > > > > > ------------------------------------------------------- > > SF.Net email is sponsored by: Discover Easy Linux Migration Strategies > > from IBM. Find simple to follow Roadmaps, straightforward articles, > > informative Webcasts and more! Get everything you need to get up to > > speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click > > _______________________________________________ > > Gusdev-gusdev mailing list > > Gus...@li... > > https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev > > > > > ------------------------------------------------------- > SF.Net email is sponsored by: Discover Easy Linux Migration Strategies > from IBM. Find simple to follow Roadmaps, straightforward articles, > informative Webcasts and more! Get everything you need to get up to > speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click > _______________________________________________ > Gusdev-gusdev mailing list > Gus...@li... > https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev |
|
From: Ed R. <ero...@ug...> - 2005-06-28 14:58:44
|
I've only been following this lightly, but Haiming's comment caught my attention. There are a number of reasons for keeping separate tablespaces in oracle, and this is an important one. You should always, at the very least, place your indexes in a separate table space. -ed ---- Original message ---- >Date: Tue, 28 Jun 2005 09:27:18 -0400 >From: Haiming Wang <hw...@ug...> >Subject: Re: [GUSDEV] GUS 3.5 installation success >To: Michael Saffitz <msa...@pc...> >Cc: Jian Lu <jl...@vb...>, Steve Fischer <sfi...@pc...>, Gusdev gusdev-gusdev <gus...@li...> > >According to the Optimal Flexible Architecture (OFA) standard for Oracle >, it would be a best practice for having separate indexes from the data. >Create your primary key and all other indexes in a separate tablespace >and put that on a separate disk and controller. > >Thanks for adding this support in the next GUS release. > >-Haiming > >On Tue, 2005-06-28 at 09:09, Michael Saffitz wrote: > >> > 1) 3.0 has separate tablespaces for each name space and its index. Do >> > you want to keep those tablespaces or merge them into one? >> >> We anticipate that most installations of GUS really only need one >> tablespace, since data storage parameters are likely to be the same for all >> GUS tables. This being said, I could foresee someone wanting to run >> standard tables in archivelog mode, and version tables in noarchivelog mode. >> One of my to do items for the next release is to better support the multiple >> tablespaces. > > > >------------------------------------------------------- >SF.Net email is sponsored by: Discover Easy Linux Migration Strategies >from IBM. Find simple to follow Roadmaps, straightforward articles, >informative Webcasts and more! Get everything you need to get up to >speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click >_______________________________________________ >Gusdev-gusdev mailing list >Gus...@li... >https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev ----------------- Ed Robinson Center for Tropical and Emerging Global Diseases University of Georgia, Athens, GA 30602 ero...@ug.../(706)542.1447/254.8883 |
|
From: Michael S. <msa...@pc...> - 2005-06-28 13:52:39
|
On 6/28/05 9:27 AM, "Haiming Wang" <hw...@ug...> wrote: > According to the Optimal Flexible Architecture (OFA) standard for Oracle > , it would be a best practice for having separate indexes from the data. > Create your primary key and all other indexes in a separate tablespace > and put that on a separate disk and controller. A single tablespace can span multiple disks. I think the only advantages to multiple tablespaces for GUS are: 1) When dictated by varying storage demands, such as the example below 2) Administrative ease. For example, we regularly migrate our data from build to production. On production, we simply drop the "gusver" tablespace, containing the version tables that we don't need available publicly. I think there's a trade-off here, however. I'd much prefer to manage 1 tablespace than the 10~12 tablespaces (as the default in 3.0). --Mike > > Thanks for adding this support in the next GUS release. > > -Haiming > > On Tue, 2005-06-28 at 09:09, Michael Saffitz wrote: > >>> 1) 3.0 has separate tablespaces for each name space and its index. Do >>> you want to keep those tablespaces or merge them into one? >> >> We anticipate that most installations of GUS really only need one >> tablespace, since data storage parameters are likely to be the same for all >> GUS tables. This being said, I could foresee someone wanting to run >> standard tables in archivelog mode, and version tables in noarchivelog mode. >> One of my to do items for the next release is to better support the multiple >> tablespaces. > > > > ------------------------------------------------------- > SF.Net email is sponsored by: Discover Easy Linux Migration Strategies > from IBM. Find simple to follow Roadmaps, straightforward articles, > informative Webcasts and more! Get everything you need to get up to > speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click > _______________________________________________ > Gusdev-gusdev mailing list > Gus...@li... > https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev |
|
From: Haiming W. <hw...@ug...> - 2005-06-28 13:32:44
|
According to the Optimal Flexible Architecture (OFA) standard for Oracle , it would be a best practice for having separate indexes from the data. Create your primary key and all other indexes in a separate tablespace and put that on a separate disk and controller. Thanks for adding this support in the next GUS release. -Haiming On Tue, 2005-06-28 at 09:09, Michael Saffitz wrote: > > 1) 3.0 has separate tablespaces for each name space and its index. Do > > you want to keep those tablespaces or merge them into one? > > We anticipate that most installations of GUS really only need one > tablespace, since data storage parameters are likely to be the same for all > GUS tables. This being said, I could foresee someone wanting to run > standard tables in archivelog mode, and version tables in noarchivelog mode. > One of my to do items for the next release is to better support the multiple > tablespaces. |
|
From: Michael S. <msa...@pc...> - 2005-06-28 13:09:39
|
Hi Jian, On 6/27/05 6:00 PM, "Jian Lu" <jl...@vb...> wrote: > GUS 3.5 installation (schema and application) succeeded! > > Thanks for Mike and Haiming's help. Great. Glad that you're up and running. > > Some concerns about upgrading 3.0 to 3.5: > > 1) 3.0 has separate tablespaces for each name space and its index. Do > you want to keep those tablespaces or merge them into one? We anticipate that most installations of GUS really only need one tablespace, since data storage parameters are likely to be the same for all GUS tables. This being said, I could foresee someone wanting to run standard tables in archivelog mode, and version tables in noarchivelog mode. One of my to do items for the next release is to better support the multiple tablespaces. > 2) If you have data on 3.0, data migration would be nontrivial. Do you > want to upgrade your schema based on the current one or export all data > from 3.0 database and import them into 3.5? Yes, hopefully this has been made clear over the last several months. There is no current upgrade path from 3.0 to 3.5. I hope to provide guideline upgrade scripts within the next week or two. Exporting and re-Importing will not work without some type of data transformations. --Mike > > Any others? |
|
From: Jian Lu <jl...@vb...> - 2005-06-27 22:00:51
|
GUS 3.5 installation (schema and application) succeeded! Thanks for Mike and Haiming's help. Some concerns about upgrading 3.0 to 3.5: 1) 3.0 has separate tablespaces for each name space and its index. Do you want to keep those tablespaces or merge them into one? 2) If you have data on 3.0, data migration would be nontrivial. Do you want to upgrade your schema based on the current one or export all data from 3.0 database and import them into 3.5? Any others? |
|
From: Jian Lu <jl...@vb...> - 2005-06-27 20:25:25
|
I was impressed by GUS 3.0 installation. There are 12 tablespaces:
GUS_APP
GUS_APP_IDX
GUS_CORE
GUS_CORE_IDX
........
........
.So I thought GUS 3.5 would follow the same rule.
Tell you what. The shema is successfully installed (I used one
tablespace) and now is running for models. :-)
Michael Saffitz wrote:
>You'll also need to comment out line 95 in
>$PROJECT_HOME/GUS/Schema/src/java/org/gusdb/schema/InstallSchemaTask.java
>
>This is experimental and "not supported"
>
>Just out of curiosity, why do you want more than one tablespace?
>
>--Mike
>
>
>On 6/27/05 3:38 PM, "Jian Lu" <jl...@vb...> wrote:
>
>
>
>>Yes, that is only change I made. Before I had ant 1.6.4.
>>
>>So if I modify the gus_shema.xml for different tablespaces, the
>>installation will skip tablespace defined in gus.config. Is that right?
>>
>>
>>Michael Saffitz wrote:
>>
>>
>>
>>>Hi Jian,
>>>
>>>That's very strange-- I'm running with ant 1.6.2 here without issue. Just
>>>to confirm-- the only change you made was to move to ant 1.6.5?
>>>
>>>GUS 3.5 by default installs into a single tablespace (as defined in the
>>>gus.config file). If you want it to install into more than one, you'd need
>>>to update the gus_schema.xml to use the proper tablespaces for the relevant
>>>objects, and comment out the lines in the DBAdmin sources that do tablespace
>>>name translation.
>>>
>>>If having more than one tablespace is a feature you'd like, submit a feature
>>>request in the issue tracker.
>>>
>>>Also, since you had a failed install, you'll need to make sure that any
>>>objects that were created (i.e. Users) are deleted before trying again.
>>>
>>>I'll create an issue to make sure that the documentation is updated to
>>>include more details about configuring the tablespaces.
>>>
>>>--Mike
>>>
>>>On 6/27/05 3:17 PM, "Jian Lu" <jl...@vb...> wrote:
>>>
>>>
>>>
>>>
>>>
>>>>I ran installation again under apache-ant 1.6.5. It went through for
>>>>schema installation. I had the following error:
>>>>
>>>>[InstallSchema] INFO: Writing Database
>>>>
>>>>BUILD FAILED
>>>>/home/brcgusts/GUS/project_home/install/build.xml:28: The following
>>>>error occurred while executing this line:
>>>>/home/brcgusts/GUS/project_home/GUS/build.xml:92: java.io.IOException:
>>>>Error executing SQL: '
>>>>ALTER USER PROT QUOTA UNLIMITED ON GUS' Error: ORA-00959: tablespace
>>>>'GUS' does not exist
>>>>
>>>>It sounds like looking for tablespace called GUS which defined within
>>>>gus.config file:
>>>>
>>>># Username, group, and project info from the relevant Core tables
>>>>
>>>>userName=$ENV{USER}
>>>>group=dba
>>>>project=GUS
>>>>
>>>>tablespace=GUS
>>>>
>>>>My question: does GUS 3.5 uses only one tablespace called GUS? As I
>>>>know, GUS 3.0 has at least 12 tablespaces. Please clarify it. Thanks.
>>>>
>>>>
>>>>
>>>>-------------------------------------------------------
>>>>SF.Net email is sponsored by: Discover Easy Linux Migration Strategies
>>>>from IBM. Find simple to follow Roadmaps, straightforward articles,
>>>>informative Webcasts and more! Get everything you need to get up to
>>>>speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click
>>>>_______________________________________________
>>>>Gusdev-gusdev mailing list
>>>>Gus...@li...
>>>>https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
>>>>
>>>>
>>>>
>>>>
>>>
>>>
>>>
>>>
>
>
>
|
|
From: Michael S. <msa...@pc...> - 2005-06-27 20:11:29
|
You'll also need to comment out line 95 in
$PROJECT_HOME/GUS/Schema/src/java/org/gusdb/schema/InstallSchemaTask.java
This is experimental and "not supported"
Just out of curiosity, why do you want more than one tablespace?
--Mike
On 6/27/05 3:38 PM, "Jian Lu" <jl...@vb...> wrote:
> Yes, that is only change I made. Before I had ant 1.6.4.
>
> So if I modify the gus_shema.xml for different tablespaces, the
> installation will skip tablespace defined in gus.config. Is that right?
>
>
> Michael Saffitz wrote:
>
>> Hi Jian,
>>
>> That's very strange-- I'm running with ant 1.6.2 here without issue. Just
>> to confirm-- the only change you made was to move to ant 1.6.5?
>>
>> GUS 3.5 by default installs into a single tablespace (as defined in the
>> gus.config file). If you want it to install into more than one, you'd need
>> to update the gus_schema.xml to use the proper tablespaces for the relevant
>> objects, and comment out the lines in the DBAdmin sources that do tablespace
>> name translation.
>>
>> If having more than one tablespace is a feature you'd like, submit a feature
>> request in the issue tracker.
>>
>> Also, since you had a failed install, you'll need to make sure that any
>> objects that were created (i.e. Users) are deleted before trying again.
>>
>> I'll create an issue to make sure that the documentation is updated to
>> include more details about configuring the tablespaces.
>>
>> --Mike
>>
>> On 6/27/05 3:17 PM, "Jian Lu" <jl...@vb...> wrote:
>>
>>
>>
>>> I ran installation again under apache-ant 1.6.5. It went through for
>>> schema installation. I had the following error:
>>>
>>> [InstallSchema] INFO: Writing Database
>>>
>>> BUILD FAILED
>>> /home/brcgusts/GUS/project_home/install/build.xml:28: The following
>>> error occurred while executing this line:
>>> /home/brcgusts/GUS/project_home/GUS/build.xml:92: java.io.IOException:
>>> Error executing SQL: '
>>> ALTER USER PROT QUOTA UNLIMITED ON GUS' Error: ORA-00959: tablespace
>>> 'GUS' does not exist
>>>
>>> It sounds like looking for tablespace called GUS which defined within
>>> gus.config file:
>>>
>>> # Username, group, and project info from the relevant Core tables
>>>
>>> userName=$ENV{USER}
>>> group=dba
>>> project=GUS
>>>
>>> tablespace=GUS
>>>
>>> My question: does GUS 3.5 uses only one tablespace called GUS? As I
>>> know, GUS 3.0 has at least 12 tablespaces. Please clarify it. Thanks.
>>>
>>>
>>>
>>> -------------------------------------------------------
>>> SF.Net email is sponsored by: Discover Easy Linux Migration Strategies
>>> from IBM. Find simple to follow Roadmaps, straightforward articles,
>>> informative Webcasts and more! Get everything you need to get up to
>>> speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click
>>> _______________________________________________
>>> Gusdev-gusdev mailing list
>>> Gus...@li...
>>> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
>>>
>>>
>>
>>
>>
>
|
|
From: Jian Lu <jl...@vb...> - 2005-06-27 19:38:57
|
Yes, that is only change I made. Before I had ant 1.6.4.
So if I modify the gus_shema.xml for different tablespaces, the
installation will skip tablespace defined in gus.config. Is that right?
Michael Saffitz wrote:
>Hi Jian,
>
>That's very strange-- I'm running with ant 1.6.2 here without issue. Just
>to confirm-- the only change you made was to move to ant 1.6.5?
>
>GUS 3.5 by default installs into a single tablespace (as defined in the
>gus.config file). If you want it to install into more than one, you'd need
>to update the gus_schema.xml to use the proper tablespaces for the relevant
>objects, and comment out the lines in the DBAdmin sources that do tablespace
>name translation.
>
>If having more than one tablespace is a feature you'd like, submit a feature
>request in the issue tracker.
>
>Also, since you had a failed install, you'll need to make sure that any
>objects that were created (i.e. Users) are deleted before trying again.
>
>I'll create an issue to make sure that the documentation is updated to
>include more details about configuring the tablespaces.
>
>--Mike
>
>On 6/27/05 3:17 PM, "Jian Lu" <jl...@vb...> wrote:
>
>
>
>>I ran installation again under apache-ant 1.6.5. It went through for
>>schema installation. I had the following error:
>>
>>[InstallSchema] INFO: Writing Database
>>
>>BUILD FAILED
>>/home/brcgusts/GUS/project_home/install/build.xml:28: The following
>>error occurred while executing this line:
>>/home/brcgusts/GUS/project_home/GUS/build.xml:92: java.io.IOException:
>>Error executing SQL: '
>>ALTER USER PROT QUOTA UNLIMITED ON GUS' Error: ORA-00959: tablespace
>>'GUS' does not exist
>>
>>It sounds like looking for tablespace called GUS which defined within
>>gus.config file:
>>
>># Username, group, and project info from the relevant Core tables
>>
>>userName=$ENV{USER}
>>group=dba
>>project=GUS
>>
>>tablespace=GUS
>>
>>My question: does GUS 3.5 uses only one tablespace called GUS? As I
>>know, GUS 3.0 has at least 12 tablespaces. Please clarify it. Thanks.
>>
>>
>>
>>-------------------------------------------------------
>>SF.Net email is sponsored by: Discover Easy Linux Migration Strategies
>>from IBM. Find simple to follow Roadmaps, straightforward articles,
>>informative Webcasts and more! Get everything you need to get up to
>>speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click
>>_______________________________________________
>>Gusdev-gusdev mailing list
>>Gus...@li...
>>https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
>>
>>
>
>
>
|
|
From: Michael S. <msa...@pc...> - 2005-06-27 19:31:08
|
Hi Jian,
That's very strange-- I'm running with ant 1.6.2 here without issue. Just
to confirm-- the only change you made was to move to ant 1.6.5?
GUS 3.5 by default installs into a single tablespace (as defined in the
gus.config file). If you want it to install into more than one, you'd need
to update the gus_schema.xml to use the proper tablespaces for the relevant
objects, and comment out the lines in the DBAdmin sources that do tablespace
name translation.
If having more than one tablespace is a feature you'd like, submit a feature
request in the issue tracker.
Also, since you had a failed install, you'll need to make sure that any
objects that were created (i.e. Users) are deleted before trying again.
I'll create an issue to make sure that the documentation is updated to
include more details about configuring the tablespaces.
--Mike
On 6/27/05 3:17 PM, "Jian Lu" <jl...@vb...> wrote:
> I ran installation again under apache-ant 1.6.5. It went through for
> schema installation. I had the following error:
>
> [InstallSchema] INFO: Writing Database
>
> BUILD FAILED
> /home/brcgusts/GUS/project_home/install/build.xml:28: The following
> error occurred while executing this line:
> /home/brcgusts/GUS/project_home/GUS/build.xml:92: java.io.IOException:
> Error executing SQL: '
> ALTER USER PROT QUOTA UNLIMITED ON GUS' Error: ORA-00959: tablespace
> 'GUS' does not exist
>
> It sounds like looking for tablespace called GUS which defined within
> gus.config file:
>
> # Username, group, and project info from the relevant Core tables
>
> userName=$ENV{USER}
> group=dba
> project=GUS
>
> tablespace=GUS
>
> My question: does GUS 3.5 uses only one tablespace called GUS? As I
> know, GUS 3.0 has at least 12 tablespaces. Please clarify it. Thanks.
>
>
>
> -------------------------------------------------------
> SF.Net email is sponsored by: Discover Easy Linux Migration Strategies
> from IBM. Find simple to follow Roadmaps, straightforward articles,
> informative Webcasts and more! Get everything you need to get up to
> speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click
> _______________________________________________
> Gusdev-gusdev mailing list
> Gus...@li...
> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
|
|
From: Jian Lu <jl...@vb...> - 2005-06-27 19:17:56
|
I ran installation again under apache-ant 1.6.5. It went through for
schema installation. I had the following error:
[InstallSchema] INFO: Writing Database
BUILD FAILED
/home/brcgusts/GUS/project_home/install/build.xml:28: The following
error occurred while executing this line:
/home/brcgusts/GUS/project_home/GUS/build.xml:92: java.io.IOException:
Error executing SQL: '
ALTER USER PROT QUOTA UNLIMITED ON GUS' Error: ORA-00959: tablespace
'GUS' does not exist
It sounds like looking for tablespace called GUS which defined within
gus.config file:
# Username, group, and project info from the relevant Core tables
userName=$ENV{USER}
group=dba
project=GUS
tablespace=GUS
My question: does GUS 3.5 uses only one tablespace called GUS? As I
know, GUS 3.0 has at least 12 tablespaces. Please clarify it. Thanks.
|
|
From: Jian Lu <jl...@vb...> - 2005-06-27 18:29:31
|
ls $GUS_HOME/lib/java CBIL-CSP.jar PerlTools-1.2.jar commons-collections-3.1.jar servlet-api-2.4.jar GUS-DBAdmin.jar classes12.jar commons-digester.jar GUS-GOPredict.jar commons-beanutils.jar commons-logging.jar GUS-Schema.jar commons-cli-1.0.jar pg74jdbc3.jar sfi...@pc... wrote: > send this: > > ls $GUSHOME/lib/java > > steve > > Quoting Jian Lu <jl...@vb...>: > >> Commented CLASSPATH and ran again. No luck. >> >> $ build GUS install -append -installDBSchema >> [WritePropertyFiles] Jun 27, 2005 9:37:06 AM >> org.gusdb.install.WritePropertyFileTask writeGusProp >> [WritePropertyFiles] INFO: Skipping creation of GUS_CONFIG_FILE >> /home/brcgusts/GUS/.gus.properties -- already exists >> [WritePropertyFiles] Jun 27, 2005 9:37:06 AM >> org.gusdb.install.WritePropertyFileTask writeInstallProp >> [WritePropertyFiles] INFO: Recreating install.prop file >> [WritePropertyFiles] Jun 27, 2005 9:37:06 AM >> org.gusdb.install.WritePropertyFileTask writePluginProp >> [WritePropertyFiles] INFO: Recreating GUS-PluginMgr.prop file >> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >> [echo] . >> [echo] Installing CBIL/Bio >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/bin >> [copy] Copying 5 files to /home/brcgusts/GUS/gus_home/bin >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Bio >> [copy] Copying 66 files to >> /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Bio >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/test/CBIL/Bio >> [copy] Copying 4 files to /home/brcgusts/GUS/gus_home/test/CBIL/Bio >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/data/CBIL/Bio >> [copy] Copying 9 files to /home/brcgusts/GUS/gus_home/data/CBIL/Bio >> [echo] . >> [echo] Installing CBIL/CSP >> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/bin >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/CSP >> [copy] Copying 11 files to >> /home/brcgusts/GUS/gus_home/lib/perl/CBIL/CSP >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/java >> [copy] Copying 2 files to /home/brcgusts/GUS/gus_home/lib/java >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/CBIL/CSP >> [copy] Copying 10 files to /home/brcgusts/GUS/gus_home/doc/CBIL/CSP >> [jar] Building jar: >> /home/brcgusts/GUS/gus_home/lib/java/CBIL-CSP.jar >> [echo] . >> [echo] Installing CBIL/Util >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Util >> [copy] Copying 8 files to >> /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Util >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/CBIL/Util >> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/doc/CBIL/Util >> [echo] . >> [echo] Installing CBIL/HQ >> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/bin >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/HQ >> [copy] Copying 3 files to >> /home/brcgusts/GUS/gus_home/lib/perl/CBIL/HQ >> [echo] . >> [echo] Installing CBIL/ObjectMapper >> [mkdir] Created dir: >> /home/brcgusts/GUS/gus_home/lib/perl/CBIL/ObjectMapper >> [copy] Copying 7 files to >> /home/brcgusts/GUS/gus_home/lib/perl/CBIL/ObjectMapper >> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >> [mkdir] Created dir: >> /home/brcgusts/GUS/gus_home/doc/CBIL/ObjectMapper >> [copy] Copying 1 file to >> /home/brcgusts/GUS/gus_home/doc/CBIL/ObjectMapper >> [concat] No existing files and no nested text, doing nothing >> [echo] . >> [echo] Installing GUS/Supported >> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/bin >> [mkdir] Created dir: >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported >> [copy] Copying 2 files to >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported >> [mkdir] Created dir: >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported/Plugin >> [copy] Copying 19 files to >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported/Plugin >> [copy] Copying 2 files to /home/brcgusts/GUS/gus_home/config >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/GUS/Supported >> [copy] Copying 5 files to >> /home/brcgusts/GUS/gus_home/doc/GUS/Supported >> [echo] . >> [echo] Installing GUS/Community >> [copy] Copying 4 files to /home/brcgusts/GUS/gus_home/bin >> [mkdir] Created dir: >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community >> [copy] Copying 10 files to >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community >> [copy] Copying 2 files to /home/brcgusts/GUS/gus_home/lib/java >> [mkdir] Created dir: >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community/Plugin >> [copy] Copying 41 files to >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community/Plugin >> [copy] Copying 10 files to /home/brcgusts/GUS/gus_home/config >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/GUS/Community >> [copy] Copying 7 files to >> /home/brcgusts/GUS/gus_home/doc/GUS/Community >> [echo] . >> [echo] Installing GUS/DBAdmin >> [copy] Copying 8 files to /home/brcgusts/GUS/gus_home/bin >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/DBAdmin >> [copy] Copying 6 files to >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/DBAdmin >> [copy] Copying 5 files to /home/brcgusts/GUS/gus_home/lib/java >> [jar] Building jar: >> /home/brcgusts/GUS/gus_home/lib/java/GUS-DBAdmin.jar >> [echo] . >> [echo] Installing GUS/GOPredict >> [copy] Copying 3 files to /home/brcgusts/GUS/gus_home/bin >> [mkdir] Created dir: >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict >> [copy] Copying 20 files to >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict >> [mkdir] Created dir: >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict/Plugin >> [copy] Copying 8 files to >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict/Plugin >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/GUS/GOPredict >> [copy] Copying 1 file to >> /home/brcgusts/GUS/gus_home/doc/GUS/GOPredict >> [jar] Building jar: >> /home/brcgusts/GUS/gus_home/lib/java/GUS-GOPredict.jar >> [echo] . >> [echo] Installing GUS/Schema >> [jar] Building jar: >> /home/brcgusts/GUS/gus_home/lib/java/GUS-Schema.jar >> [InstallSchema] Jun 27, 2005 9:37:13 AM >> org.gusdb.schema.InstallSchemaTask execute >> [InstallSchema] INFO: Reading database from >> /home/brcgusts/GUS/project_home/GUS/Schema/gus_schema.xml >> [InstallSchema] Jun 27, 2005 9:37:13 AM >> org.gusdb.dbadmin.reader.SchemaReader doRead >> [InstallSchema] INFO: Reading Database >> [InstallSchema] Jun 27, 2005 9:37:13 AM >> org.apache.commons.digester.Digester startElement >> [InstallSchema] SEVERE: Begin event threw error >> [InstallSchema] java.lang.NoClassDefFoundError: >> org/apache/commons/logging/LogFactory >> [InstallSchema] at >> org.apache.commons.beanutils.ConvertUtilsBean.<init>(ConvertUtilsBean.java:130) >> >> [InstallSchema] at >> org.apache.commons.beanutils.BeanUtilsBean.<init>(BeanUtilsBean.java:110) >> >> [InstallSchema] at >> org.apache.commons.beanutils.BeanUtilsBean$1.initialValue(BeanUtilsBean.java:68) >> >> [InstallSchema] at >> org.apache.commons.beanutils.ContextClassLoaderLocal.get(ContextClassLoaderLocal.java:80) >> >> [InstallSchema] at >> org.apache.commons.beanutils.BeanUtilsBean.getInstance(BeanUtilsBean.java:78) >> >> [InstallSchema] at >> org.apache.commons.beanutils.BeanUtils.populate(BeanUtils.java:298) >> [InstallSchema] at >> org.apache.commons.digester.SetPropertiesRule.begin(SetPropertiesRule.java:217) >> >> [InstallSchema] at >> org.apache.commons.digester.Rule.begin(Rule.java:152) >> [InstallSchema] at >> org.apache.commons.digester.Digester.startElement(Digester.java:1286) >> [InstallSchema] at >> org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown Source) >> [InstallSchema] at >> org.apache.xerces.impl.dtd.XMLDTDValidator.startElement(Unknown Source) >> [InstallSchema] at >> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(Unknown >> Source) >> [InstallSchema] at >> org.apache.xerces.impl.XMLDocumentScannerImpl$ContentDispatcher.scanRootElementHook(Unknown >> Source) >> [InstallSchema] at >> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDispatcher.dispatch(Unknown >> Source) >> [InstallSchema] at >> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown >> Source) >> [InstallSchema] at >> org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) >> [InstallSchema] at >> org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) >> [InstallSchema] at >> org.apache.xerces.parsers.XMLParser.parse(Unknown Source) >> [InstallSchema] at >> org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source) >> [InstallSchema] at >> org.apache.commons.digester.Digester.parse(Digester.java:1591) >> [InstallSchema] at >> org.gusdb.dbadmin.reader.XMLReader.readDatabase(XMLReader.java:43) >> [InstallSchema] at >> org.gusdb.dbadmin.reader.SchemaReader.doRead(SchemaReader.java:50) >> [InstallSchema] at >> org.gusdb.dbadmin.reader.SchemaReader.read(SchemaReader.java:38) >> [InstallSchema] at >> org.gusdb.schema.InstallSchemaTask.execute(InstallSchemaTask.java:89) >> [InstallSchema] at >> org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) >> [InstallSchema] at >> org.apache.tools.ant.Task.perform(Task.java:364) >> [InstallSchema] at >> org.apache.tools.ant.Target.execute(Target.java:341) >> [InstallSchema] at >> org.apache.tools.ant.Target.performTasks(Target.java:369) >> [InstallSchema] at >> org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) >> [InstallSchema] at >> org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExecutor.java:37) >> >> [InstallSchema] at >> org.apache.tools.ant.Project.executeTargets(Project.java:1068) >> [InstallSchema] at >> org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:382) >> [InstallSchema] at >> org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) >> [InstallSchema] at >> org.apache.tools.ant.Task.perform(Task.java:364) >> [InstallSchema] at >> org.apache.tools.ant.Target.execute(Target.java:341) >> [InstallSchema] at >> org.apache.tools.ant.Target.performTasks(Target.java:369) >> [InstallSchema] at >> org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) >> [InstallSchema] at >> org.apache.tools.ant.Project.executeTarget(Project.java:1185) >> [InstallSchema] at >> org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.java:40) >> >> [InstallSchema] at >> org.apache.tools.ant.Project.executeTargets(Project.java:1068) >> [InstallSchema] at >> org.apache.tools.ant.Main.runBuild(Main.java:668) >> [InstallSchema] at >> org.apache.tools.ant.Main.startAnt(Main.java:187) >> [InstallSchema] at >> org.apache.tools.ant.launch.Launcher.run(Launcher.java:246) >> [InstallSchema] at >> org.apache.tools.ant.launch.Launcher.main(Launcher.java:67) >> >> BUILD FAILED >> /home/brcgusts/GUS/project_home/install/build.xml:28: The following >> error occurred while executing this line: >> java.lang.NoClassDefFoundError: org/apache/commons/logging/LogFactory >> >> Total time: 7 seconds >> >> Haiming Wang wrote: >> >>> On Mon, 2005-06-27 at 11:07, Jian Lu wrote: >>> >>>> Here is my system env. >>>> >>>> ANT_HOME=/home/gmod/gus/all_software/apache-ant >>>> PROJECT_HOME=/home/brcgusts/GUS/project_home >>>> JAVA_HOME=/usr/lib/java >>>> CLASSPATH=$GUS_HOME/gus_home/lib/java >>>> >>> >>> Please comment 'CLASSPATH=$GUS_HOME/gus_home/lib/java' out and rehash >>> .bashrc (or .profile...) and give it a try. >>> >>> -Haiming >>> >>> >>>> $java -version >>>> java version "1.4.2_04" >>>> Java(TM) 2 Runtime Environment, Standard Edition (build 1.4.2_04-b05) >>>> Java HotSpot(TM) Client VM (build 1.4.2_04-b05, mixed mode) >>>> >>>> apache-ant: 1.6.4 >>>> >>>> Could you let me know your system env? >>>> >>>> Thanks. >>>> >>>> Jian >>>> >>>> Haiming Wang wrote: >>>> >>>>> I am guessing that although you have commons logging in your compile >>>>> classpath it isn't in your runtime. Please check both Java and Ant >>>>> version, especially Ant (1.6.1 or above). Also, echo $CLASSPATH to >>>>> see if there are other commons-logging.jar >>>>> before the GUS's commons-logging.jar. >>>>> >>>>> I hope this is helpful. >>>>> >>>>> -Haiming >>>>> >>>>> >>>>> >>>>> On Sun, 2005-06-26 at 16:19, Jian Lu wrote: >>>>> >>>>>> Hi Mike, >>>>>> The commons-logging.jar is in my $GUS_HOME/lib/java. >>>>>> Jian >>>>>> >>>>>> Michael Saffitz wrote: >>>>>> >>>>>>> Hi Jian, >>>>>>> >>>>>>> Can you confirm that the commons-logging.jar is in your >>>>>>> $GUS_HOME/lib/java >>>>>>> (it should have been installed from >>>>>>> $PROJECT_HOME/GUS/DBAdmin/lib/java/ >>>>>>> >>>>>>> Thanks, >>>>>>> >>>>>>> Mike >>>>>>> >>>>>>> On 6/25/05 5:02 PM, "Jian Lu" <jl...@vb...> wrote: >>>>>>> >>>>>>> >>>>>>>> I downloaded the official release, followed the installation >>>>>>>> instruction >>>>>>>> and failed to install. Please advise. Thank you. >>>>>>>> >>>>>>>> build GUS install -append -installDBSchema >>>>>>>> [WritePropertyFiles] Jun 25, 2005 3:02:40 PM >>>>>>>> org.gusdb.install.WritePropertyFileTask writeInstallProp >>>>>>>> [WritePropertyFiles] INFO: Recreating install.prop file >>>>>>>> [WritePropertyFiles] Jun 25, 2005 3:02:40 PM >>>>>>>> org.gusdb.install.WritePropertyFileTask writePluginProp >>>>>>>> [WritePropertyFiles] INFO: Recreating GUS-PluginMgr.prop file >>>>>>>> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >>>>>>>> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >>>>>>>> [echo] . >>>>>>>> [echo] Installing CBIL/Bio >>>>>>>> [echo] . >>>>>>>> [echo] Installing CBIL/CSP >>>>>>>> [echo] . >>>>>>>> [echo] Installing CBIL/Util >>>>>>>> [echo] . >>>>>>>> [echo] Installing CBIL/HQ >>>>>>>> [echo] . >>>>>>>> [echo] Installing CBIL/ObjectMapper >>>>>>>> [concat] No existing files and no nested text, doing nothing >>>>>>>> [echo] . >>>>>>>> [echo] Installing GUS/Supported >>>>>>>> [echo] . >>>>>>>> [echo] Installing GUS/Community >>>>>>>> [echo] . >>>>>>>> [echo] Installing GUS/DBAdmin >>>>>>>> [echo] . >>>>>>>> [echo] Installing GUS/GOPredict >>>>>>>> [echo] . >>>>>>>> [echo] Installing GUS/Schema >>>>>>>> [InstallSchema] Jun 25, 2005 3:02:46 PM >>>>>>>> org.gusdb.schema.InstallSchemaTask execute >>>>>>>> [InstallSchema] INFO: Reading database from >>>>>>>> /home/brcgusts/GUS/project_home/GUS/Schema/gus_schema.xml >>>>>>>> [InstallSchema] Jun 25, 2005 3:02:46 PM >>>>>>>> org.gusdb.dbadmin.reader.SchemaReader doRead >>>>>>>> [InstallSchema] INFO: Reading Database >>>>>>>> [InstallSchema] Jun 25, 2005 3:02:46 PM >>>>>>>> org.apache.commons.digester.Digester startElement >>>>>>>> [InstallSchema] SEVERE: Begin event threw error >>>>>>>> [InstallSchema] java.lang.NoClassDefFoundError: >>>>>>>> org/apache/commons/logging/LogFactory >>>>>>>> [InstallSchema] at >>>>>>>> >>>>>>>> >>>>>>> org.apache.commons.beanutils.ConvertUtilsBean.<init>(ConvertUtilsBean.java:130> >>>>>>> >>>>>>> ) >>>>>>> >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.commons.beanutils.BeanUtilsBean.<init>(BeanUtilsBean.java:110) >>>>>>>> >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.commons.beanutils.BeanUtilsBean$1.initialValue(BeanUtilsBean.java:6 >>>>>>>> >>>>>>>> 8) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.commons.beanutils.ContextClassLoaderLocal.get(ContextClassLoaderLoc >>>>>>>> >>>>>>>> al.java:80) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.commons.beanutils.BeanUtilsBean.getInstance(BeanUtilsBean.java:78) >>>>>>>> >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.commons.beanutils.BeanUtils.populate(BeanUtils.java:298) >>>>>>>> >>>>>>>> [InstallSchema] at >>>>>>>> >>>>>>>> >>>>>>> org.apache.commons.digester.SetPropertiesRule.begin(SetPropertiesRule.java:217> >>>>>>> >>>>>>> ) >>>>>>> >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.commons.digester.Rule.begin(Rule.java:152) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.commons.digester.Digester.startElement(Digester.java:1286) >>>>>>>> >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown >>>>>>>> Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.impl.dtd.XMLDTDValidator.startElement(Unknown >>>>>>>> Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(Unknown >>>>>>>> >>>>>>>> Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.impl.XMLDocumentScannerImpl$ContentDispatcher.scanRootElemen >>>>>>>> >>>>>>>> tHook(Unknown Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDispatche >>>>>>>> >>>>>>>> r.dispatch(Unknown >>>>>>>> Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown >>>>>>>> >>>>>>>> Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.parsers.XMLParser.parse(Unknown Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.commons.digester.Digester.parse(Digester.java:1591) >>>>>>>> [InstallSchema] at >>>>>>>> org.gusdb.dbadmin.reader.XMLReader.readDatabase(XMLReader.java:43) >>>>>>>> [InstallSchema] at >>>>>>>> org.gusdb.dbadmin.reader.SchemaReader.doRead(SchemaReader.java:50) >>>>>>>> [InstallSchema] at >>>>>>>> org.gusdb.dbadmin.reader.SchemaReader.read(SchemaReader.java:38) >>>>>>>> [InstallSchema] at >>>>>>>> org.gusdb.schema.InstallSchemaTask.execute(InstallSchemaTask.java:89) >>>>>>>> >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) >>>>>>>> >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Task.perform(Task.java:364) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Target.execute(Target.java:341) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Target.performTasks(Target.java:369) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) >>>>>>>> >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExec >>>>>>>> >>>>>>>> utor.java:37) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Project.executeTargets(Project.java:1068) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:382) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) >>>>>>>> >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Task.perform(Task.java:364) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Target.execute(Target.java:341) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Target.performTasks(Target.java:369) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) >>>>>>>> >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Project.executeTarget(Project.java:1185) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.jav >>>>>>>> >>>>>>>> a:40) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Project.executeTargets(Project.java:1068) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Main.runBuild(Main.java:668) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Main.startAnt(Main.java:187) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.launch.Launcher.run(Launcher.java:246) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.launch.Launcher.main(Launcher.java:67) >>>>>>>> >>>>>>>> BUILD FAILED >>>>>>>> /home/brcgusts/GUS/project_home/install/build.xml:28: The >>>>>>>> following >>>>>>>> error occurred while executing this line: >>>>>>>> java.lang.NoClassDefFoundError: >>>>>>>> org/apache/commons/logging/LogFactory >>>>>>>> >>>>>>>> Total time: 6 seconds >>>>>>>> >>>>>>>> >>>>>>> ------------------------------------------------------- >>>>>>> SF.Net email is sponsored by: Discover Easy Linux Migration >>>>>>> Strategies >>>>>>> from IBM. Find simple to follow Roadmaps, straightforward articles, >>>>>>> informative Webcasts and more! Get everything you need to get up to >>>>>>> speed, fast. >>>>>>> http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click >>>>>>> _______________________________________________ >>>>>>> Gusdev-gusdev mailing list >>>>>>> Gus...@li... >>>>>>> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev >>>>>>> >>>>> ------------------------------------------------------- >>>>> SF.Net email is sponsored by: Discover Easy Linux Migration >>>>> Strategies >>>>> from IBM. Find simple to follow Roadmaps, straightforward articles, >>>>> informative Webcasts and more! Get everything you need to get up to >>>>> speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click >>>>> _______________________________________________ >>>>> Gusdev-gusdev mailing list >>>>> Gus...@li... >>>>> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev >>>>> >> >> > > |
|
From: <sfi...@pc...> - 2005-06-27 18:26:10
|
