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Re: [Gusdev-gusdev] Problem building WDK on Fedora
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From: Alberto D. <da...@io...> - 2005-01-25 09:54:25
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Hi Dave,
We have been debugging WDK 1.1 with the Postgres version of GUS and we
aim to send back our modifications/comments to "gusdev" as soon as
possible... meanwhile, some further potential errors:
WDK Toysite is apparently installed ... in the manual (wiki) there are
several tests to be done by command line: wdkXml, wdkQuery, wdkRecord,
wdkSummary e wdkSanityTest.
By running "wdkXml" we got the output listed below... is it ok ?
[poliana@phytomonas gus_home]$ wdkXml -model toyModel
WdkModel: name='toyModel'
displayName='GUS Web Development Kit Demo'
introduction='Welcome to WDKToySite, a sample website driven by the
GUS Web Development Kit. You are invited to explore this site
to find out about the core functionalities of WDK. Enjoy the
surfing!'
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooo Param Sets oooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
=========================== params ===============================
ParamSet: name='params'
:::::::::::::::::::::::::::::::::::::::::::::
org.gusdb.wdk.model.StringParam: name='primaryKey'
prompt='Primary Key'
help='primary key'
default='null'
sample='null'
regex='null'
substitute='false'
:::::::::::::::::::::::::::::::::::::::::::::
org.gusdb.wdk.model.FlatVocabParam: name='EstLib'
prompt='EST Library'
help='Library from which EST originate'
default='null'
:::::::::::::::::::::::::::::::::::::::::::::
org.gusdb.wdk.model.FlatVocabParam: name='ApiTaxon'
prompt='Organism'
help='Apicomplexon taxons'
default='null'
:::::::::::::::::::::::::::::::::::::::::::::
org.gusdb.wdk.model.StringParam: name='NumEstLibs'
prompt='Number of EST Libs'
help='number of distinct libs'
default='null'
sample='3'
regex='\d+'
substitute='false'
:::::::::::::::::::::::::::::::::::::::::::::
org.gusdb.wdk.model.StringParam: name='NumSeqs'
prompt='Number of Contained Sequences'
help='number of seqs'
default='null'
sample='null'
regex='\d+'
substitute='false'
:::::::::::::::::::::::::::::::::::::::::::::
org.gusdb.wdk.model.StringParam: name='AssemblyConsistency'
prompt='Assembly consistency score'
help='on the scale of 0-100'
default='null'
sample='95'
regex='100|\d|\d{2}'
substitute='false'
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooo Query Sets oooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
=========================== VocabQueries ===============================
QuerySet: name='VocabQueries'
:::::::::::::::::::::::::::::::::::::::::::::
Query: name='EstLib'
displayName='EstLib'
description='null'
help='null'
sql='select distinct dbest_name as term, library_id as internal
from WDKTestLibrary'
--- Columns ---
org.gusdb.wdk.model.Column: name='term'
displayName='null'
help='null'
dataTypeName='null'
inSummary='true'
org.gusdb.wdk.model.Column: name='internal'
displayName='null'
help='null'
dataTypeName='null'
inSummary='true'
--- Params ---
:::::::::::::::::::::::::::::::::::::::::::::
Query: name='ApiTaxon'
displayName='ApiTaxon'
description='null'
help='null'
sql='select distinct name as term, taxon_id as internal
from WDKTestTaxonName where name in ('Neospora
caninum', 'Plasmodium falciparum', 'Eimeria tenella',
'Plasmodium yoelii', 'Sarcocystis neurona', 'Toxoplasma
gondii')'
--- Columns ---
org.gusdb.wdk.model.Column: name='term'
displayName='null'
help='null'
dataTypeName='null'
inSummary='true'
org.gusdb.wdk.model.Column: name='internal'
displayName='null'
help='null'
dataTypeName='null'
inSummary='true'
--- Params ---
=========================== RnaAttributes
===============================
QuerySet: name='RnaAttributes'
:::::::::::::::::::::::::::::::::::::::::::::
Query: name='AssemblyAttrs'
displayName='AssemblyAttrs'
description='null'
help='null'
sql='select a.assembly_consistency,
a.contains_mrna, a.number_of_contained_sequences
from WDKTestAssembly a, WDKTestTaxonName tn
where a.na_sequence_id = $$primaryKey$$
and a.taxon_id = tn.taxon_id'
--- Columns ---
org.gusdb.wdk.model.Column: name='assembly_consistency'
displayName='Assembly consistency'
help='null'
dataTypeName='null'
inSummary='true'
org.gusdb.wdk.model.Column: name='contains_mrna'
displayName='Contains mRNA'
help='null'
dataTypeName='null'
inSummary='true'
org.gusdb.wdk.model.Column: name='number_of_contained_sequences'
displayName='Number contained sequences'
help='null'
dataTypeName='null'
inSummary='true'
The remining output is pretty similar...