send this: ls $GUSHOME/lib/java steve Quoting Jian Lu <jl...@vb...>: > Commented CLASSPATH and ran again. No luck. > > $ build GUS install -append -installDBSchema > [WritePropertyFiles] Jun 27, 2005 9:37:06 AM > org.gusdb.install.WritePropertyFileTask writeGusProp > [WritePropertyFiles] INFO: Skipping creation of GUS_CONFIG_FILE > /home/brcgusts/GUS/.gus.properties -- already exists > [WritePropertyFiles] Jun 27, 2005 9:37:06 AM > org.gusdb.install.WritePropertyFileTask writeInstallProp > [WritePropertyFiles] INFO: Recreating install.prop file > [WritePropertyFiles] Jun 27, 2005 9:37:06 AM > org.gusdb.install.WritePropertyFileTask writePluginProp > [WritePropertyFiles] INFO: Recreating GUS-PluginMgr.prop file > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config > [echo] . > [echo] Installing CBIL/Bio > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/bin > [copy] Copying 5 files to /home/brcgusts/GUS/gus_home/bin > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Bio > [copy] Copying 66 files to /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Bio > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/test/CBIL/Bio > [copy] Copying 4 files to /home/brcgusts/GUS/gus_home/test/CBIL/Bio > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/data/CBIL/Bio > [copy] Copying 9 files to /home/brcgusts/GUS/gus_home/data/CBIL/Bio > [echo] . > [echo] Installing CBIL/CSP > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/bin > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/CSP > [copy] Copying 11 files to /home/brcgusts/GUS/gus_home/lib/perl/CBIL/CSP > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/java > [copy] Copying 2 files to /home/brcgusts/GUS/gus_home/lib/java > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/CBIL/CSP > [copy] Copying 10 files to /home/brcgusts/GUS/gus_home/doc/CBIL/CSP > [jar] Building jar: /home/brcgusts/GUS/gus_home/lib/java/CBIL-CSP.jar > [echo] . > [echo] Installing CBIL/Util > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Util > [copy] Copying 8 files to /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Util > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/CBIL/Util > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/doc/CBIL/Util > [echo] . > [echo] Installing CBIL/HQ > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/bin > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/HQ > [copy] Copying 3 files to /home/brcgusts/GUS/gus_home/lib/perl/CBIL/HQ > [echo] . > [echo] Installing CBIL/ObjectMapper > [mkdir] Created dir: > /home/brcgusts/GUS/gus_home/lib/perl/CBIL/ObjectMapper > [copy] Copying 7 files to > /home/brcgusts/GUS/gus_home/lib/perl/CBIL/ObjectMapper > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/CBIL/ObjectMapper > [copy] Copying 1 file to > /home/brcgusts/GUS/gus_home/doc/CBIL/ObjectMapper > [concat] No existing files and no nested text, doing nothing > [echo] . > [echo] Installing GUS/Supported > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/bin > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported > [copy] Copying 2 files to > /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported > [mkdir] Created dir: > /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported/Plugin > [copy] Copying 19 files to > /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported/Plugin > [copy] Copying 2 files to /home/brcgusts/GUS/gus_home/config > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/GUS/Supported > [copy] Copying 5 files to /home/brcgusts/GUS/gus_home/doc/GUS/Supported > [echo] . > [echo] Installing GUS/Community > [copy] Copying 4 files to /home/brcgusts/GUS/gus_home/bin > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community > [copy] Copying 10 files to > /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community > [copy] Copying 2 files to /home/brcgusts/GUS/gus_home/lib/java > [mkdir] Created dir: > /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community/Plugin > [copy] Copying 41 files to > /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community/Plugin > [copy] Copying 10 files to /home/brcgusts/GUS/gus_home/config > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/GUS/Community > [copy] Copying 7 files to /home/brcgusts/GUS/gus_home/doc/GUS/Community > [echo] . > [echo] Installing GUS/DBAdmin > [copy] Copying 8 files to /home/brcgusts/GUS/gus_home/bin > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/DBAdmin > [copy] Copying 6 files to > /home/brcgusts/GUS/gus_home/lib/perl/GUS/DBAdmin > [copy] Copying 5 files to /home/brcgusts/GUS/gus_home/lib/java > [jar] Building jar: /home/brcgusts/GUS/gus_home/lib/java/GUS-DBAdmin.jar > [echo] . > [echo] Installing GUS/GOPredict > [copy] Copying 3 files to /home/brcgusts/GUS/gus_home/bin > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict > [copy] Copying 20 files to > /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict > [mkdir] Created dir: > /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict/Plugin > [copy] Copying 8 files to > /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict/Plugin > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/GUS/GOPredict > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/doc/GUS/GOPredict > [jar] Building jar: > /home/brcgusts/GUS/gus_home/lib/java/GUS-GOPredict.jar > [echo] . > [echo] Installing GUS/Schema > [jar] Building jar: /home/brcgusts/GUS/gus_home/lib/java/GUS-Schema.jar > [InstallSchema] Jun 27, 2005 9:37:13 AM > org.gusdb.schema.InstallSchemaTask execute > [InstallSchema] INFO: Reading database from > /home/brcgusts/GUS/project_home/GUS/Schema/gus_schema.xml > [InstallSchema] Jun 27, 2005 9:37:13 AM > org.gusdb.dbadmin.reader.SchemaReader doRead > [InstallSchema] INFO: Reading Database > [InstallSchema] Jun 27, 2005 9:37:13 AM > org.apache.commons.digester.Digester startElement > [InstallSchema] SEVERE: Begin event threw error > [InstallSchema] java.lang.NoClassDefFoundError: > org/apache/commons/logging/LogFactory > [InstallSchema] at > org.apache.commons.beanutils.ConvertUtilsBean.<init>(ConvertUtilsBean.java:130) > [InstallSchema] at > org.apache.commons.beanutils.BeanUtilsBean.<init>(BeanUtilsBean.java:110) > [InstallSchema] at > org.apache.commons.beanutils.BeanUtilsBean$1.initialValue(BeanUtilsBean.java:68) > [InstallSchema] at > org.apache.commons.beanutils.ContextClassLoaderLocal.get(ContextClassLoaderLocal.java:80) > [InstallSchema] at > org.apache.commons.beanutils.BeanUtilsBean.getInstance(BeanUtilsBean.java:78) > [InstallSchema] at > org.apache.commons.beanutils.BeanUtils.populate(BeanUtils.java:298) > [InstallSchema] at > org.apache.commons.digester.SetPropertiesRule.begin(SetPropertiesRule.java:217) > [InstallSchema] at > org.apache.commons.digester.Rule.begin(Rule.java:152) > [InstallSchema] at > org.apache.commons.digester.Digester.startElement(Digester.java:1286) > [InstallSchema] at > org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown > Source) > [InstallSchema] at > org.apache.xerces.impl.dtd.XMLDTDValidator.startElement(Unknown > Source) > [InstallSchema] at > org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(Unknown > Source) > [InstallSchema] at > org.apache.xerces.impl.XMLDocumentScannerImpl$ContentDispatcher.scanRootElementHook(Unknown > Source) > [InstallSchema] at > org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDispatcher.dispatch(Unknown > Source) > [InstallSchema] at > org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown > Source) > [InstallSchema] at > org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) > [InstallSchema] at > org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) > [InstallSchema] at > org.apache.xerces.parsers.XMLParser.parse(Unknown Source) > [InstallSchema] at > org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source) > [InstallSchema] at > org.apache.commons.digester.Digester.parse(Digester.java:1591) > [InstallSchema] at > org.gusdb.dbadmin.reader.XMLReader.readDatabase(XMLReader.java:43) > [InstallSchema] at > org.gusdb.dbadmin.reader.SchemaReader.doRead(SchemaReader.java:50) > [InstallSchema] at > org.gusdb.dbadmin.reader.SchemaReader.read(SchemaReader.java:38) > [InstallSchema] at > org.gusdb.schema.InstallSchemaTask.execute(InstallSchemaTask.java:89) > [InstallSchema] at > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) > [InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364) > [InstallSchema] at > org.apache.tools.ant.Target.execute(Target.java:341) > [InstallSchema] at > org.apache.tools.ant.Target.performTasks(Target.java:369) > [InstallSchema] at > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) > [InstallSchema] at > org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExecutor.java:37) > [InstallSchema] at > org.apache.tools.ant.Project.executeTargets(Project.java:1068) > [InstallSchema] at > org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:382) > [InstallSchema] at > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) > [InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364) > [InstallSchema] at > org.apache.tools.ant.Target.execute(Target.java:341) > [InstallSchema] at > org.apache.tools.ant.Target.performTasks(Target.java:369) > [InstallSchema] at > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) > [InstallSchema] at > org.apache.tools.ant.Project.executeTarget(Project.java:1185) > [InstallSchema] at > org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.java:40) > [InstallSchema] at > org.apache.tools.ant.Project.executeTargets(Project.java:1068) > [InstallSchema] at org.apache.tools.ant.Main.runBuild(Main.java:668) > [InstallSchema] at org.apache.tools.ant.Main.startAnt(Main.java:187) > [InstallSchema] at > org.apache.tools.ant.launch.Launcher.run(Launcher.java:246) > [InstallSchema] at > org.apache.tools.ant.launch.Launcher.main(Launcher.java:67) > > BUILD FAILED > /home/brcgusts/GUS/project_home/install/build.xml:28: The following > error occurred while executing this line: > java.lang.NoClassDefFoundError: org/apache/commons/logging/LogFactory > > Total time: 7 seconds > > Haiming Wang wrote: > >> On Mon, 2005-06-27 at 11:07, Jian Lu wrote: >> >>> Here is my system env. >>> >>> ANT_HOME=/home/gmod/gus/all_software/apache-ant >>> PROJECT_HOME=/home/brcgusts/GUS/project_home >>> JAVA_HOME=/usr/lib/java >>> CLASSPATH=$GUS_HOME/gus_home/lib/java >>> >> >> Please comment 'CLASSPATH=$GUS_HOME/gus_home/lib/java' out and rehash >> .bashrc (or .profile...) and give it a try. >> >> -Haiming >> >> >>> $java -version >>> java version "1.4.2_04" >>> Java(TM) 2 Runtime Environment, Standard Edition (build 1.4.2_04-b05) >>> Java HotSpot(TM) Client VM (build 1.4.2_04-b05, mixed mode) >>> >>> apache-ant: 1.6.4 >>> >>> Could you let me know your system env? >>> >>> Thanks. >>> >>> Jian >>> >>> Haiming Wang wrote: >>>> I am guessing that although you have commons logging in your compile >>>> classpath it isn't in your runtime. Please check both Java and Ant >>>> version, especially Ant (1.6.1 or above). Also, echo $CLASSPATH to >>>> see if there are other commons-logging.jar >>>> before the GUS's commons-logging.jar. >>>> >>>> I hope this is helpful. >>>> >>>> -Haiming >>>> >>>> >>>> >>>> On Sun, 2005-06-26 at 16:19, Jian Lu wrote: >>>> >>>>> Hi Mike, >>>>> The commons-logging.jar is in my $GUS_HOME/lib/java. >>>>> Jian >>>>> >>>>> Michael Saffitz wrote: >>>>>> Hi Jian, >>>>>> >>>>>> Can you confirm that the commons-logging.jar is in your >>>>>> $GUS_HOME/lib/java >>>>>> (it should have been installed from $PROJECT_HOME/GUS/DBAdmin/lib/java/ >>>>>> >>>>>> Thanks, >>>>>> >>>>>> Mike >>>>>> >>>>>> On 6/25/05 5:02 PM, "Jian Lu" <jl...@vb...> wrote: >>>>>> >>>>>> >>>>>>> I downloaded the official release, followed the installation >>>>>>> instruction >>>>>>> and failed to install. Please advise. Thank you. >>>>>>> >>>>>>> build GUS install -append -installDBSchema >>>>>>> [WritePropertyFiles] Jun 25, 2005 3:02:40 PM >>>>>>> org.gusdb.install.WritePropertyFileTask writeInstallProp >>>>>>> [WritePropertyFiles] INFO: Recreating install.prop file >>>>>>> [WritePropertyFiles] Jun 25, 2005 3:02:40 PM >>>>>>> org.gusdb.install.WritePropertyFileTask writePluginProp >>>>>>> [WritePropertyFiles] INFO: Recreating GUS-PluginMgr.prop file >>>>>>> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >>>>>>> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >>>>>>> [echo] . >>>>>>> [echo] Installing CBIL/Bio >>>>>>> [echo] . >>>>>>> [echo] Installing CBIL/CSP >>>>>>> [echo] . >>>>>>> [echo] Installing CBIL/Util >>>>>>> [echo] . >>>>>>> [echo] Installing CBIL/HQ >>>>>>> [echo] . >>>>>>> [echo] Installing CBIL/ObjectMapper >>>>>>> [concat] No existing files and no nested text, doing nothing >>>>>>> [echo] . >>>>>>> [echo] Installing GUS/Supported >>>>>>> [echo] . >>>>>>> [echo] Installing GUS/Community >>>>>>> [echo] . >>>>>>> [echo] Installing GUS/DBAdmin >>>>>>> [echo] . >>>>>>> [echo] Installing GUS/GOPredict >>>>>>> [echo] . >>>>>>> [echo] Installing GUS/Schema >>>>>>> [InstallSchema] Jun 25, 2005 3:02:46 PM >>>>>>> org.gusdb.schema.InstallSchemaTask execute >>>>>>> [InstallSchema] INFO: Reading database from >>>>>>> /home/brcgusts/GUS/project_home/GUS/Schema/gus_schema.xml >>>>>>> [InstallSchema] Jun 25, 2005 3:02:46 PM >>>>>>> org.gusdb.dbadmin.reader.SchemaReader doRead >>>>>>> [InstallSchema] INFO: Reading Database >>>>>>> [InstallSchema] Jun 25, 2005 3:02:46 PM >>>>>>> org.apache.commons.digester.Digester startElement >>>>>>> [InstallSchema] SEVERE: Begin event threw error >>>>>>> [InstallSchema] java.lang.NoClassDefFoundError: >>>>>>> org/apache/commons/logging/LogFactory >>>>>>> [InstallSchema] at >>>>>>> >>>>>>> >>>>>> org.apache.commons.beanutils.ConvertUtilsBean.<init>(ConvertUtilsBean.java:130> >>>>>> ) >>>>>> >>>>>>> [InstallSchema] at >>>>>>> org.apache.commons.beanutils.BeanUtilsBean.<init>(BeanUtilsBean.java:110) >>>>>>> [InstallSchema] at >>>>>>> org.apache.commons.beanutils.BeanUtilsBean$1.initialValue(BeanUtilsBean.java:6 >>>>>>> 8) >>>>>>> [InstallSchema] at >>>>>>> org.apache.commons.beanutils.ContextClassLoaderLocal.get(ContextClassLoaderLoc >>>>>>> al.java:80) >>>>>>> [InstallSchema] at >>>>>>> org.apache.commons.beanutils.BeanUtilsBean.getInstance(BeanUtilsBean.java:78) >>>>>>> [InstallSchema] at >>>>>>> org.apache.commons.beanutils.BeanUtils.populate(BeanUtils.java:298) >>>>>>> [InstallSchema] at >>>>>>> >>>>>>> >>>>>> org.apache.commons.digester.SetPropertiesRule.begin(SetPropertiesRule.java:217> >>>>>> ) >>>>>> >>>>>>> [InstallSchema] at >>>>>>> org.apache.commons.digester.Rule.begin(Rule.java:152) >>>>>>> [InstallSchema] at >>>>>>> org.apache.commons.digester.Digester.startElement(Digester.java:1286) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown >>>>>>> Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.impl.dtd.XMLDTDValidator.startElement(Unknown Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(Unknown >>>>>>> Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.impl.XMLDocumentScannerImpl$ContentDispatcher.scanRootElemen >>>>>>> tHook(Unknown Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDispatche >>>>>>> r.dispatch(Unknown >>>>>>> Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown >>>>>>> Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.parsers.XMLParser.parse(Unknown Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.commons.digester.Digester.parse(Digester.java:1591) >>>>>>> [InstallSchema] at >>>>>>> org.gusdb.dbadmin.reader.XMLReader.readDatabase(XMLReader.java:43) >>>>>>> [InstallSchema] at >>>>>>> org.gusdb.dbadmin.reader.SchemaReader.doRead(SchemaReader.java:50) >>>>>>> [InstallSchema] at >>>>>>> org.gusdb.dbadmin.reader.SchemaReader.read(SchemaReader.java:38) >>>>>>> [InstallSchema] at >>>>>>> org.gusdb.schema.InstallSchemaTask.execute(InstallSchemaTask.java:89) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Task.perform(Task.java:364) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Target.execute(Target.java:341) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Target.performTasks(Target.java:369) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExec >>>>>>> utor.java:37) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Project.executeTargets(Project.java:1068) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:382) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Task.perform(Task.java:364) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Target.execute(Target.java:341) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Target.performTasks(Target.java:369) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Project.executeTarget(Project.java:1185) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.jav >>>>>>> a:40) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Project.executeTargets(Project.java:1068) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Main.runBuild(Main.java:668) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Main.startAnt(Main.java:187) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.launch.Launcher.run(Launcher.java:246) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.launch.Launcher.main(Launcher.java:67) >>>>>>> >>>>>>> BUILD FAILED >>>>>>> /home/brcgusts/GUS/project_home/install/build.xml:28: The following >>>>>>> error occurred while executing this line: >>>>>>> java.lang.NoClassDefFoundError: org/apache/commons/logging/LogFactory >>>>>>> >>>>>>> Total time: 6 seconds >>>>>>> >>>>>>> >>>>>> ------------------------------------------------------- >>>>>> SF.Net email is sponsored by: Discover Easy Linux Migration Strategies >>>>>> from IBM. Find simple to follow Roadmaps, straightforward articles, >>>>>> informative Webcasts and more! Get everything you need to get up to >>>>>> speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click >>>>>> _______________________________________________ >>>>>> Gusdev-gusdev mailing list >>>>>> Gus...@li... >>>>>> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev >>>>>> >>>> ------------------------------------------------------- >>>> SF.Net email is sponsored by: Discover Easy Linux Migration Strategies >>>> from IBM. Find simple to follow Roadmaps, straightforward articles, >>>> informative Webcasts and more! Get everything you need to get up to >>>> speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click >>>> _______________________________________________ >>>> Gusdev-gusdev mailing list >>>> Gus...@li... >>>> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev >>>> > > |
|
From: <sfi...@pc...> - 2005-06-27 15:58:32
|
GUS does not use $CLASSPATH. can you echo your $CLASSPATH and also echo your $GUS_HOME/lib/java and mail the results. steve Quoting Michael Saffitz <msa...@pc...>: > > The strange thing about this is that it appears the BeanUtils libraries are > generating the error, not the GUS code that also uses commons-logging. > > I think Haiming's observation is on the right path: there is either an > existing beanutils that's not compatible with the current commons-logging or > vice versa. > > --Mike > > On 6/27/05 11:36 AM, "Jian Lu" <jl...@vb...> wrote: > >> Commented CLASSPATH and ran again. No luck. >> >> $ build GUS install -append -installDBSchema >> [WritePropertyFiles] Jun 27, 2005 9:37:06 AM >> org.gusdb.install.WritePropertyFileTask writeGusProp >> [WritePropertyFiles] INFO: Skipping creation of GUS_CONFIG_FILE >> /home/brcgusts/GUS/.gus.properties -- already exists >> [WritePropertyFiles] Jun 27, 2005 9:37:06 AM >> org.gusdb.install.WritePropertyFileTask writeInstallProp >> [WritePropertyFiles] INFO: Recreating install.prop file >> [WritePropertyFiles] Jun 27, 2005 9:37:06 AM >> org.gusdb.install.WritePropertyFileTask writePluginProp >> [WritePropertyFiles] INFO: Recreating GUS-PluginMgr.prop file >> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >> [echo] . >> [echo] Installing CBIL/Bio >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/bin >> [copy] Copying 5 files to /home/brcgusts/GUS/gus_home/bin >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Bio >> [copy] Copying 66 files to >> /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Bio >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/test/CBIL/Bio >> [copy] Copying 4 files to /home/brcgusts/GUS/gus_home/test/CBIL/Bio >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/data/CBIL/Bio >> [copy] Copying 9 files to /home/brcgusts/GUS/gus_home/data/CBIL/Bio >> [echo] . >> [echo] Installing CBIL/CSP >> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/bin >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/CSP >> [copy] Copying 11 files to >> /home/brcgusts/GUS/gus_home/lib/perl/CBIL/CSP >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/java >> [copy] Copying 2 files to /home/brcgusts/GUS/gus_home/lib/java >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/CBIL/CSP >> [copy] Copying 10 files to /home/brcgusts/GUS/gus_home/doc/CBIL/CSP >> [jar] Building jar: /home/brcgusts/GUS/gus_home/lib/java/CBIL-CSP.jar >> [echo] . >> [echo] Installing CBIL/Util >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Util >> [copy] Copying 8 files to >> /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Util >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/CBIL/Util >> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/doc/CBIL/Util >> [echo] . >> [echo] Installing CBIL/HQ >> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/bin >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/HQ >> [copy] Copying 3 files to /home/brcgusts/GUS/gus_home/lib/perl/CBIL/HQ >> [echo] . >> [echo] Installing CBIL/ObjectMapper >> [mkdir] Created dir: >> /home/brcgusts/GUS/gus_home/lib/perl/CBIL/ObjectMapper >> [copy] Copying 7 files to >> /home/brcgusts/GUS/gus_home/lib/perl/CBIL/ObjectMapper >> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/CBIL/ObjectMapper >> [copy] Copying 1 file to >> /home/brcgusts/GUS/gus_home/doc/CBIL/ObjectMapper >> [concat] No existing files and no nested text, doing nothing >> [echo] . >> [echo] Installing GUS/Supported >> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/bin >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported >> [copy] Copying 2 files to >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported >> [mkdir] Created dir: >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported/Plugin >> [copy] Copying 19 files to >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported/Plugin >> [copy] Copying 2 files to /home/brcgusts/GUS/gus_home/config >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/GUS/Supported >> [copy] Copying 5 files to /home/brcgusts/GUS/gus_home/doc/GUS/Supported >> [echo] . >> [echo] Installing GUS/Community >> [copy] Copying 4 files to /home/brcgusts/GUS/gus_home/bin >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community >> [copy] Copying 10 files to >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community >> [copy] Copying 2 files to /home/brcgusts/GUS/gus_home/lib/java >> [mkdir] Created dir: >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community/Plugin >> [copy] Copying 41 files to >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community/Plugin >> [copy] Copying 10 files to /home/brcgusts/GUS/gus_home/config >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/GUS/Community >> [copy] Copying 7 files to /home/brcgusts/GUS/gus_home/doc/GUS/Community >> [echo] . >> [echo] Installing GUS/DBAdmin >> [copy] Copying 8 files to /home/brcgusts/GUS/gus_home/bin >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/DBAdmin >> [copy] Copying 6 files to >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/DBAdmin >> [copy] Copying 5 files to /home/brcgusts/GUS/gus_home/lib/java >> [jar] Building jar: >> /home/brcgusts/GUS/gus_home/lib/java/GUS-DBAdmin.jar >> [echo] . >> [echo] Installing GUS/GOPredict >> [copy] Copying 3 files to /home/brcgusts/GUS/gus_home/bin >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict >> [copy] Copying 20 files to >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict >> [mkdir] Created dir: >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict/Plugin >> [copy] Copying 8 files to >> /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict/Plugin >> [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/GUS/GOPredict >> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/doc/GUS/GOPredict >> [jar] Building jar: >> /home/brcgusts/GUS/gus_home/lib/java/GUS-GOPredict.jar >> [echo] . >> [echo] Installing GUS/Schema >> [jar] Building jar: >> /home/brcgusts/GUS/gus_home/lib/java/GUS-Schema.jar >> [InstallSchema] Jun 27, 2005 9:37:13 AM >> org.gusdb.schema.InstallSchemaTask execute >> [InstallSchema] INFO: Reading database from >> /home/brcgusts/GUS/project_home/GUS/Schema/gus_schema.xml >> [InstallSchema] Jun 27, 2005 9:37:13 AM >> org.gusdb.dbadmin.reader.SchemaReader doRead >> [InstallSchema] INFO: Reading Database >> [InstallSchema] Jun 27, 2005 9:37:13 AM >> org.apache.commons.digester.Digester startElement >> [InstallSchema] SEVERE: Begin event threw error >> [InstallSchema] java.lang.NoClassDefFoundError: >> org/apache/commons/logging/LogFactory >> [InstallSchema] at >> > org.apache.commons.beanutils.ConvertUtilsBean.<init>(ConvertUtilsBean.java:130> > ) >> [InstallSchema] at >> org.apache.commons.beanutils.BeanUtilsBean.<init>(BeanUtilsBean.java:110) >> [InstallSchema] at >> org.apache.commons.beanutils.BeanUtilsBean$1.initialValue(BeanUtilsBean.java:6 >> 8) >> [InstallSchema] at >> org.apache.commons.beanutils.ContextClassLoaderLocal.get(ContextClassLoaderLoc >> al.java:80) >> [InstallSchema] at >> org.apache.commons.beanutils.BeanUtilsBean.getInstance(BeanUtilsBean.java:78) >> [InstallSchema] at >> org.apache.commons.beanutils.BeanUtils.populate(BeanUtils.java:298) >> [InstallSchema] at >> > org.apache.commons.digester.SetPropertiesRule.begin(SetPropertiesRule.java:217> > ) >> [InstallSchema] at >> org.apache.commons.digester.Rule.begin(Rule.java:152) >> [InstallSchema] at >> org.apache.commons.digester.Digester.startElement(Digester.java:1286) >> [InstallSchema] at >> org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown Source) >> [InstallSchema] at >> org.apache.xerces.impl.dtd.XMLDTDValidator.startElement(Unknown Source) >> [InstallSchema] at >> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(Unknown >> Source) >> [InstallSchema] at >> org.apache.xerces.impl.XMLDocumentScannerImpl$ContentDispatcher.scanRootElemen >> tHook(Unknown >> Source) >> [InstallSchema] at >> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDispatche >> r.dispatch(Unknown >> Source) >> [InstallSchema] at >> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown >> Source) >> [InstallSchema] at >> org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) >> [InstallSchema] at >> org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) >> [InstallSchema] at >> org.apache.xerces.parsers.XMLParser.parse(Unknown Source) >> [InstallSchema] at >> org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source) >> [InstallSchema] at >> org.apache.commons.digester.Digester.parse(Digester.java:1591) >> [InstallSchema] at >> org.gusdb.dbadmin.reader.XMLReader.readDatabase(XMLReader.java:43) >> [InstallSchema] at >> org.gusdb.dbadmin.reader.SchemaReader.doRead(SchemaReader.java:50) >> [InstallSchema] at >> org.gusdb.dbadmin.reader.SchemaReader.read(SchemaReader.java:38) >> [InstallSchema] at >> org.gusdb.schema.InstallSchemaTask.execute(InstallSchemaTask.java:89) >> [InstallSchema] at >> org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) >> [InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364) >> [InstallSchema] at >> org.apache.tools.ant.Target.execute(Target.java:341) >> [InstallSchema] at >> org.apache.tools.ant.Target.performTasks(Target.java:369) >> [InstallSchema] at >> org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) >> [InstallSchema] at >> org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExec >> utor.java:37) >> [InstallSchema] at >> org.apache.tools.ant.Project.executeTargets(Project.java:1068) >> [InstallSchema] at >> org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:382) >> [InstallSchema] at >> org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) >> [InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364) >> [InstallSchema] at >> org.apache.tools.ant.Target.execute(Target.java:341) >> [InstallSchema] at >> org.apache.tools.ant.Target.performTasks(Target.java:369) >> [InstallSchema] at >> org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) >> [InstallSchema] at >> org.apache.tools.ant.Project.executeTarget(Project.java:1185) >> [InstallSchema] at >> org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.jav >> a:40) >> [InstallSchema] at >> org.apache.tools.ant.Project.executeTargets(Project.java:1068) >> [InstallSchema] at org.apache.tools.ant.Main.runBuild(Main.java:668) >> [InstallSchema] at org.apache.tools.ant.Main.startAnt(Main.java:187) >> [InstallSchema] at >> org.apache.tools.ant.launch.Launcher.run(Launcher.java:246) >> [InstallSchema] at >> org.apache.tools.ant.launch.Launcher.main(Launcher.java:67) >> >> BUILD FAILED >> /home/brcgusts/GUS/project_home/install/build.xml:28: The following >> error occurred while executing this line: >> java.lang.NoClassDefFoundError: org/apache/commons/logging/LogFactory >> >> Total time: 7 seconds >> >> Haiming Wang wrote: >> >>> On Mon, 2005-06-27 at 11:07, Jian Lu wrote: >>> >>> >>>> Here is my system env. >>>> >>>> ANT_HOME=/home/gmod/gus/all_software/apache-ant >>>> PROJECT_HOME=/home/brcgusts/GUS/project_home >>>> JAVA_HOME=/usr/lib/java >>>> CLASSPATH=$GUS_HOME/gus_home/lib/java >>>> >>>> >>> >>> Please comment 'CLASSPATH=$GUS_HOME/gus_home/lib/java' out and rehash >>> .bashrc (or .profile...) and give it a try. >>> >>> -Haiming >>> >>> >>> >>>> $java -version >>>> java version "1.4.2_04" >>>> Java(TM) 2 Runtime Environment, Standard Edition (build 1.4.2_04-b05) >>>> Java HotSpot(TM) Client VM (build 1.4.2_04-b05, mixed mode) >>>> >>>> apache-ant: 1.6.4 >>>> >>>> Could you let me know your system env? >>>> >>>> Thanks. >>>> >>>> Jian >>>> >>>> Haiming Wang wrote: >>>> >>>> >>>>> I am guessing that although you have commons logging in your compile >>>>> classpath it isn't in your runtime. Please check both Java and Ant >>>>> version, especially Ant (1.6.1 or above). >>>>> >>>>> Also, echo $CLASSPATH to see if there are other commons-logging.jar >>>>> before the GUS's commons-logging.jar. >>>>> >>>>> I hope this is helpful. >>>>> >>>>> -Haiming >>>>> >>>>> >>>>> >>>>> On Sun, 2005-06-26 at 16:19, Jian Lu wrote: >>>>> >>>>> >>>>> >>>>>> Hi Mike, >>>>>> The commons-logging.jar is in my $GUS_HOME/lib/java. >>>>>> Jian >>>>>> >>>>>> Michael Saffitz wrote: >>>>>> >>>>>> >>>>>> >>>>>>> Hi Jian, >>>>>>> >>>>>>> Can you confirm that the commons-logging.jar is in your >>>>>>> $GUS_HOME/lib/java >>>>>>> (it should have been installed from $PROJECT_HOME/GUS/DBAdmin/lib/java/ >>>>>>> >>>>>>> Thanks, >>>>>>> >>>>>>> Mike >>>>>>> >>>>>>> On 6/25/05 5:02 PM, "Jian Lu" <jl...@vb...> wrote: >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>>> I downloaded the official release, followed the installation >>>>>>>> instruction >>>>>>>> and failed to install. Please advise. Thank you. >>>>>>>> >>>>>>>> build GUS install -append -installDBSchema >>>>>>>> [WritePropertyFiles] Jun 25, 2005 3:02:40 PM >>>>>>>> org.gusdb.install.WritePropertyFileTask writeInstallProp >>>>>>>> [WritePropertyFiles] INFO: Recreating install.prop file >>>>>>>> [WritePropertyFiles] Jun 25, 2005 3:02:40 PM >>>>>>>> org.gusdb.install.WritePropertyFileTask writePluginProp >>>>>>>> [WritePropertyFiles] INFO: Recreating GUS-PluginMgr.prop file >>>>>>>> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >>>>>>>> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >>>>>>>> [echo] . >>>>>>>> [echo] Installing CBIL/Bio >>>>>>>> [echo] . >>>>>>>> [echo] Installing CBIL/CSP >>>>>>>> [echo] . >>>>>>>> [echo] Installing CBIL/Util >>>>>>>> [echo] . >>>>>>>> [echo] Installing CBIL/HQ >>>>>>>> [echo] . >>>>>>>> [echo] Installing CBIL/ObjectMapper >>>>>>>> [concat] No existing files and no nested text, doing nothing >>>>>>>> [echo] . >>>>>>>> [echo] Installing GUS/Supported >>>>>>>> [echo] . >>>>>>>> [echo] Installing GUS/Community >>>>>>>> [echo] . >>>>>>>> [echo] Installing GUS/DBAdmin >>>>>>>> [echo] . >>>>>>>> [echo] Installing GUS/GOPredict >>>>>>>> [echo] . >>>>>>>> [echo] Installing GUS/Schema >>>>>>>> [InstallSchema] Jun 25, 2005 3:02:46 PM >>>>>>>> org.gusdb.schema.InstallSchemaTask execute >>>>>>>> [InstallSchema] INFO: Reading database from >>>>>>>> /home/brcgusts/GUS/project_home/GUS/Schema/gus_schema.xml >>>>>>>> [InstallSchema] Jun 25, 2005 3:02:46 PM >>>>>>>> org.gusdb.dbadmin.reader.SchemaReader doRead >>>>>>>> [InstallSchema] INFO: Reading Database >>>>>>>> [InstallSchema] Jun 25, 2005 3:02:46 PM >>>>>>>> org.apache.commons.digester.Digester startElement >>>>>>>> [InstallSchema] SEVERE: Begin event threw error >>>>>>>> [InstallSchema] java.lang.NoClassDefFoundError: >>>>>>>> org/apache/commons/logging/LogFactory >>>>>>>> [InstallSchema] at >>>>>>>> >>>>>>>> >>>>>>>> >>>>>>>> >>>>>>>> >>>>>>> org.apache.commons.beanutils.ConvertUtilsBean.<init>(ConvertUtilsBean.jav >>>>>>> a:130> >>>>>>> ) >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>>> [InstallSchema] at >>>>>>>> > org.apache.commons.beanutils.BeanUtilsBean.<init>(BeanUtilsBean.java:110>>>>>>> > ) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.commons.beanutils.BeanUtilsBean$1.initialValue(BeanUtilsBean. >>>>>>>> java:6 >>>>>>>> 8) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.commons.beanutils.ContextClassLoaderLocal.get(ContextClassLoa >>>>>>>> derLoc >>>>>>>> al.java:80) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.commons.beanutils.BeanUtilsBean.getInstance(BeanUtilsBean.jav >>>>>>>> a:78) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.commons.beanutils.BeanUtils.populate(BeanUtils.java:298) >>>>>>>> [InstallSchema] at >>>>>>>> >>>>>>>> >>>>>>>> >>>>>>>> >>>>>>>> >>>>>>> org.apache.commons.digester.SetPropertiesRule.begin(SetPropertiesRule.jav >>>>>>> a:217> >>>>>>> ) >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.commons.digester.Rule.begin(Rule.java:152) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.commons.digester.Digester.startElement(Digester.java:1286) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown >>>>>>>> Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.impl.dtd.XMLDTDValidator.startElement(Unknown >>>>>>>> Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(U >>>>>>>> nknown >>>>>>>> Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.impl.XMLDocumentScannerImpl$ContentDispatcher.scanRoot >>>>>>>> Elemen >>>>>>>> tHook(Unknown >>>>>>>> Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDis >>>>>>>> patche >>>>>>>> r.dispatch(Unknown >>>>>>>> Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unkno >>>>>>>> wn >>>>>>>> Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.parsers.XMLParser.parse(Unknown Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.commons.digester.Digester.parse(Digester.java:1591) >>>>>>>> [InstallSchema] at >>>>>>>> org.gusdb.dbadmin.reader.XMLReader.readDatabase(XMLReader.java:43) >>>>>>>> [InstallSchema] at >>>>>>>> org.gusdb.dbadmin.reader.SchemaReader.doRead(SchemaReader.java:50) >>>>>>>> [InstallSchema] at >>>>>>>> org.gusdb.dbadmin.reader.SchemaReader.read(SchemaReader.java:38) >>>>>>>> [InstallSchema] at >>>>>>>> org.gusdb.schema.InstallSchemaTask.execute(InstallSchemaTask.java:89) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Task.perform(Task.java:364) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Target.execute(Target.java:341) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Target.performTasks(Target.java:369) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleChe >>>>>>>> ckExec >>>>>>>> utor.java:37) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Project.executeTargets(Project.java:1068) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:382) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Task.perform(Task.java:364) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Target.execute(Target.java:341) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Target.performTasks(Target.java:369) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Project.executeTarget(Project.java:1185) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecut >>>>>>>> or.jav >>>>>>>> a:40) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Project.executeTargets(Project.java:1068) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Main.runBuild(Main.java:668) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.Main.startAnt(Main.java:187) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.launch.Launcher.run(Launcher.java:246) >>>>>>>> [InstallSchema] at >>>>>>>> org.apache.tools.ant.launch.Launcher.main(Launcher.java:67) >>>>>>>> >>>>>>>> BUILD FAILED >>>>>>>> /home/brcgusts/GUS/project_home/install/build.xml:28: The following >>>>>>>> error occurred while executing this line: >>>>>>>> java.lang.NoClassDefFoundError: org/apache/commons/logging/LogFactory >>>>>>>> >>>>>>>> Total time: 6 seconds >>>>>>>> >>>>>>>> >>>>>>>> >>>>>>>> >>>>>>>> >>>>>>> ------------------------------------------------------- >>>>>>> SF.Net email is sponsored by: Discover Easy Linux Migration Strategies >>>>>>> from IBM. Find simple to follow Roadmaps, straightforward articles, >>>>>>> informative Webcasts and more! Get everything you need to get up to >>>>>>> speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click >>>>>>> _______________________________________________ >>>>>>> Gusdev-gusdev mailing list >>>>>>> Gus...@li... >>>>>>> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>> ------------------------------------------------------- >>>>> SF.Net email is sponsored by: Discover Easy Linux Migration Strategies >>>>> from IBM. Find simple to follow Roadmaps, straightforward articles, >>>>> informative Webcasts and more! Get everything you need to get up to >>>>> speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click >>>>> _______________________________________________ >>>>> Gusdev-gusdev mailing list >>>>> Gus...@li... >>>>> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev >>>>> >>>>> >>>>> >> > > > > > ------------------------------------------------------- > SF.Net email is sponsored by: Discover Easy Linux Migration Strategies > from IBM. Find simple to follow Roadmaps, straightforward articles, > informative Webcasts and more! Get everything you need to get up to > speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click > _______________________________________________ > Gusdev-gusdev mailing list > Gus...@li... > https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev > |
|
From: Michael S. <msa...@pc...> - 2005-06-27 15:51:19
|
The strange thing about this is that it appears the BeanUtils libraries are generating the error, not the GUS code that also uses commons-logging. I think Haiming's observation is on the right path: there is either an existing beanutils that's not compatible with the current commons-logging or vice versa. --Mike On 6/27/05 11:36 AM, "Jian Lu" <jl...@vb...> wrote: > Commented CLASSPATH and ran again. No luck. > > $ build GUS install -append -installDBSchema > [WritePropertyFiles] Jun 27, 2005 9:37:06 AM > org.gusdb.install.WritePropertyFileTask writeGusProp > [WritePropertyFiles] INFO: Skipping creation of GUS_CONFIG_FILE > /home/brcgusts/GUS/.gus.properties -- already exists > [WritePropertyFiles] Jun 27, 2005 9:37:06 AM > org.gusdb.install.WritePropertyFileTask writeInstallProp > [WritePropertyFiles] INFO: Recreating install.prop file > [WritePropertyFiles] Jun 27, 2005 9:37:06 AM > org.gusdb.install.WritePropertyFileTask writePluginProp > [WritePropertyFiles] INFO: Recreating GUS-PluginMgr.prop file > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config > [echo] . > [echo] Installing CBIL/Bio > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/bin > [copy] Copying 5 files to /home/brcgusts/GUS/gus_home/bin > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Bio > [copy] Copying 66 files to > /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Bio > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/test/CBIL/Bio > [copy] Copying 4 files to /home/brcgusts/GUS/gus_home/test/CBIL/Bio > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/data/CBIL/Bio > [copy] Copying 9 files to /home/brcgusts/GUS/gus_home/data/CBIL/Bio > [echo] . > [echo] Installing CBIL/CSP > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/bin > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/CSP > [copy] Copying 11 files to > /home/brcgusts/GUS/gus_home/lib/perl/CBIL/CSP > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/java > [copy] Copying 2 files to /home/brcgusts/GUS/gus_home/lib/java > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/CBIL/CSP > [copy] Copying 10 files to /home/brcgusts/GUS/gus_home/doc/CBIL/CSP > [jar] Building jar: /home/brcgusts/GUS/gus_home/lib/java/CBIL-CSP.jar > [echo] . > [echo] Installing CBIL/Util > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Util > [copy] Copying 8 files to > /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Util > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/CBIL/Util > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/doc/CBIL/Util > [echo] . > [echo] Installing CBIL/HQ > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/bin > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/HQ > [copy] Copying 3 files to /home/brcgusts/GUS/gus_home/lib/perl/CBIL/HQ > [echo] . > [echo] Installing CBIL/ObjectMapper > [mkdir] Created dir: > /home/brcgusts/GUS/gus_home/lib/perl/CBIL/ObjectMapper > [copy] Copying 7 files to > /home/brcgusts/GUS/gus_home/lib/perl/CBIL/ObjectMapper > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/CBIL/ObjectMapper > [copy] Copying 1 file to > /home/brcgusts/GUS/gus_home/doc/CBIL/ObjectMapper > [concat] No existing files and no nested text, doing nothing > [echo] . > [echo] Installing GUS/Supported > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/bin > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported > [copy] Copying 2 files to > /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported > [mkdir] Created dir: > /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported/Plugin > [copy] Copying 19 files to > /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported/Plugin > [copy] Copying 2 files to /home/brcgusts/GUS/gus_home/config > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/GUS/Supported > [copy] Copying 5 files to /home/brcgusts/GUS/gus_home/doc/GUS/Supported > [echo] . > [echo] Installing GUS/Community > [copy] Copying 4 files to /home/brcgusts/GUS/gus_home/bin > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community > [copy] Copying 10 files to > /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community > [copy] Copying 2 files to /home/brcgusts/GUS/gus_home/lib/java > [mkdir] Created dir: > /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community/Plugin > [copy] Copying 41 files to > /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community/Plugin > [copy] Copying 10 files to /home/brcgusts/GUS/gus_home/config > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/GUS/Community > [copy] Copying 7 files to /home/brcgusts/GUS/gus_home/doc/GUS/Community > [echo] . > [echo] Installing GUS/DBAdmin > [copy] Copying 8 files to /home/brcgusts/GUS/gus_home/bin > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/DBAdmin > [copy] Copying 6 files to > /home/brcgusts/GUS/gus_home/lib/perl/GUS/DBAdmin > [copy] Copying 5 files to /home/brcgusts/GUS/gus_home/lib/java > [jar] Building jar: > /home/brcgusts/GUS/gus_home/lib/java/GUS-DBAdmin.jar > [echo] . > [echo] Installing GUS/GOPredict > [copy] Copying 3 files to /home/brcgusts/GUS/gus_home/bin > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict > [copy] Copying 20 files to > /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict > [mkdir] Created dir: > /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict/Plugin > [copy] Copying 8 files to > /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict/Plugin > [mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/GUS/GOPredict > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/doc/GUS/GOPredict > [jar] Building jar: > /home/brcgusts/GUS/gus_home/lib/java/GUS-GOPredict.jar > [echo] . > [echo] Installing GUS/Schema > [jar] Building jar: > /home/brcgusts/GUS/gus_home/lib/java/GUS-Schema.jar > [InstallSchema] Jun 27, 2005 9:37:13 AM > org.gusdb.schema.InstallSchemaTask execute > [InstallSchema] INFO: Reading database from > /home/brcgusts/GUS/project_home/GUS/Schema/gus_schema.xml > [InstallSchema] Jun 27, 2005 9:37:13 AM > org.gusdb.dbadmin.reader.SchemaReader doRead > [InstallSchema] INFO: Reading Database > [InstallSchema] Jun 27, 2005 9:37:13 AM > org.apache.commons.digester.Digester startElement > [InstallSchema] SEVERE: Begin event threw error > [InstallSchema] java.lang.NoClassDefFoundError: > org/apache/commons/logging/LogFactory > [InstallSchema] at > org.apache.commons.beanutils.ConvertUtilsBean.