The next (tests) commands are showing some output errors:
[poliana@phytomonas gus_home]$ wdkQuery -model toyModel -query
RnaIds.ByDbESTLib -params NumEstLibs 6 ApiTaxon "Neospora caninum"
'ApiTaxon' is not a legal parameter name for query 'RnaIds.ByDbESTLib'
Any tips/suggestions ?
Also, may we ask for any further example on how to use the WDK
utilities ?
Thanks, Alberto
On Thu, 2005-01-20 at 17:45 -0500, Dave Barkan wrote:
> Hey Alberto,
>
> Sorry for the delay on this; it is an issue with the Regression test which
> we supply with the WDK project. You might be right that it is a problem
> with the path. I will take a look.
>
> For now, failures in the regression test do not necessarily indicate a
> critical issue with your installation of the WDK, especially if the
> wdkSanity test works. However, the regression test does need some
> tweaking to account for recent changes to expected behavior, so I will
> check it out and report back.
>
> Thanks,
> Dave
>
> On Tue, 18 Jan 2005, Alberto Davila wrote:
>
> > Thanks Steve !
> >
> > We managed to pass that error.
> >
> > Now, when trying "wdkRegressionTest":
> >
> > [poliana@phytomonas gus_home]$ wdkRegressionTest
> > --commandListFile=/usr/local/GUS/gus_home/data/WDKToySite/Model/regressionTest/sampleRegressionTestCommands
> >
> > running regression test newCacheTest
> >
> > sh: line 1: /newCacheTest.out: Permission denied
> > diff: /newCacheTest.out: No such file or directory
> > diff:
> > /usr/local/GUS/gus_home/data/WDK/ToyModel/regressionTest/expectedResult/newCacheTest.out:
> > No such file or directory
> >
> > Error! Test newCacheTest failed!
> > The observed result of the test was different than the expected result
> > of a test previously run.
> > To see the difference, run diff /newCacheTest.out
> > /usr/local/GUS/gus_home/data/WDK/ToyModel/regressionTest/expectedResult/newCacheTest.out
> >
> > Received error in critical test newCacheTest. Ending regression test
> > at /usr/local/GUS/gus_home/bin/wdkRegressionTest line 115, <GEN0> line
> > 3.
> >
> > Is the path
> > "/usr/local/GUS/gus_home/data/WDK/ToyModel/regressionTest/expectedResult/newCacheTest.out"
> > correct ? Just realized we have this PATH:
> > "/usr/local/GUS/gus_home/data/WDKToySite/Model/regressionTest" instead.
> >
> > Regards, Alberto
> >
> >
> >
> > At 20:44 17/1/2005, Steve Fischer wrote:
> >> i think the problem is that we have the oracle driver hard coded.
> >>
> >> take a look in $PROJECT_HOME/WDK/Model/bin/wdkCache.
> >>
> >> my $cmd = "java -Djdbc.drivers=oracle.jdbc.driver.OracleDriver
> >> -DconfigDir=$GUS_HOME/config -DcmdName=wdkCache -classpath $CLASSPATH
> >> org.gusdb.wdk.model.ResultFactory $args";
> >>
> >> as a workaround, in the files in that directory, change to postgres
> >> drivers.
> >>
> >> we'll make it configurable.
> >>
> >> you'll also need to write a new class for postrgres.