<init>(ConvertUtilsBean.java:130> ) > [InstallSchema] at > org.apache.commons.beanutils.BeanUtilsBean.<init>(BeanUtilsBean.java:110) > [InstallSchema] at > org.apache.commons.beanutils.BeanUtilsBean$1.initialValue(BeanUtilsBean.java:6 > 8) > [InstallSchema] at > org.apache.commons.beanutils.ContextClassLoaderLocal.get(ContextClassLoaderLoc > al.java:80) > [InstallSchema] at > org.apache.commons.beanutils.BeanUtilsBean.getInstance(BeanUtilsBean.java:78) > [InstallSchema] at > org.apache.commons.beanutils.BeanUtils.populate(BeanUtils.java:298) > [InstallSchema] at > org.apache.commons.digester.SetPropertiesRule.begin(SetPropertiesRule.java:217> ) > [InstallSchema] at > org.apache.commons.digester.Rule.begin(Rule.java:152) > [InstallSchema] at > org.apache.commons.digester.Digester.startElement(Digester.java:1286) > [InstallSchema] at > org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown Source) > [InstallSchema] at > org.apache.xerces.impl.dtd.XMLDTDValidator.startElement(Unknown Source) > [InstallSchema] at > org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(Unknown > Source) > [InstallSchema] at > org.apache.xerces.impl.XMLDocumentScannerImpl$ContentDispatcher.scanRootElemen > tHook(Unknown > Source) > [InstallSchema] at > org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDispatche > r.dispatch(Unknown > Source) > [InstallSchema] at > org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown > Source) > [InstallSchema] at > org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) > [InstallSchema] at > org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) > [InstallSchema] at > org.apache.xerces.parsers.XMLParser.parse(Unknown Source) > [InstallSchema] at > org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source) > [InstallSchema] at > org.apache.commons.digester.Digester.parse(Digester.java:1591) > [InstallSchema] at > org.gusdb.dbadmin.reader.XMLReader.readDatabase(XMLReader.java:43) > [InstallSchema] at > org.gusdb.dbadmin.reader.SchemaReader.doRead(SchemaReader.java:50) > [InstallSchema] at > org.gusdb.dbadmin.reader.SchemaReader.read(SchemaReader.java:38) > [InstallSchema] at > org.gusdb.schema.InstallSchemaTask.execute(InstallSchemaTask.java:89) > [InstallSchema] at > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) > [InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364) > [InstallSchema] at > org.apache.tools.ant.Target.execute(Target.java:341) > [InstallSchema] at > org.apache.tools.ant.Target.performTasks(Target.java:369) > [InstallSchema] at > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) > [InstallSchema] at > org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExec > utor.java:37) > [InstallSchema] at > org.apache.tools.ant.Project.executeTargets(Project.java:1068) > [InstallSchema] at > org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:382) > [InstallSchema] at > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) > [InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364) > [InstallSchema] at > org.apache.tools.ant.Target.execute(Target.java:341) > [InstallSchema] at > org.apache.tools.ant.Target.performTasks(Target.java:369) > [InstallSchema] at > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) > [InstallSchema] at > org.apache.tools.ant.Project.executeTarget(Project.java:1185) > [InstallSchema] at > org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.jav > a:40) > [InstallSchema] at > org.apache.tools.ant.Project.executeTargets(Project.java:1068) > [InstallSchema] at org.apache.tools.ant.Main.runBuild(Main.java:668) > [InstallSchema] at org.apache.tools.ant.Main.startAnt(Main.java:187) > [InstallSchema] at > org.apache.tools.ant.launch.Launcher.run(Launcher.java:246) > [InstallSchema] at > org.apache.tools.ant.launch.Launcher.main(Launcher.java:67) > > BUILD FAILED > /home/brcgusts/GUS/project_home/install/build.xml:28: The following > error occurred while executing this line: > java.lang.NoClassDefFoundError: org/apache/commons/logging/LogFactory > > Total time: 7 seconds > > Haiming Wang wrote: > >> On Mon, 2005-06-27 at 11:07, Jian Lu wrote: >> >> >>> Here is my system env. >>> >>> ANT_HOME=/home/gmod/gus/all_software/apache-ant >>> PROJECT_HOME=/home/brcgusts/GUS/project_home >>> JAVA_HOME=/usr/lib/java >>> CLASSPATH=$GUS_HOME/gus_home/lib/java >>> >>> >> >> Please comment 'CLASSPATH=$GUS_HOME/gus_home/lib/java' out and rehash >> .bashrc (or .profile...) and give it a try. >> >> -Haiming >> >> >> >>> $java -version >>> java version "1.4.2_04" >>> Java(TM) 2 Runtime Environment, Standard Edition (build 1.4.2_04-b05) >>> Java HotSpot(TM) Client VM (build 1.4.2_04-b05, mixed mode) >>> >>> apache-ant: 1.6.4 >>> >>> Could you let me know your system env? >>> >>> Thanks. >>> >>> Jian >>> >>> Haiming Wang wrote: >>> >>> >>>> I am guessing that although you have commons logging in your compile >>>> classpath it isn't in your runtime. Please check both Java and Ant >>>> version, especially Ant (1.6.1 or above). >>>> >>>> Also, echo $CLASSPATH to see if there are other commons-logging.jar >>>> before the GUS's commons-logging.jar. >>>> >>>> I hope this is helpful. >>>> >>>> -Haiming >>>> >>>> >>>> >>>> On Sun, 2005-06-26 at 16:19, Jian Lu wrote: >>>> >>>> >>>> >>>>> Hi Mike, >>>>> The commons-logging.jar is in my $GUS_HOME/lib/java. >>>>> Jian >>>>> >>>>> Michael Saffitz wrote: >>>>> >>>>> >>>>> >>>>>> Hi Jian, >>>>>> >>>>>> Can you confirm that the commons-logging.jar is in your >>>>>> $GUS_HOME/lib/java >>>>>> (it should have been installed from $PROJECT_HOME/GUS/DBAdmin/lib/java/ >>>>>> >>>>>> Thanks, >>>>>> >>>>>> Mike >>>>>> >>>>>> On 6/25/05 5:02 PM, "Jian Lu" <jl...@vb...> wrote: >>>>>> >>>>>> >>>>>> >>>>>> >>>>>> >>>>>>> I downloaded the official release, followed the installation instruction >>>>>>> and failed to install. Please advise. Thank you. >>>>>>> >>>>>>> build GUS install -append -installDBSchema >>>>>>> [WritePropertyFiles] Jun 25, 2005 3:02:40 PM >>>>>>> org.gusdb.install.WritePropertyFileTask writeInstallProp >>>>>>> [WritePropertyFiles] INFO: Recreating install.prop file >>>>>>> [WritePropertyFiles] Jun 25, 2005 3:02:40 PM >>>>>>> org.gusdb.install.WritePropertyFileTask writePluginProp >>>>>>> [WritePropertyFiles] INFO: Recreating GUS-PluginMgr.prop file >>>>>>> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >>>>>>> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >>>>>>> [echo] . >>>>>>> [echo] Installing CBIL/Bio >>>>>>> [echo] . >>>>>>> [echo] Installing CBIL/CSP >>>>>>> [echo] . >>>>>>> [echo] Installing CBIL/Util >>>>>>> [echo] . >>>>>>> [echo] Installing CBIL/HQ >>>>>>> [echo] . >>>>>>> [echo] Installing CBIL/ObjectMapper >>>>>>> [concat] No existing files and no nested text, doing nothing >>>>>>> [echo] . >>>>>>> [echo] Installing GUS/Supported >>>>>>> [echo] . >>>>>>> [echo] Installing GUS/Community >>>>>>> [echo] . >>>>>>> [echo] Installing GUS/DBAdmin >>>>>>> [echo] . >>>>>>> [echo] Installing GUS/GOPredict >>>>>>> [echo] . >>>>>>> [echo] Installing GUS/Schema >>>>>>> [InstallSchema] Jun 25, 2005 3:02:46 PM >>>>>>> org.gusdb.schema.InstallSchemaTask execute >>>>>>> [InstallSchema] INFO: Reading database from >>>>>>> /home/brcgusts/GUS/project_home/GUS/Schema/gus_schema.xml >>>>>>> [InstallSchema] Jun 25, 2005 3:02:46 PM >>>>>>> org.gusdb.dbadmin.reader.SchemaReader doRead >>>>>>> [InstallSchema] INFO: Reading Database >>>>>>> [InstallSchema] Jun 25, 2005 3:02:46 PM >>>>>>> org.apache.commons.digester.Digester startElement >>>>>>> [InstallSchema] SEVERE: Begin event threw error >>>>>>> [InstallSchema] java.lang.NoClassDefFoundError: >>>>>>> org/apache/commons/logging/LogFactory >>>>>>> [InstallSchema] at >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>> org.apache.commons.beanutils.ConvertUtilsBean.<init>(ConvertUtilsBean.jav >>>>>> a:130> >>>>>> ) >>>>>> >>>>>> >>>>>> >>>>>> >>>>>>> [InstallSchema] at >>>>>>> org.apache.commons.beanutils.BeanUtilsBean.<init>(BeanUtilsBean.java:110>>>>>>> ) >>>>>>> [InstallSchema] at >>>>>>> org.apache.commons.beanutils.BeanUtilsBean$1.initialValue(BeanUtilsBean. >>>>>>> java:6 >>>>>>> 8) >>>>>>> [InstallSchema] at >>>>>>> org.apache.commons.beanutils.ContextClassLoaderLocal.get(ContextClassLoa >>>>>>> derLoc >>>>>>> al.java:80) >>>>>>> [InstallSchema] at >>>>>>> org.apache.commons.beanutils.BeanUtilsBean.getInstance(BeanUtilsBean.jav >>>>>>> a:78) >>>>>>> [InstallSchema] at >>>>>>> org.apache.commons.beanutils.BeanUtils.populate(BeanUtils.java:298) >>>>>>> [InstallSchema] at >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>> org.apache.commons.digester.SetPropertiesRule.begin(SetPropertiesRule.jav >>>>>> a:217> >>>>>> ) >>>>>> >>>>>> >>>>>> >>>>>> >>>>>>> [InstallSchema] at >>>>>>> org.apache.commons.digester.Rule.begin(Rule.java:152) >>>>>>> [InstallSchema] at >>>>>>> org.apache.commons.digester.Digester.startElement(Digester.java:1286) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.impl.dtd.XMLDTDValidator.startElement(Unknown Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(U >>>>>>> nknown >>>>>>> Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.impl.XMLDocumentScannerImpl$ContentDispatcher.scanRoot >>>>>>> Elemen >>>>>>> tHook(Unknown >>>>>>> Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDis >>>>>>> patche >>>>>>> r.dispatch(Unknown >>>>>>> Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unkno >>>>>>> wn >>>>>>> Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.parsers.XMLParser.parse(Unknown Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source) >>>>>>> [InstallSchema] at >>>>>>> org.apache.commons.digester.Digester.parse(Digester.java:1591) >>>>>>> [InstallSchema] at >>>>>>> org.gusdb.dbadmin.reader.XMLReader.readDatabase(XMLReader.java:43) >>>>>>> [InstallSchema] at >>>>>>> org.gusdb.dbadmin.reader.SchemaReader.doRead(SchemaReader.java:50) >>>>>>> [InstallSchema] at >>>>>>> org.gusdb.dbadmin.reader.SchemaReader.read(SchemaReader.java:38) >>>>>>> [InstallSchema] at >>>>>>> org.gusdb.schema.InstallSchemaTask.execute(InstallSchemaTask.java:89) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Task.perform(Task.java:364) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Target.execute(Target.java:341) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Target.performTasks(Target.java:369) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleChe >>>>>>> ckExec >>>>>>> utor.java:37) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Project.executeTargets(Project.java:1068) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:382) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Task.perform(Task.java:364) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Target.execute(Target.java:341) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Target.performTasks(Target.java:369) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Project.executeTarget(Project.java:1185) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecut >>>>>>> or.jav >>>>>>> a:40) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Project.executeTargets(Project.java:1068) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Main.runBuild(Main.java:668) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.Main.startAnt(Main.java:187) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.launch.Launcher.run(Launcher.java:246) >>>>>>> [InstallSchema] at >>>>>>> org.apache.tools.ant.launch.Launcher.main(Launcher.java:67) >>>>>>> >>>>>>> BUILD FAILED >>>>>>> /home/brcgusts/GUS/project_home/install/build.xml:28: The following >>>>>>> error occurred while executing this line: >>>>>>> java.lang.NoClassDefFoundError: org/apache/commons/logging/LogFactory >>>>>>> >>>>>>> Total time: 6 seconds >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>> ------------------------------------------------------- >>>>>> SF.Net email is sponsored by: Discover Easy Linux Migration Strategies >>>>>> from IBM. Find simple to follow Roadmaps, straightforward articles, >>>>>> informative Webcasts and more! Get everything you need to get up to >>>>>> speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click >>>>>> _______________________________________________ >>>>>> Gusdev-gusdev mailing list >>>>>> Gus...@li... >>>>>> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev >>>>>> >>>>>> >>>>>> >>>>>> >>>> ------------------------------------------------------- >>>> SF.Net email is sponsored by: Discover Easy Linux Migration Strategies >>>> from IBM. Find simple to follow Roadmaps, straightforward articles, >>>> informative Webcasts and more! Get everything you need to get up to >>>> speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click >>>> _______________________________________________ >>>> Gusdev-gusdev mailing list >>>> Gus...@li... >>>> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev >>>> >>>> >>>> > |
|
From: Haiming W. <hw...@ug...> - 2005-06-27 15:40:09
|
GUS 3.5 installation was running very smoothly during my test. It took about 30 minutes and most of time is spent in generating perl and java objects. Excellent works by the GUS team. I use ant 1.6.5, java 1.5.0. However, I think java 1.4.2 and ant 1.6.4 should work as well. I don't have $CLASSPATH in my environment variables. I suggest that either change it to 'CLASSPATH=.:$GUS_HOME/gus_home/lib/java' or comment out. -Haiming On Mon, 2005-06-27 at 11:07, Jian Lu wrote: > Here is my system env. > > ANT_HOME=/home/gmod/gus/all_software/apache-ant > PROJECT_HOME=/home/brcgusts/GUS/project_home > JAVA_HOME=/usr/lib/java > CLASSPATH=$GUS_HOME/gus_home/lib/java > > $java -version > java version "1.4.2_04" > Java(TM) 2 Runtime Environment, Standard Edition (build 1.4.2_04-b05) > Java HotSpot(TM) Client VM (build 1.4.2_04-b05, mixed mode) > > apache-ant: 1.6.4 > > Could you let me know your system env? > > Thanks. > > Jian > > Haiming Wang wrote: > > I am guessing that although you have commons logging in your compile > > classpath it isn't in your runtime. Please check both Java and Ant > > version, especially Ant (1.6.1 or above). > > > > Also, echo $CLASSPATH to see if there are other commons-logging.jar > > before the GUS's commons-logging.jar. > > > > I hope this is helpful. > > > > -Haiming > > > > > > > > On Sun, 2005-06-26 at 16:19, Jian Lu wrote: > > > > > Hi Mike, > > > The commons-logging.jar is in my $GUS_HOME/lib/java. > > > Jian > > > > > > Michael Saffitz wrote: > > > > > > > Hi Jian, > > > > > > > > Can you confirm that the commons-logging.jar is in your $GUS_HOME/lib/java > > > > (it should have been installed from $PROJECT_HOME/GUS/DBAdmin/lib/java/ > > > > > > > > Thanks, > > > > > > > > Mike > > > > > > > > On 6/25/05 5:02 PM, "Jian Lu" <jl...@vb...> wrote: > > > > > > > > > > > > > > > > > I downloaded the official release, followed the installation instruction > > > > > and failed to install. Please advise. Thank you. > > > > > > > > > > build GUS install -append -installDBSchema > > > > > [WritePropertyFiles] Jun 25, 2005 3:02:40 PM > > > > > org.gusdb.install.WritePropertyFileTask writeInstallProp > > > > > [WritePropertyFiles] INFO: Recreating install.prop file > > > > > [WritePropertyFiles] Jun 25, 2005 3:02:40 PM > > > > > org.gusdb.install.WritePropertyFileTask writePluginProp > > > > > [WritePropertyFiles] INFO: Recreating GUS-PluginMgr.prop file > > > > > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config > > > > > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config > > > > > [echo] . > > > > > [echo] Installing CBIL/Bio > > > > > [echo] . > > > > > [echo] Installing CBIL/CSP > > > > > [echo] . > > > > > [echo] Installing CBIL/Util > > > > > [echo] . > > > > > [echo] Installing CBIL/HQ > > > > > [echo] . > > > > > [echo] Installing CBIL/ObjectMapper > > > > > [concat] No existing files and no nested text, doing nothing > > > > > [echo] . > > > > > [echo] Installing GUS/Supported > > > > > [echo] . > > > > > [echo] Installing GUS/Community > > > > > [echo] . > > > > > [echo] Installing GUS/DBAdmin > > > > > [echo] . > > > > > [echo] Installing GUS/GOPredict > > > > > [echo] . > > > > > [echo] Installing GUS/Schema > > > > > [InstallSchema] Jun 25, 2005 3:02:46 PM > > > > > org.gusdb.schema.InstallSchemaTask execute > > > > > [InstallSchema] INFO: Reading database from > > > > > /home/brcgusts/GUS/project_home/GUS/Schema/gus_schema.xml > > > > > [InstallSchema] Jun 25, 2005 3:02:46 PM > > > > > org.gusdb.dbadmin.reader.SchemaReader doRead > > > > > [InstallSchema] INFO: Reading Database > > > > > [InstallSchema] Jun 25, 2005 3:02:46 PM > > > > > org.apache.commons.digester.Digester startElement > > > > > [InstallSchema] SEVERE: Begin event threw error > > > > > [InstallSchema] java.lang.NoClassDefFoundError: > > > > > org/apache/commons/logging/LogFactory > > > > > [InstallSchema] at > > > > > > > > > > > > > > > > > > > org.apache.commons.beanutils.ConvertUtilsBean.<init>(ConvertUtilsBean.java:130> > > > > ) > > > > > > > > > > > > > [InstallSchema] at > > > > > org.apache.commons.beanutils.BeanUtilsBean.<init>(BeanUtilsBean.java:110) > > > > > [InstallSchema] at > > > > > org.apache.commons.beanutils.BeanUtilsBean$1.initialValue(BeanUtilsBean.java:6 > > > > > 8) > > > > > [InstallSchema] at > > > > > org.apache.commons.beanutils.ContextClassLoaderLocal.get(ContextClassLoaderLoc > > > > > al.java:80) > > > > > [InstallSchema] at > > > > > org.apache.commons.beanutils.BeanUtilsBean.getInstance(BeanUtilsBean.java:78) > > > > > [InstallSchema] at > > > > > org.apache.commons.beanutils.BeanUtils.populate(BeanUtils.java:298) > > > > > [InstallSchema] at > > > > > > > > > > > > > > > > > > > org.apache.commons.digester.SetPropertiesRule.begin(SetPropertiesRule.java:217> > > > > ) > > > > > > > > > > > > > [InstallSchema] at > > > > > org.apache.commons.digester.Rule.begin(Rule.java:152) > > > > > [InstallSchema] at > > > > > org.apache.commons.digester.Digester.startElement(Digester.java:1286) > > > > > [InstallSchema] at > > > > > org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.impl.dtd.XMLDTDValidator.startElement(Unknown Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(Unknown > > > > > Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.impl.XMLDocumentScannerImpl$ContentDispatcher.scanRootElemen > > > > > tHook(Unknown > > > > > Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDispatche > > > > > r.dispatch(Unknown > > > > > Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown > > > > > Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.parsers.XMLParser.parse(Unknown Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source) > > > > > [InstallSchema] at > > > > > org.apache.commons.digester.Digester.parse(Digester.java:1591) > > > > > [InstallSchema] at > > > > > org.gusdb.dbadmin.reader.XMLReader.readDatabase(XMLReader.java:43) > > > > > [InstallSchema] at > > > > > org.gusdb.dbadmin.reader.SchemaReader.doRead(SchemaReader.java:50) > > > > > [InstallSchema] at > > > > > org.gusdb.dbadmin.reader.SchemaReader.read(SchemaReader.java:38) > > > > > [InstallSchema] at > > > > > org.gusdb.schema.InstallSchemaTask.execute(InstallSchemaTask.java:89) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) > > > > > [InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Target.execute(Target.java:341) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Target.performTasks(Target.java:369) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExec > > > > > utor.java:37) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Project.executeTargets(Project.java:1068) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:382) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) > > > > > [InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Target.execute(Target.java:341) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Target.performTasks(Target.java:369) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Project.executeTarget(Project.java:1185) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.jav > > > > > a:40) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Project.executeTargets(Project.java:1068) > > > > > [InstallSchema] at org.apache.tools.ant.Main.runBuild(Main.java:668) > > > > > [InstallSchema] at org.apache.tools.ant.Main.startAnt(Main.java:187) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.launch.Launcher.run(Launcher.java:246) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.launch.Launcher.main(Launcher.java:67) > > > > > > > > > > BUILD FAILED > > > > > /home/brcgusts/GUS/project_home/install/build.xml:28: The following > > > > > error occurred while executing this line: > > > > > java.lang.NoClassDefFoundError: org/apache/commons/logging/LogFactory > > > > > > > > > > Total time: 6 seconds > > > > > > > > > > > > > > > > > > > ------------------------------------------------------- > > > > SF.Net email is sponsored by: Discover Easy Linux Migration Strategies > > > > from IBM. Find simple to follow Roadmaps, straightforward articles, > > > > informative Webcasts and more! Get everything you need to get up to > > > > speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click > > > > _______________________________________________ > > > > Gusdev-gusdev mailing list > > > > Gus...@li... > > > > https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev > > > > > > > > > > > > > > ------------------------------------------------------- > > SF.Net email is sponsored by: Discover Easy Linux Migration Strategies > > from IBM. Find simple to follow Roadmaps, straightforward articles, > > informative Webcasts and more! Get everything you need to get up to > > speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click > > _______________________________________________ > > Gusdev-gusdev mailing list > > Gus...@li... > > https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev > > > |
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From: Jian Lu <jl...@vb...> - 2005-06-27 15:36:43
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Commented CLASSPATH and ran again. No luck.
$ build GUS install -append -installDBSchema
[WritePropertyFiles] Jun 27, 2005 9:37:06 AM
org.gusdb.install.WritePropertyFileTask writeGusProp
[WritePropertyFiles] INFO: Skipping creation of GUS_CONFIG_FILE
/home/brcgusts/GUS/.gus.properties -- already exists
[WritePropertyFiles] Jun 27, 2005 9:37:06 AM
org.gusdb.install.WritePropertyFileTask writeInstallProp
[WritePropertyFiles] INFO: Recreating install.prop file
[WritePropertyFiles] Jun 27, 2005 9:37:06 AM
org.gusdb.install.WritePropertyFileTask writePluginProp
[WritePropertyFiles] INFO: Recreating GUS-PluginMgr.prop file
[copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config
[copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config
[echo] .
[echo] Installing CBIL/Bio
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/bin
[copy] Copying 5 files to /home/brcgusts/GUS/gus_home/bin
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Bio
[copy] Copying 66 files to
/home/brcgusts/GUS/gus_home/lib/perl/CBIL/Bio
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/test/CBIL/Bio
[copy] Copying 4 files to /home/brcgusts/GUS/gus_home/test/CBIL/Bio
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/data/CBIL/Bio
[copy] Copying 9 files to /home/brcgusts/GUS/gus_home/data/CBIL/Bio
[echo] .
[echo] Installing CBIL/CSP
[copy] Copying 1 file to /home/brcgusts/GUS/gus_home/bin
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/CSP
[copy] Copying 11 files to
/home/brcgusts/GUS/gus_home/lib/perl/CBIL/CSP
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/java
[copy] Copying 2 files to /home/brcgusts/GUS/gus_home/lib/java
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/CBIL/CSP
[copy] Copying 10 files to /home/brcgusts/GUS/gus_home/doc/CBIL/CSP
[jar] Building jar: /home/brcgusts/GUS/gus_home/lib/java/CBIL-CSP.jar
[echo] .
[echo] Installing CBIL/Util
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/Util
[copy] Copying 8 files to
/home/brcgusts/GUS/gus_home/lib/perl/CBIL/Util
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/CBIL/Util
[copy] Copying 1 file to /home/brcgusts/GUS/gus_home/doc/CBIL/Util
[echo] .
[echo] Installing CBIL/HQ
[copy] Copying 1 file to /home/brcgusts/GUS/gus_home/bin
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/CBIL/HQ
[copy] Copying 3 files to /home/brcgusts/GUS/gus_home/lib/perl/CBIL/HQ
[echo] .
[echo] Installing CBIL/ObjectMapper
[mkdir] Created dir:
/home/brcgusts/GUS/gus_home/lib/perl/CBIL/ObjectMapper
[copy] Copying 7 files to
/home/brcgusts/GUS/gus_home/lib/perl/CBIL/ObjectMapper
[copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/CBIL/ObjectMapper
[copy] Copying 1 file to
/home/brcgusts/GUS/gus_home/doc/CBIL/ObjectMapper
[concat] No existing files and no nested text, doing nothing
[echo] .
[echo] Installing GUS/Supported
[copy] Copying 1 file to /home/brcgusts/GUS/gus_home/bin
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported
[copy] Copying 2 files to
/home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported
[mkdir] Created dir:
/home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported/Plugin
[copy] Copying 19 files to
/home/brcgusts/GUS/gus_home/lib/perl/GUS/Supported/Plugin
[copy] Copying 2 files to /home/brcgusts/GUS/gus_home/config
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/GUS/Supported
[copy] Copying 5 files to /home/brcgusts/GUS/gus_home/doc/GUS/Supported
[echo] .
[echo] Installing GUS/Community
[copy] Copying 4 files to /home/brcgusts/GUS/gus_home/bin
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/Community
[copy] Copying 10 files to
/home/brcgusts/GUS/gus_home/lib/perl/GUS/Community
[copy] Copying 2 files to /home/brcgusts/GUS/gus_home/lib/java
[mkdir] Created dir:
/home/brcgusts/GUS/gus_home/lib/perl/GUS/Community/Plugin
[copy] Copying 41 files to
/home/brcgusts/GUS/gus_home/lib/perl/GUS/Community/Plugin
[copy] Copying 10 files to /home/brcgusts/GUS/gus_home/config
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/GUS/Community
[copy] Copying 7 files to /home/brcgusts/GUS/gus_home/doc/GUS/Community
[echo] .
[echo] Installing GUS/DBAdmin
[copy] Copying 8 files to /home/brcgusts/GUS/gus_home/bin
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/DBAdmin
[copy] Copying 6 files to
/home/brcgusts/GUS/gus_home/lib/perl/GUS/DBAdmin
[copy] Copying 5 files to /home/brcgusts/GUS/gus_home/lib/java
[jar] Building jar:
/home/brcgusts/GUS/gus_home/lib/java/GUS-DBAdmin.jar
[echo] .
[echo] Installing GUS/GOPredict
[copy] Copying 3 files to /home/brcgusts/GUS/gus_home/bin
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict
[copy] Copying 20 files to
/home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict
[mkdir] Created dir:
/home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict/Plugin
[copy] Copying 8 files to
/home/brcgusts/GUS/gus_home/lib/perl/GUS/GOPredict/Plugin
[mkdir] Created dir: /home/brcgusts/GUS/gus_home/doc/GUS/GOPredict
[copy] Copying 1 file to /home/brcgusts/GUS/gus_home/doc/GUS/GOPredict
[jar] Building jar:
/home/brcgusts/GUS/gus_home/lib/java/GUS-GOPredict.jar
[echo] .
[echo] Installing GUS/Schema
[jar] Building jar:
/home/brcgusts/GUS/gus_home/lib/java/GUS-Schema.jar
[InstallSchema] Jun 27, 2005 9:37:13 AM
org.gusdb.schema.InstallSchemaTask execute
[InstallSchema] INFO: Reading database from
/home/brcgusts/GUS/project_home/GUS/Schema/gus_schema.xml
[InstallSchema] Jun 27, 2005 9:37:13 AM
org.gusdb.dbadmin.reader.SchemaReader doRead
[InstallSchema] INFO: Reading Database
[InstallSchema] Jun 27, 2005 9:37:13 AM
org.apache.commons.digester.Digester startElement
[InstallSchema] SEVERE: Begin event threw error
[InstallSchema] java.lang.NoClassDefFoundError:
org/apache/commons/logging/LogFactory
[InstallSchema] at
org.apache.commons.beanutils.ConvertUtilsBean.<init>(ConvertUtilsBean.java:130)
[InstallSchema] at
org.apache.commons.beanutils.BeanUtilsBean.<init>(BeanUtilsBean.java:110)
[InstallSchema] at
org.apache.commons.beanutils.BeanUtilsBean$1.initialValue(BeanUtilsBean.java:68)
[InstallSchema] at
org.apache.commons.beanutils.ContextClassLoaderLocal.get(ContextClassLoaderLocal.java:80)
[InstallSchema] at
org.apache.commons.beanutils.BeanUtilsBean.getInstance(BeanUtilsBean.java:78)
[InstallSchema] at
org.apache.commons.beanutils.BeanUtils.populate(BeanUtils.java:298)
[InstallSchema] at
org.apache.commons.digester.SetPropertiesRule.begin(SetPropertiesRule.java:217)
[InstallSchema] at
org.apache.commons.digester.Rule.begin(Rule.java:152)
[InstallSchema] at
org.apache.commons.digester.Digester.startElement(Digester.java:1286)
[InstallSchema] at
org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown Source)
[InstallSchema] at
org.apache.xerces.impl.dtd.XMLDTDValidator.startElement(Unknown Source)
[InstallSchema] at
org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(Unknown
Source)
[InstallSchema] at
org.apache.xerces.impl.XMLDocumentScannerImpl$ContentDispatcher.scanRootElementHook(Unknown
Source)
[InstallSchema] at
org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDispatcher.dispatch(Unknown
Source)
[InstallSchema] at
org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown
Source)
[InstallSchema] at
org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source)
[InstallSchema] at
org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source)
[InstallSchema] at
org.apache.xerces.parsers.XMLParser.parse(Unknown Source)
[InstallSchema] at
org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source)
[InstallSchema] at
org.apache.commons.digester.Digester.parse(Digester.java:1591)
[InstallSchema] at
org.gusdb.dbadmin.reader.XMLReader.readDatabase(XMLReader.java:43)
[InstallSchema] at
org.gusdb.dbadmin.reader.SchemaReader.doRead(SchemaReader.java:50)
[InstallSchema] at
org.gusdb.dbadmin.reader.SchemaReader.read(SchemaReader.java:38)
[InstallSchema] at
org.gusdb.schema.InstallSchemaTask.execute(InstallSchemaTask.java:89)
[InstallSchema] at
org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275)
[InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364)
[InstallSchema] at
org.apache.tools.ant.Target.execute(Target.java:341)
[InstallSchema] at
org.apache.tools.ant.Target.performTasks(Target.java:369)
[InstallSchema] at
org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216)
[InstallSchema] at
org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExecutor.java:37)
[InstallSchema] at
org.apache.tools.ant.Project.executeTargets(Project.java:1068)
[InstallSchema] at
org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:382)
[InstallSchema] at
org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275)
[InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364)
[InstallSchema] at
org.apache.tools.ant.Target.execute(Target.java:341)
[InstallSchema] at
org.apache.tools.ant.Target.performTasks(Target.java:369)
[InstallSchema] at
org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216)
[InstallSchema] at
org.apache.tools.ant.Project.executeTarget(Project.java:1185)
[InstallSchema] at
org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.java:40)
[InstallSchema] at
org.apache.tools.ant.Project.executeTargets(Project.java:1068)
[InstallSchema] at org.apache.tools.ant.Main.runBuild(Main.java:668)
[InstallSchema] at org.apache.tools.ant.Main.startAnt(Main.java:187)
[InstallSchema] at
org.apache.tools.ant.launch.Launcher.run(Launcher.java:246)
[InstallSchema] at
org.apache.tools.ant.launch.Launcher.main(Launcher.java:67)
BUILD FAILED
/home/brcgusts/GUS/project_home/install/build.xml:28: The following
error occurred while executing this line:
java.lang.NoClassDefFoundError: org/apache/commons/logging/LogFactory
Total time: 7 seconds
Haiming Wang wrote:
>On Mon, 2005-06-27 at 11:07, Jian Lu wrote:
>
>
>>Here is my system env.
>>
>>ANT_HOME=/home/gmod/gus/all_software/apache-ant
>>PROJECT_HOME=/home/brcgusts/GUS/project_home
>>JAVA_HOME=/usr/lib/java
>>CLASSPATH=$GUS_HOME/gus_home/lib/java
>>
>>
>
>Please comment 'CLASSPATH=$GUS_HOME/gus_home/lib/java' out and rehash
>.bashrc (or .profile...) and give it a try.
>
>-Haiming
>
>
>
>>$java -version
>>java version "1.4.2_04"
>>Java(TM) 2 Runtime Environment, Standard Edition (build 1.4.2_04-b05)
>>Java HotSpot(TM) Client VM (build 1.4.2_04-b05, mixed mode)
>>
>>apache-ant: 1.6.4
>>
>>Could you let me know your system env?
>>
>>Thanks.
>>
>>Jian
>>
>>Haiming Wang wrote:
>>
>>
>>>I am guessing that although you have commons logging in your compile
>>>classpath it isn't in your runtime. Please check both Java and Ant
>>>version, especially Ant (1.6.1 or above).
>>>
>>>Also, echo $CLASSPATH to see if there are other commons-logging.jar
>>>before the GUS's commons-logging.jar.
>>>
>>>I hope this is helpful.
>>>
>>>-Haiming
>>>
>>>
>>>
>>>On Sun, 2005-06-26 at 16:19, Jian Lu wrote:
>>>
>>>
>>>
>>>>Hi Mike,
>>>>The commons-logging.jar is in my $GUS_HOME/lib/java.
>>>>Jian
>>>>
>>>>Michael Saffitz wrote:
>>>>
>>>>
>>>>
>>>>>Hi Jian,
>>>>>
>>>>>Can you confirm that the commons-logging.jar is in your $GUS_HOME/lib/java
>>>>>(it should have been installed from $PROJECT_HOME/GUS/DBAdmin/lib/java/
>>>>>
>>>>>Thanks,
>>>>>
>>>>>Mike
>>>>>
>>>>>On 6/25/05 5:02 PM, "Jian Lu" <jl...@vb...> wrote:
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>>I downloaded the official release, followed the installation instruction
>>>>>>and failed to install. Please advise. Thank you.
>>>>>>
>>>>>> build GUS install -append -installDBSchema
>>>>>>[WritePropertyFiles] Jun 25, 2005 3:02:40 PM
>>>>>>org.gusdb.install.WritePropertyFileTask writeInstallProp
>>>>>>[WritePropertyFiles] INFO: Recreating install.prop file
>>>>>>[WritePropertyFiles] Jun 25, 2005 3:02:40 PM
>>>>>>org.gusdb.install.WritePropertyFileTask writePluginProp
>>>>>>[WritePropertyFiles] INFO: Recreating GUS-PluginMgr.prop file
>>>>>> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config
>>>>>> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config
>>>>>> [echo] .
>>>>>> [echo] Installing CBIL/Bio
>>>>>> [echo] .
>>>>>> [echo] Installing CBIL/CSP
>>>>>> [echo] .
>>>>>> [echo] Installing CBIL/Util
>>>>>> [echo] .
>>>>>> [echo] Installing CBIL/HQ
>>>>>> [echo] .
>>>>>> [echo] Installing CBIL/ObjectMapper
>>>>>> [concat] No existing files and no nested text, doing nothing
>>>>>> [echo] .
>>>>>> [echo] Installing GUS/Supported
>>>>>> [echo] .
>>>>>> [echo] Installing GUS/Community
>>>>>> [echo] .
>>>>>> [echo] Installing GUS/DBAdmin
>>>>>> [echo] .
>>>>>> [echo] Installing GUS/GOPredict
>>>>>> [echo] .