> >>
> >> the Oracle version is:
> >>
> >> $PROJECT_HOME/WDK/Model/src/java/org/gusdb/wdk/model/implementation/Oracle.java
> >>
> >> you'll need to make a similar class for postgres. then, in the file
> >> $PROJECT_HOME/WDKToySite/Model/config/toyModel-config.xml
> >>
> >> you'll need to refer to that class:
> >> <modelConfig login="yourLoginHere"
> >> password="yourPasswordHere"
> >> connectionUrl="yourConnectionUrlHere"
> >> queryInstanceTable="QueryInstance"
> >> maxQueryParams="50"
> >> platformClass="org.gusdb.wdk.model.implementation.Oracle"
> >> initialSize="3"
> >> maxActive="20"
> >> maxIdle="3"
> >> minIdle="3"
> >> maxWait="500"/>
> >>
> >>
> >>
> >> Alberto Davila wrote:
> >>
> >>> Hi Dave,
> >>>
> >>> You are right... that output seem to be fine... however we cannot use WDK,
> >>> here are more logs:
> >>>
> >>> [poliana@phytomonas gus_home]$ wdkCache -model toyModel -new
> >>>
> >>> Making cache table gus.QueryInstance
> >>>
> >>> Failed executing sql:
> >>> create table gus.QueryInstance (query_instance_id number(12) not null,
> >>> query_name varchar2(100) not null, cached number(1) not
> >>> null,result_table varchar2(30), start_time date not null, end_time
> >>> date, dataset_name varchar2(100), session_id varchar2(50), param0
> >>> varchar2(200), param1 varchar2(200), param2 varchar2(200), param3
> >>> varchar2(200), param4 varchar2(200), param5 varchar2(200), param6
> >>> varchar2(200), param7 varchar2(200), param8 varchar2(200), param9
> >>> varchar2(200), param10 varchar2(200), param11 varchar2(200), param12
> >>> varchar2(200), param13 varchar2(200), param14 varchar2(200), param15
> >>> varchar2(200), param16 varchar2(200), param17 varchar2(200), param18
> >>> varchar2(200), param19 varchar2(200), param20 varchar2(200), param21
> >>> varchar2(200), param22 varchar2(200), param23 varchar2(200), param24
> >>> varchar2(200), param25 varchar2(200), param26 varchar2(200), param27
> >>> varchar2(200), param28 varchar2(200), param29 varchar2(200), param30
> >>> varchar2(200), param31 varchar2(200), param32 varchar2(200), param33
> >>> varchar2(200), param34 varchar2(200), param35 varchar2(200), param36
> >>> varchar2(200), param37 varchar2(200), param38 varchar2(200), param39
> >>> varchar2(200), param40 varchar2(200), param41 varchar2(200), param42
> >>> varchar2(200), param43 varchar2(200), param44 varchar2(200), param45
> >>> varchar2(200), param46 varchar2(200), param47 varchar2(200), param48
> >>> varchar2(200), param50 varchar2(200))
> >>>
> >>> FAILED
> >>>
> >>> org.gusdb.wdk.model.WdkModelException: java.sql.SQLException: No suitable
> >>> driver
> >>> at
> >>> org.gusdb.wdk.model.ResultFactory.createCache(ResultFactory.java:136)
> >>> at org.gusdb.wdk.model.ResultFactory.main(ResultFactory.java:524)
> >>> Caused by: java.sql.SQLException: No suitable driver
> >>> at java.sql.DriverManager.getConnection(DriverManager.java:532)
> >>> at java.sql.DriverManager.getConnection(DriverManager.java:171)
> >>> at
> >>> org.apache.commons.dbcp.DriverManagerConnectionFactory.createConnection(DriverManagerConnectionFactory.java:94)
> >>> at
> >>> org.apache.commons.dbcp.PoolableConnectionFactory.makeObject(PoolableConnectionFactory.java:300)
> >>> at
> >>> org.apache.commons.pool.impl.GenericObjectPool.borrowObject(GenericObjectPool.java:816)
> >>> at
> >>> org.apache.commons.dbcp.PoolingDataSource.getConnection(PoolingDataSource.java:140)
> >>> at
> >>> org.gusdb.wdk.model.implementation.SqlUtils.execute(SqlUtils.java:206)
> >>> at
> >>> org.gusdb.wdk.model.ResultFactory.createCache(ResultFactory.java:127)
> >>> ... 1 more
> >>>
> >>>
> >>> We have the Postgres JDBC installed and its PATH (export
> >>> CLASSPATH=/usr/local/GUS/gus_home/lib/java/pg74.215.jdbc3.jar) properly
> >>> set (such as stated in the manual, we have choosen the JDBC version based
> >>> on jsdk and postgres installed versions), then decided to make a test with
> >>> the JDBC (just in case...) :
> >>>
> >>> [poliana@phytomonas gus_home]$ java -classpath . HelloPostgresql banco
> >>> user 'senha'
> >>> hello
> >>>
> >>> Connection to PostgreSQL 7.4.6 successful.