>>>>>> [echo] Installing GUS/Schema
>>>>>>[InstallSchema] Jun 25, 2005 3:02:46 PM
>>>>>>org.gusdb.schema.InstallSchemaTask execute
>>>>>>[InstallSchema] INFO: Reading database from
>>>>>>/home/brcgusts/GUS/project_home/GUS/Schema/gus_schema.xml
>>>>>>[InstallSchema] Jun 25, 2005 3:02:46 PM
>>>>>>org.gusdb.dbadmin.reader.SchemaReader doRead
>>>>>>[InstallSchema] INFO: Reading Database
>>>>>>[InstallSchema] Jun 25, 2005 3:02:46 PM
>>>>>>org.apache.commons.digester.Digester startElement
>>>>>>[InstallSchema] SEVERE: Begin event threw error
>>>>>>[InstallSchema] java.lang.NoClassDefFoundError:
>>>>>>org/apache/commons/logging/LogFactory
>>>>>>[InstallSchema] at
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>org.apache.commons.beanutils.ConvertUtilsBean.<init>(ConvertUtilsBean.java:130>
>>>>>)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>>[InstallSchema] at
>>>>>>org.apache.commons.beanutils.BeanUtilsBean.<init>(BeanUtilsBean.java:110)
>>>>>>[InstallSchema] at
>>>>>>org.apache.commons.beanutils.BeanUtilsBean$1.initialValue(BeanUtilsBean.java:6
>>>>>>8)
>>>>>>[InstallSchema] at
>>>>>>org.apache.commons.beanutils.ContextClassLoaderLocal.get(ContextClassLoaderLoc
>>>>>>al.java:80)
>>>>>>[InstallSchema] at
>>>>>>org.apache.commons.beanutils.BeanUtilsBean.getInstance(BeanUtilsBean.java:78)
>>>>>>[InstallSchema] at
>>>>>>org.apache.commons.beanutils.BeanUtils.populate(BeanUtils.java:298)
>>>>>>[InstallSchema] at
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>org.apache.commons.digester.SetPropertiesRule.begin(SetPropertiesRule.java:217>
>>>>>)
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>>[InstallSchema] at
>>>>>>org.apache.commons.digester.Rule.begin(Rule.java:152)
>>>>>>[InstallSchema] at
>>>>>>org.apache.commons.digester.Digester.startElement(Digester.java:1286)
>>>>>>[InstallSchema] at
>>>>>>org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown Source)
>>>>>>[InstallSchema] at
>>>>>>org.apache.xerces.impl.dtd.XMLDTDValidator.startElement(Unknown Source)
>>>>>>[InstallSchema] at
>>>>>>org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(Unknown
>>>>>>Source)
>>>>>>[InstallSchema] at
>>>>>>org.apache.xerces.impl.XMLDocumentScannerImpl$ContentDispatcher.scanRootElemen
>>>>>>tHook(Unknown
>>>>>>Source)
>>>>>>[InstallSchema] at
>>>>>>org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDispatche
>>>>>>r.dispatch(Unknown
>>>>>>Source)
>>>>>>[InstallSchema] at
>>>>>>org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown
>>>>>>Source)
>>>>>>[InstallSchema] at
>>>>>>org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source)
>>>>>>[InstallSchema] at
>>>>>>org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source)
>>>>>>[InstallSchema] at
>>>>>>org.apache.xerces.parsers.XMLParser.parse(Unknown Source)
>>>>>>[InstallSchema] at
>>>>>>org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source)
>>>>>>[InstallSchema] at
>>>>>>org.apache.commons.digester.Digester.parse(Digester.java:1591)
>>>>>>[InstallSchema] at
>>>>>>org.gusdb.dbadmin.reader.XMLReader.readDatabase(XMLReader.java:43)
>>>>>>[InstallSchema] at
>>>>>>org.gusdb.dbadmin.reader.SchemaReader.doRead(SchemaReader.java:50)
>>>>>>[InstallSchema] at
>>>>>>org.gusdb.dbadmin.reader.SchemaReader.read(SchemaReader.java:38)
>>>>>>[InstallSchema] at
>>>>>>org.gusdb.schema.InstallSchemaTask.execute(InstallSchemaTask.java:89)
>>>>>>[InstallSchema] at
>>>>>>org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275)
>>>>>>[InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364)
>>>>>>[InstallSchema] at
>>>>>>org.apache.tools.ant.Target.execute(Target.java:341)
>>>>>>[InstallSchema] at
>>>>>>org.apache.tools.ant.Target.performTasks(Target.java:369)
>>>>>>[InstallSchema] at
>>>>>>org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216)
>>>>>>[InstallSchema] at
>>>>>>org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExec
>>>>>>utor.java:37)
>>>>>>[InstallSchema] at
>>>>>>org.apache.tools.ant.Project.executeTargets(Project.java:1068)
>>>>>>[InstallSchema] at
>>>>>>org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:382)
>>>>>>[InstallSchema] at
>>>>>>org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275)
>>>>>>[InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364)
>>>>>>[InstallSchema] at
>>>>>>org.apache.tools.ant.Target.execute(Target.java:341)
>>>>>>[InstallSchema] at
>>>>>>org.apache.tools.ant.Target.performTasks(Target.java:369)
>>>>>>[InstallSchema] at
>>>>>>org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216)
>>>>>>[InstallSchema] at
>>>>>>org.apache.tools.ant.Project.executeTarget(Project.java:1185)
>>>>>>[InstallSchema] at
>>>>>>org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.jav
>>>>>>a:40)
>>>>>>[InstallSchema] at
>>>>>>org.apache.tools.ant.Project.executeTargets(Project.java:1068)
>>>>>>[InstallSchema] at org.apache.tools.ant.Main.runBuild(Main.java:668)
>>>>>>[InstallSchema] at org.apache.tools.ant.Main.startAnt(Main.java:187)
>>>>>>[InstallSchema] at
>>>>>>org.apache.tools.ant.launch.Launcher.run(Launcher.java:246)
>>>>>>[InstallSchema] at
>>>>>>org.apache.tools.ant.launch.Launcher.main(Launcher.java:67)
>>>>>>
>>>>>>BUILD FAILED
>>>>>>/home/brcgusts/GUS/project_home/install/build.xml:28: The following
>>>>>>error occurred while executing this line:
>>>>>>java.lang.NoClassDefFoundError: org/apache/commons/logging/LogFactory
>>>>>>
>>>>>>Total time: 6 seconds
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>-------------------------------------------------------
>>>>>SF.Net email is sponsored by: Discover Easy Linux Migration Strategies
>>>>>from IBM. Find simple to follow Roadmaps, straightforward articles,
>>>>>informative Webcasts and more! Get everything you need to get up to
>>>>>speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click
>>>>>_______________________________________________
>>>>>Gusdev-gusdev mailing list
>>>>>Gus...@li...
>>>>>https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
>>>>>
>>>>>
>>>>>
>>>>>
>>>-------------------------------------------------------
>>>SF.Net email is sponsored by: Discover Easy Linux Migration Strategies
>>>from IBM. Find simple to follow Roadmaps, straightforward articles,
>>>informative Webcasts and more! Get everything you need to get up to
>>>speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click
>>>_______________________________________________
>>>Gusdev-gusdev mailing list
>>>Gus...@li...
>>>https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
>>>
>>>
>>>
|
|
From: Haiming W. <hw...@ug...> - 2005-06-27 15:14:41
|
On Mon, 2005-06-27 at 11:07, Jian Lu wrote: > Here is my system env. > > ANT_HOME=/home/gmod/gus/all_software/apache-ant > PROJECT_HOME=/home/brcgusts/GUS/project_home > JAVA_HOME=/usr/lib/java > CLASSPATH=$GUS_HOME/gus_home/lib/java Please comment 'CLASSPATH=$GUS_HOME/gus_home/lib/java' out and rehash .bashrc (or .profile...) and give it a try. -Haiming > > $java -version > java version "1.4.2_04" > Java(TM) 2 Runtime Environment, Standard Edition (build 1.4.2_04-b05) > Java HotSpot(TM) Client VM (build 1.4.2_04-b05, mixed mode) > > apache-ant: 1.6.4 > > Could you let me know your system env? > > Thanks. > > Jian > > Haiming Wang wrote: > > I am guessing that although you have commons logging in your compile > > classpath it isn't in your runtime. Please check both Java and Ant > > version, especially Ant (1.6.1 or above). > > > > Also, echo $CLASSPATH to see if there are other commons-logging.jar > > before the GUS's commons-logging.jar. > > > > I hope this is helpful. > > > > -Haiming > > > > > > > > On Sun, 2005-06-26 at 16:19, Jian Lu wrote: > > > > > Hi Mike, > > > The commons-logging.jar is in my $GUS_HOME/lib/java. > > > Jian > > > > > > Michael Saffitz wrote: > > > > > > > Hi Jian, > > > > > > > > Can you confirm that the commons-logging.jar is in your $GUS_HOME/lib/java > > > > (it should have been installed from $PROJECT_HOME/GUS/DBAdmin/lib/java/ > > > > > > > > Thanks, > > > > > > > > Mike > > > > > > > > On 6/25/05 5:02 PM, "Jian Lu" <jl...@vb...> wrote: > > > > > > > > > > > > > > > > > I downloaded the official release, followed the installation instruction > > > > > and failed to install. Please advise. Thank you. > > > > > > > > > > build GUS install -append -installDBSchema > > > > > [WritePropertyFiles] Jun 25, 2005 3:02:40 PM > > > > > org.gusdb.install.WritePropertyFileTask writeInstallProp > > > > > [WritePropertyFiles] INFO: Recreating install.prop file > > > > > [WritePropertyFiles] Jun 25, 2005 3:02:40 PM > > > > > org.gusdb.install.WritePropertyFileTask writePluginProp > > > > > [WritePropertyFiles] INFO: Recreating GUS-PluginMgr.prop file > > > > > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config > > > > > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config > > > > > [echo] . > > > > > [echo] Installing CBIL/Bio > > > > > [echo] . > > > > > [echo] Installing CBIL/CSP > > > > > [echo] . > > > > > [echo] Installing CBIL/Util > > > > > [echo] . > > > > > [echo] Installing CBIL/HQ > > > > > [echo] . > > > > > [echo] Installing CBIL/ObjectMapper > > > > > [concat] No existing files and no nested text, doing nothing > > > > > [echo] . > > > > > [echo] Installing GUS/Supported > > > > > [echo] . > > > > > [echo] Installing GUS/Community > > > > > [echo] . > > > > > [echo] Installing GUS/DBAdmin > > > > > [echo] . > > > > > [echo] Installing GUS/GOPredict > > > > > [echo] . > > > > > [echo] Installing GUS/Schema > > > > > [InstallSchema] Jun 25, 2005 3:02:46 PM > > > > > org.gusdb.schema.InstallSchemaTask execute > > > > > [InstallSchema] INFO: Reading database from > > > > > /home/brcgusts/GUS/project_home/GUS/Schema/gus_schema.xml > > > > > [InstallSchema] Jun 25, 2005 3:02:46 PM > > > > > org.gusdb.dbadmin.reader.SchemaReader doRead > > > > > [InstallSchema] INFO: Reading Database > > > > > [InstallSchema] Jun 25, 2005 3:02:46 PM > > > > > org.apache.commons.digester.Digester startElement > > > > > [InstallSchema] SEVERE: Begin event threw error > > > > > [InstallSchema] java.lang.NoClassDefFoundError: > > > > > org/apache/commons/logging/LogFactory > > > > > [InstallSchema] at > > > > > > > > > > > > > > > > > > > org.apache.commons.beanutils.ConvertUtilsBean.<init>(ConvertUtilsBean.java:130> > > > > ) > > > > > > > > > > > > > [InstallSchema] at > > > > > org.apache.commons.beanutils.BeanUtilsBean.<init>(BeanUtilsBean.java:110) > > > > > [InstallSchema] at > > > > > org.apache.commons.beanutils.BeanUtilsBean$1.initialValue(BeanUtilsBean.java:6 > > > > > 8) > > > > > [InstallSchema] at > > > > > org.apache.commons.beanutils.ContextClassLoaderLocal.get(ContextClassLoaderLoc > > > > > al.java:80) > > > > > [InstallSchema] at > > > > > org.apache.commons.beanutils.BeanUtilsBean.getInstance(BeanUtilsBean.java:78) > > > > > [InstallSchema] at > > > > > org.apache.commons.beanutils.BeanUtils.populate(BeanUtils.java:298) > > > > > [InstallSchema] at > > > > > > > > > > > > > > > > > > > org.apache.commons.digester.SetPropertiesRule.begin(SetPropertiesRule.java:217> > > > > ) > > > > > > > > > > > > > [InstallSchema] at > > > > > org.apache.commons.digester.Rule.begin(Rule.java:152) > > > > > [InstallSchema] at > > > > > org.apache.commons.digester.Digester.startElement(Digester.java:1286) > > > > > [InstallSchema] at > > > > > org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.impl.dtd.XMLDTDValidator.startElement(Unknown Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(Unknown > > > > > Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.impl.XMLDocumentScannerImpl$ContentDispatcher.scanRootElemen > > > > > tHook(Unknown > > > > > Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDispatche > > > > > r.dispatch(Unknown > > > > > Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown > > > > > Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.parsers.XMLParser.parse(Unknown Source) > > > > > [InstallSchema] at > > > > > org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source) > > > > > [InstallSchema] at > > > > > org.apache.commons.digester.Digester.parse(Digester.java:1591) > > > > > [InstallSchema] at > > > > > org.gusdb.dbadmin.reader.XMLReader.readDatabase(XMLReader.java:43) > > > > > [InstallSchema] at > > > > > org.gusdb.dbadmin.reader.SchemaReader.doRead(SchemaReader.java:50) > > > > > [InstallSchema] at > > > > > org.gusdb.dbadmin.reader.SchemaReader.read(SchemaReader.java:38) > > > > > [InstallSchema] at > > > > > org.gusdb.schema.InstallSchemaTask.execute(InstallSchemaTask.java:89) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) > > > > > [InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Target.execute(Target.java:341) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Target.performTasks(Target.java:369) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExec > > > > > utor.java:37) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Project.executeTargets(Project.java:1068) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:382) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) > > > > > [InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Target.execute(Target.java:341) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Target.performTasks(Target.java:369) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Project.executeTarget(Project.java:1185) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.jav > > > > > a:40) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.Project.executeTargets(Project.java:1068) > > > > > [InstallSchema] at org.apache.tools.ant.Main.runBuild(Main.java:668) > > > > > [InstallSchema] at org.apache.tools.ant.Main.startAnt(Main.java:187) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.launch.Launcher.run(Launcher.java:246) > > > > > [InstallSchema] at > > > > > org.apache.tools.ant.launch.Launcher.main(Launcher.java:67) > > > > > > > > > > BUILD FAILED > > > > > /home/brcgusts/GUS/project_home/install/build.xml:28: The following > > > > > error occurred while executing this line: > > > > > java.lang.NoClassDefFoundError: org/apache/commons/logging/LogFactory > > > > > > > > > > Total time: 6 seconds > > > > > > > > > > > > > > > > > > > ------------------------------------------------------- > > > > SF.Net email is sponsored by: Discover Easy Linux Migration Strategies > > > > from IBM. Find simple to follow Roadmaps, straightforward articles, > > > > informative Webcasts and more! Get everything you need to get up to > > > > speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click > > > > _______________________________________________ > > > > Gusdev-gusdev mailing list > > > > Gus...@li... > > > > https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev > > > > > > > > > > > > > > ------------------------------------------------------- > > SF.Net email is sponsored by: Discover Easy Linux Migration Strategies > > from IBM. Find simple to follow Roadmaps, straightforward articles, > > informative Webcasts and more! Get everything you need to get up to > > speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click > > _______________________________________________ > > Gusdev-gusdev mailing list > > Gus...@li... > > https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev > > > |
|
From: Jian Lu <jl...@vb...> - 2005-06-27 15:07:16
|
Here is my system env. ANT_HOME=/home/gmod/gus/all_software/apache-ant PROJECT_HOME=/home/brcgusts/GUS/project_home JAVA_HOME=/usr/lib/java CLASSPATH=$GUS_HOME/gus_home/lib/java $java -version java version "1.4.2_04" Java(TM) 2 Runtime Environment, Standard Edition (build 1.4.2_04-b05) Java HotSpot(TM) Client VM (build 1.4.2_04-b05, mixed mode) apache-ant: 1.6.4 Could you let me know your system env? Thanks. Jian Haiming Wang wrote: >I am guessing that although you have commons logging in your compile >classpath it isn't in your runtime. Please check both Java and Ant >version, especially Ant (1.6.1 or above). > >Also, echo $CLASSPATH to see if there are other commons-logging.jar >before the GUS's commons-logging.jar. > >I hope this is helpful. > >-Haiming > > > >On Sun, 2005-06-26 at 16:19, Jian Lu wrote: > > >>Hi Mike, >>The commons-logging.jar is in my $GUS_HOME/lib/java. >>Jian >> >>Michael Saffitz wrote: >> >> >>>Hi Jian, >>> >>>Can you confirm that the commons-logging.jar is in your $GUS_HOME/lib/java >>>(it should have been installed from $PROJECT_HOME/GUS/DBAdmin/lib/java/ >>> >>>Thanks, >>> >>>Mike >>> >>>On 6/25/05 5:02 PM, "Jian Lu" <jl...@vb...> wrote: >>> >>> >>> >>> >>>>I downloaded the official release, followed the installation instruction >>>>and failed to install. Please advise. Thank you. >>>> >>>> build GUS install -append -installDBSchema >>>>[WritePropertyFiles] Jun 25, 2005 3:02:40 PM >>>>org.gusdb.install.WritePropertyFileTask writeInstallProp >>>>[WritePropertyFiles] INFO: Recreating install.prop file >>>>[WritePropertyFiles] Jun 25, 2005 3:02:40 PM >>>>org.gusdb.install.WritePropertyFileTask writePluginProp >>>>[WritePropertyFiles] INFO: Recreating GUS-PluginMgr.prop file >>>> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >>>> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >>>> [echo] . >>>> [echo] Installing CBIL/Bio >>>> [echo] . >>>> [echo] Installing CBIL/CSP >>>> [echo] . >>>> [echo] Installing CBIL/Util >>>> [echo] . >>>> [echo] Installing CBIL/HQ >>>> [echo] . >>>> [echo] Installing CBIL/ObjectMapper >>>> [concat] No existing files and no nested text, doing nothing >>>> [echo] . >>>> [echo] Installing GUS/Supported >>>> [echo] . >>>> [echo] Installing GUS/Community >>>> [echo] . >>>> [echo] Installing GUS/DBAdmin >>>> [echo] . >>>> [echo] Installing GUS/GOPredict >>>> [echo] . >>>> [echo] Installing GUS/Schema >>>>[InstallSchema] Jun 25, 2005 3:02:46 PM >>>>org.gusdb.schema.InstallSchemaTask execute >>>>[InstallSchema] INFO: Reading database from >>>>/home/brcgusts/GUS/project_home/GUS/Schema/gus_schema.xml >>>>[InstallSchema] Jun 25, 2005 3:02:46 PM >>>>org.gusdb.dbadmin.reader.SchemaReader doRead >>>>[InstallSchema] INFO: Reading Database >>>>[InstallSchema] Jun 25, 2005 3:02:46 PM >>>>org.apache.commons.digester.Digester startElement >>>>[InstallSchema] SEVERE: Begin event threw error >>>>[InstallSchema] java.lang.NoClassDefFoundError: >>>>org/apache/commons/logging/LogFactory >>>>[InstallSchema] at >>>> >>>> >>>> >>>> >>>org.apache.commons.beanutils.ConvertUtilsBean.<init>(ConvertUtilsBean.java:130> >>>) >>> >>> >>> >>>>[InstallSchema] at >>>>org.apache.commons.beanutils.BeanUtilsBean.<init>(BeanUtilsBean.java:110) >>>>[InstallSchema] at >>>>org.apache.commons.beanutils.BeanUtilsBean$1.initialValue(BeanUtilsBean.java:6 >>>>8) >>>>[InstallSchema] at >>>>org.apache.commons.beanutils.ContextClassLoaderLocal.get(ContextClassLoaderLoc >>>>al.java:80) >>>>[InstallSchema] at >>>>org.apache.commons.beanutils.BeanUtilsBean.getInstance(BeanUtilsBean.java:78) >>>>[InstallSchema] at >>>>org.apache.commons.beanutils.BeanUtils.populate(BeanUtils.java:298) >>>>[InstallSchema] at >>>> >>>> >>>> >>>> >>>org.apache.commons.digester.SetPropertiesRule.begin(SetPropertiesRule.java:217> >>>) >>> >>> >>> >>>>[InstallSchema] at >>>>org.apache.commons.digester.Rule.begin(Rule.java:152) >>>>[InstallSchema] at >>>>org.apache.commons.digester.Digester.startElement(Digester.java:1286) >>>>[InstallSchema] at >>>>org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown Source) >>>>[InstallSchema] at >>>>org.apache.xerces.impl.dtd.XMLDTDValidator.startElement(Unknown Source) >>>>[InstallSchema] at >>>>org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(Unknown >>>>Source) >>>>[InstallSchema] at >>>>org.apache.xerces.impl.XMLDocumentScannerImpl$ContentDispatcher.scanRootElemen >>>>tHook(Unknown >>>>Source) >>>>[InstallSchema] at >>>>org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDispatche >>>>r.dispatch(Unknown >>>>Source) >>>>[InstallSchema] at >>>>org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown >>>>Source) >>>>[InstallSchema] at >>>>org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) >>>>[InstallSchema] at >>>>org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) >>>>[InstallSchema] at >>>>org.apache.xerces.parsers.XMLParser.parse(Unknown Source) >>>>[InstallSchema] at >>>>org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source) >>>>[InstallSchema] at >>>>org.apache.commons.digester.Digester.parse(Digester.java:1591) >>>>[InstallSchema] at >>>>org.gusdb.dbadmin.reader.XMLReader.readDatabase(XMLReader.java:43) >>>>[InstallSchema] at >>>>org.gusdb.dbadmin.reader.SchemaReader.doRead(SchemaReader.java:50) >>>>[InstallSchema] at >>>>org.gusdb.dbadmin.reader.SchemaReader.read(SchemaReader.java:38) >>>>[InstallSchema] at >>>>org.gusdb.schema.InstallSchemaTask.execute(InstallSchemaTask.java:89) >>>>[InstallSchema] at >>>>org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) >>>>[InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364) >>>>[InstallSchema] at >>>>org.apache.tools.ant.Target.execute(Target.java:341) >>>>[InstallSchema] at >>>>org.apache.tools.ant.Target.performTasks(Target.java:369) >>>>[InstallSchema] at >>>>org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) >>>>[InstallSchema] at >>>>org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExec >>>>utor.java:37) >>>>[InstallSchema] at >>>>org.apache.tools.ant.Project.executeTargets(Project.java:1068) >>>>[InstallSchema] at >>>>org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:382) >>>>[InstallSchema] at >>>>org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) >>>>[InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364) >>>>[InstallSchema] at >>>>org.apache.tools.ant.Target.execute(Target.java:341) >>>>[InstallSchema] at >>>>org.apache.tools.ant.Target.performTasks(Target.java:369) >>>>[InstallSchema] at >>>>org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) >>>>[InstallSchema] at >>>>org.apache.tools.ant.Project.executeTarget(Project.java:1185) >>>>[InstallSchema] at >>>>org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.jav >>>>a:40) >>>>[InstallSchema] at >>>>org.apache.tools.ant.Project.executeTargets(Project.java:1068) >>>>[InstallSchema] at org.apache.tools.ant.Main.runBuild(Main.java:668) >>>>[InstallSchema] at org.apache.tools.ant.Main.startAnt(Main.java:187) >>>>[InstallSchema] at >>>>org.apache.tools.ant.launch.Launcher.run(Launcher.java:246) >>>>[InstallSchema] at >>>>org.apache.tools.ant.launch.Launcher.main(Launcher.java:67) >>>> >>>>BUILD FAILED >>>>/home/brcgusts/GUS/project_home/install/build.xml:28: The following >>>>error occurred while executing this line: >>>>java.lang.NoClassDefFoundError: org/apache/commons/logging/LogFactory >>>> >>>>Total time: 6 seconds >>>> >>>> >>>> >>>> >>> >>>------------------------------------------------------- >>>SF.Net email is sponsored by: Discover Easy Linux Migration Strategies >>>from IBM. Find simple to follow Roadmaps, straightforward articles, >>>informative Webcasts and more! Get everything you need to get up to >>>speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click >>>_______________________________________________ >>>Gusdev-gusdev mailing list >>>Gus...@li... >>>https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev >>> >>> >>> > > > >------------------------------------------------------- >SF.Net email is sponsored by: Discover Easy Linux Migration Strategies >from IBM. Find simple to follow Roadmaps, straightforward articles, >informative Webcasts and more! Get everything you need to get up to >speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click >_______________________________________________ >Gusdev-gusdev mailing list >Gus...@li... >https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev > > |
|
From: Michael S. <msa...@pc...> - 2005-06-27 14:58:16
|
On 6/27/05 10:50 AM, "Haiming Wang" <hw...@ug...> wrote: > I am guessing that although you have commons logging in your compile > classpath it isn't in your runtime. Please check both Java and Ant > version, especially Ant (1.6.1 or above). The build system should add it to the runtime classpath. The suggestion about ant is a good one, and it probably makes sense to double check your other requirements as well. > > Also, echo $CLASSPATH to see if there are other commons-logging.jar > before the GUS's commons-logging.jar. Also, if you had a previous version of GUS or GUS 3.5 in the same directory that you're installing into, it may make sense to clean out that directory before doing an install. --Mike > > I hope this is helpful. > > -Haiming > > > > On Sun, 2005-06-26 at 16:19, Jian Lu wrote: >> Hi Mike, >> The commons-logging.jar is in my $GUS_HOME/lib/java. >> Jian >> >> Michael Saffitz wrote: >>> Hi Jian, >>> >>> Can you confirm that the commons-logging.jar is in your $GUS_HOME/lib/java >>> (it should have been installed from $PROJECT_HOME/GUS/DBAdmin/lib/java/ >>> >>> Thanks, >>> >>> Mike >>> >>> On 6/25/05 5:02 PM, "Jian Lu" <jl...@vb...> wrote: >>> >>> >>>> I downloaded the official release, followed the installation instruction >>>> and failed to install. Please advise. Thank you. >>>> >>>> build GUS install -append -installDBSchema >>>> [WritePropertyFiles] Jun 25, 2005 3:02:40 PM >>>> org.gusdb.install.WritePropertyFileTask writeInstallProp >>>> [WritePropertyFiles] INFO: Recreating install.prop file >>>> [WritePropertyFiles] Jun 25, 2005 3:02:40 PM >>>> org.gusdb.install.WritePropertyFileTask writePluginProp >>>> [WritePropertyFiles] INFO: Recreating GUS-PluginMgr.prop file >>>> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >>>> [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config >>>> [echo] . >>>> [echo] Installing CBIL/Bio >>>> [echo] . >>>> [echo] Installing CBIL/CSP >>>> [echo] . >>>> [echo] Installing CBIL/Util >>>> [echo] . >>>> [echo] Installing CBIL/HQ >>>> [echo] . >>>> [echo] Installing CBIL/ObjectMapper >>>> [concat] No existing files and no nested text, doing nothing >>>> [echo] . >>>> [echo] Installing GUS/Supported >>>> [echo] . >>>> [echo] Installing GUS/Community >>>> [echo] . >>>> [echo] Installing GUS/DBAdmin >>>> [echo] . >>>> [echo] Installing GUS/GOPredict >>>> [echo] . >>>> [echo] Installing GUS/Schema >>>> [InstallSchema] Jun 25, 2005 3:02:46 PM >>>> org.gusdb.schema.InstallSchemaTask execute >>>> [InstallSchema] INFO: Reading database from >>>> /home/brcgusts/GUS/project_home/GUS/Schema/gus_schema.xml >>>> [InstallSchema] Jun 25, 2005 3:02:46 PM >>>> org.gusdb.dbadmin.reader.SchemaReader doRead >>>> [InstallSchema] INFO: Reading Database >>>> [InstallSchema] Jun 25, 2005 3:02:46 PM >>>> org.apache.commons.digester.Digester startElement >>>> [InstallSchema] SEVERE: Begin event threw error >>>> [InstallSchema] java.lang.NoClassDefFoundError: >>>> org/apache/commons/logging/LogFactory >>>> [InstallSchema] at >>>> >>>> >>> org.apache.commons.beanutils.ConvertUtilsBean.<init>(ConvertUtilsBean.java:1 >>> 30> >>> ) >>> >>>> [InstallSchema] at >>>> org.apache.commons.beanutils.BeanUtilsBean.<init>(BeanUtilsBean.java:110) >>>> [InstallSchema] at >>>> org.apache.commons.beanutils.BeanUtilsBean$1.initialValue(BeanUtilsBean.jav >>>> a:6 >>>> 8) >>>> [InstallSchema] at >>>> org.apache.commons.beanutils.ContextClassLoaderLocal.get(ContextClassLoader >>>> Loc >>>> al.java:80) >>>> [InstallSchema] at >>>> org.apache.commons.beanutils.BeanUtilsBean.getInstance(BeanUtilsBean.java:7 >>>> 8) >>>> [InstallSchema] at >>>> org.apache.commons.beanutils.BeanUtils.populate(BeanUtils.java:298) >>>> [InstallSchema] at >>>> >>>> >>> org.apache.commons.digester.SetPropertiesRule.begin(SetPropertiesRule.java:2 >>> 17> >>> ) >>> >>>> [InstallSchema] at >>>> org.apache.commons.digester.Rule.begin(Rule.java:152) >>>> [InstallSchema] at >>>> org.apache.commons.digester.Digester.startElement(Digester.java:1286) >>>> [InstallSchema] at >>>> org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown Source) >>>> [InstallSchema] at >>>> org.apache.xerces.impl.dtd.XMLDTDValidator.startElement(Unknown Source) >>>> [InstallSchema] at >>>> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(Unkn >>>> own >>>> Source) >>>> [InstallSchema] at >>>> org.apache.xerces.impl.XMLDocumentScannerImpl$ContentDispatcher.scanRootEle >>>> men >>>> tHook(Unknown >>>> Source) >>>> [InstallSchema] at >>>> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDispat >>>> che >>>> r.dispatch(Unknown >>>> Source) >>>> [InstallSchema] at >>>> org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown >>>> Source) >>>> [InstallSchema] at >>>> org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) >>>> [InstallSchema] at >>>> org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) >>>> [InstallSchema] at >>>> org.apache.xerces.parsers.XMLParser.parse(Unknown Source) >>>> [InstallSchema] at >>>> org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source) >>>> [InstallSchema] at >>>> org.apache.commons.digester.Digester.parse(Digester.java:1591) >>>> [InstallSchema] at >>>> org.gusdb.dbadmin.reader.XMLReader.readDatabase(XMLReader.java:43) >>>> [InstallSchema] at >>>> org.gusdb.dbadmin.reader.SchemaReader.doRead(SchemaReader.java:50) >>>> [InstallSchema] at >>>> org.gusdb.dbadmin.reader.SchemaReader.read(SchemaReader.java:38) >>>> [InstallSchema] at >>>> org.gusdb.schema.InstallSchemaTask.execute(InstallSchemaTask.java:89) >>>> [InstallSchema] at >>>> org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) >>>> [InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364) >>>> [InstallSchema] at >>>> org.apache.tools.ant.Target.execute(Target.java:341) >>>> [InstallSchema] at >>>> org.apache.tools.ant.Target.performTasks(Target.java:369) >>>> [InstallSchema] at >>>> org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) >>>> [InstallSchema] at >>>> org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckE >>>> xec >>>> utor.java:37) >>>> [InstallSchema] at >>>> org.apache.tools.ant.Project.executeTargets(Project.java:1068) >>>> [InstallSchema] at >>>> org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:382) >>>> [InstallSchema] at >>>> org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) >>>> [InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364) >>>> [InstallSchema] at >>>> org.apache.tools.ant.Target.execute(Target.java:341) >>>> [InstallSchema] at >>>> org.apache.tools.ant.Target.performTasks(Target.java:369) >>>> [InstallSchema] at >>>> org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) >>>> [InstallSchema] at >>>> org.apache.tools.ant.Project.executeTarget(Project.java:1185) >>>> [InstallSchema] at >>>> org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor. >>>> jav >>>> a:40) >>>> [InstallSchema] at >>>> org.apache.tools.ant.Project.executeTargets(Project.java:1068) >>>> [InstallSchema] at >>>> org.apache.tools.ant.Main.runBuild(Main.java:668) >>>> [InstallSchema] at >>>> org.apache.tools.ant.Main.startAnt(Main.java:187) >>>> [InstallSchema] at >>>> org.apache.tools.ant.launch.Launcher.run(Launcher.java:246) >>>> [InstallSchema] at >>>> org.apache.tools.ant.launch.Launcher.main(Launcher.java:67) >>>> >>>> BUILD FAILED >>>> /home/brcgusts/GUS/project_home/install/build.xml:28: The following >>>> error occurred while executing this line: >>>> java.lang.NoClassDefFoundError: org/apache/commons/logging/LogFactory >>>> >>>> Total time: 6 seconds >>>> >>>> >>> >>> >>> >>> ------------------------------------------------------- >>> SF.Net email is sponsored by: Discover Easy Linux Migration Strategies >>> from IBM. Find simple to follow Roadmaps, straightforward articles, >>> informative Webcasts and more! Get everything you need to get up to >>> speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click >>> _______________________________________________ >>> Gusdev-gusdev mailing list >>> Gus...@li... >>> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev >>> >> |
|
From: Haiming W. <hw...@ug...> - 2005-06-27 14:55:47
|
I am guessing that although you have commons logging in your compile classpath it isn't in your runtime. Please check both Java and Ant version, especially Ant (1.6.1 or above). Also, echo $CLASSPATH to see if there are other commons-logging.jar before the GUS's commons-logging.jar. I hope this is helpful. -Haiming On Sun, 2005-06-26 at 16:19, Jian Lu wrote: > Hi Mike, > The commons-logging.jar is in my $GUS_HOME/lib/java. > Jian > > Michael Saffitz wrote: > > Hi Jian, > > > > Can you confirm that the commons-logging.jar is in your $GUS_HOME/lib/java > > (it should have been installed from $PROJECT_HOME/GUS/DBAdmin/lib/java/ > > > > Thanks, > > > > Mike > > > > On 6/25/05 5:02 PM, "Jian Lu" <jl...@vb...> wrote: > > > > > > > I downloaded the official release, followed the installation instruction > > > and failed to install. Please advise. Thank you. > > > > > > build GUS install -append -installDBSchema > > > [WritePropertyFiles] Jun 25, 2005 3:02:40 PM > > > org.gusdb.install.WritePropertyFileTask writeInstallProp > > > [WritePropertyFiles] INFO: Recreating install.prop file > > > [WritePropertyFiles] Jun 25, 2005 3:02:40 PM > > > org.gusdb.install.WritePropertyFileTask writePluginProp > > > [WritePropertyFiles] INFO: Recreating GUS-PluginMgr.prop file > > > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config > > > [copy] Copying 1 file to /home/brcgusts/GUS/gus_home/config > > > [echo] . > > > [echo] Installing CBIL/Bio > > > [echo] . > > > [echo] Installing CBIL/CSP > > > [echo] . > > > [echo] Installing CBIL/Util > > > [echo] . > > > [echo] Installing CBIL/HQ > > > [echo] . > > > [echo] Installing CBIL/ObjectMapper > > > [concat] No existing files and no nested text, doing nothing > > > [echo] . > > > [echo] Installing GUS/Supported > > > [echo] . > > > [echo] Installing GUS/Community > > > [echo] . > > > [echo] Installing GUS/DBAdmin > > > [echo] . > > > [echo] Installing GUS/GOPredict > > > [echo] . > > > [echo] Installing GUS/Schema > > > [InstallSchema] Jun 25, 2005 3:02:46 PM > > > org.gusdb.schema.InstallSchemaTask execute > > > [InstallSchema] INFO: Reading database from > > > /home/brcgusts/GUS/project_home/GUS/Schema/gus_schema.xml > > > [InstallSchema] Jun 25, 2005 3:02:46 PM > > > org.gusdb.dbadmin.reader.SchemaReader doRead > > > [InstallSchema] INFO: Reading Database > > > [InstallSchema] Jun 25, 2005 3:02:46 PM > > > org.apache.commons.digester.Digester startElement > > > [InstallSchema] SEVERE: Begin event threw error > > > [InstallSchema] java.lang.NoClassDefFoundError: > > > org/apache/commons/logging/LogFactory > > > [InstallSchema] at > > > > > > > > org.apache.commons.beanutils.ConvertUtilsBean.<init>(ConvertUtilsBean.java:130> > > ) > > > > > [InstallSchema] at > > > org.apache.commons.beanutils.BeanUtilsBean.<init>(BeanUtilsBean.java:110) > > > [InstallSchema] at > > > org.apache.commons.beanutils.BeanUtilsBean$1.initialValue(BeanUtilsBean.java:6 > > > 8) > > > [InstallSchema] at > > > org.apache.commons.beanutils.ContextClassLoaderLocal.get(ContextClassLoaderLoc > > > al.java:80) > > > [InstallSchema] at > > > org.apache.commons.beanutils.BeanUtilsBean.getInstance(BeanUtilsBean.java:78) > > > [InstallSchema] at > > > org.apache.commons.beanutils.BeanUtils.populate(BeanUtils.java:298) > > > [InstallSchema] at > > > > > > > > org.apache.commons.digester.SetPropertiesRule.begin(SetPropertiesRule.java:217> > > ) > > > > > [InstallSchema] at > > > org.apache.commons.digester.Rule.begin(Rule.java:152) > > > [InstallSchema] at > > > org.apache.commons.digester.Digester.startElement(Digester.java:1286) > > > [InstallSchema] at > > > org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown Source) > > > [InstallSchema] at > > > org.apache.xerces.impl.dtd.XMLDTDValidator.startElement(Unknown Source) > > > [InstallSchema] at > > > org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(Unknown > > > Source) > > > [InstallSchema] at > > > org.apache.xerces.impl.XMLDocumentScannerImpl$ContentDispatcher.scanRootElemen > > > tHook(Unknown > > > Source) > > > [InstallSchema] at > > > org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDispatche > > > r.dispatch(Unknown > > > Source) > > > [InstallSchema] at > > > org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown > > > Source) > > > [InstallSchema] at > > > org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) > > > [InstallSchema] at > > > org.apache.xerces.parsers.XML11Configuration.parse(Unknown Source) > > > [InstallSchema] at > > > org.apache.xerces.parsers.XMLParser.parse(Unknown Source) > > > [InstallSchema] at > > > org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source) > > > [InstallSchema] at > > > org.apache.commons.digester.Digester.parse(Digester.java:1591) > > > [InstallSchema] at > > > org.gusdb.dbadmin.reader.XMLReader.readDatabase(XMLReader.java:43) > > > [InstallSchema] at > > > org.gusdb.dbadmin.reader.SchemaReader.doRead(SchemaReader.java:50) > > > [InstallSchema] at > > > org.gusdb.dbadmin.reader.SchemaReader.read(SchemaReader.java:38) > > > [InstallSchema] at > > > org.gusdb.schema.InstallSchemaTask.execute(InstallSchemaTask.java:89) > > > [InstallSchema] at > > > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) > > > [InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364) > > > [InstallSchema] at > > > org.apache.tools.ant.Target.execute(Target.java:341) > > > [InstallSchema] at > > > org.apache.tools.ant.Target.performTasks(Target.java:369) > > > [InstallSchema] at > > > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) > > > [InstallSchema] at > > > org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExec > > > utor.java:37) > > > [InstallSchema] at > > > org.apache.tools.ant.Project.executeTargets(Project.java:1068) > > > [InstallSchema] at > > > org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:382) > > > [InstallSchema] at > > > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:275) > > > [InstallSchema] at org.apache.tools.ant.Task.perform(Task.java:364) > > > [InstallSchema] at > > > org.apache.tools.ant.Target.execute(Target.java:341) > > > [InstallSchema] at > > > org.apache.tools.ant.Target.performTasks(Target.java:369) > > > [InstallSchema] at > > > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1216) > > > [InstallSchema] at > > > org.apache.tools.ant.Project.executeTarget(Project.java:1185) > > > [InstallSchema] at > > > org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.jav > > > a:40) > > > [InstallSchema] at > > > org.apache.tools.ant.Project.executeTargets(Project.java:1068) > > > [InstallSchema] at org.apache.tools.ant.Main.runBuild(Main.java:668) > > > [InstallSchema] at org.apache.tools.ant.Main.startAnt(Main.java:187) > > > [InstallSchema] at > > > org.apache.tools.ant.launch.Launcher.run(Launcher.java:246) > > > [InstallSchema] at > > > org.apache.tools.ant.launch.Launcher.main(Launcher.java:67) > > > > > > BUILD FAILED > > > /home/brcgusts/GUS/project_home/install/build.xml:28: The following > > > error occurred while executing this line: > > > java.lang.NoClassDefFoundError: org/apache/commons/logging/LogFactory > > > > > > Total time: 6 seconds > > > > > > > > > > > > > > ------------------------------------------------------- > > SF.Net email is sponsored by: Discover Easy Linux Migration Strategies > > from IBM. Find simple to follow Roadmaps, straightforward articles, > > informative Webcasts and more! Get everything you need to get up to > > speed, fast. http://ads.osdn.com/?ad_id=7477&alloc_id=16492&op=click > > _______________________________________________ > > Gusdev-gusdev mailing list > > Gus...@li... > > https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev > > > |
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