> >>>
> >>> Executing this command: create table jdbc_demo (code int, text
> >>> varchar(20))
> >>>
> >>> Executing this command: insert into jdbc_demo values (1,'One')
> >>>
> >>> Executing this command twice: insert into jdbc_demo values (3,'Four')
> >>>
> >>> Executing this command: update jdbc_demo set text = 'Three' where code = 3
> >>>
> >>> 2 rows were update by this statement
> >>>
> >>>
> >>>
> >>> Now demostrating a prepared statement...
> >>> The Statement looks like this: insert into jdbc_demo values (?,?)
> >>>
> >>> Looping three times filling in the fields...
> >>>
> >>> 10...
> >>>
> >>> 11...
> >>>
> >>> 12...
> >>>
> >>> Now executing the command: select * from jdbc_demo
> >>> code = 1; text = One
> >>>
> >>> code = 3; text = Three
> >>>
> >>> code = 3; text = Three
> >>>
> >>> code = 10; text = HiHo
> >>>
> >>> code = 11; text = HiHo
> >>>
> >>> code = 12; text = HiHo
> >>>
> >>> Executing this command: drop table jdbc_demo
> >>>
> >>> Could it be that the command "wdkCache -model toyModel -new" is trying to
> >>> build the WDK based on the "Oracle version of GUS" ? We are using the
> >>> Postgres version built with the scripts from Jeetendra...
> >>>
> >>> Thanks in advance for any further help ;-)
> >>>
> >>> Cheers, Alberto
> >>>
> >>>
> >>>
> >>> At 12:50 13/1/2005, Dave Barkan wrote:
> >>>
> >>>> Hi Alberto,
> >>>>
> >>>> The output that you sent is actually fine! There are no error messages
> >>>> that I can see, and the output indicates that you built successfully.
> >>>> The "no existing files, doing nothing" message is a simple statement that
> >>>> shouldn't concern you.
> >>>>
> >>>> Are there any other symptoms that lead you to believe there is a problem
> >>>> with the build?
> >>>>
> >>>> Dave
> >>>>
> >>>> On Thu, 13 Jan 2005, Alberto Davila wrote:
> >>>>
> >>>>> HI Dave,
> >>>>>
> >>>>> Thanks...
> >>>>>
> >>>>> I think we made a mistake trying to build "GUS" instead the
> >>>>> "WDKToySite", then we started again, have a look:
> >>>>>
> >>>>> [poliana@phytomonas gus_home]$ build WDKToySite install -append
> >>>>>
> >>>>> ant -f /usr/local/GUS/project_home/install/build.xml install
> >>>>> -Dproj=WDKToySite -DtargetDir=/usr/local/GUS/gus_home -Dcomp=
> >>>>> -DprojectsDir=/usr/local/GUS/project_home -Dappend=true -logger
> >>>>> org.apache.tools.ant.NoBannerLogger | grep ']'
> >>>>>
> >>>>> [echo] .
> >>>>> [echo] Installing WDK/Model
> >>>>> [copy] Copying 13 files to /usr/local/GUS/gus_home/bin
> >>>>> [mkdir] Created dir: /usr/local/GUS/gus_home/lib/xml
> >>>>> [copy] Copying 2 files to /usr/local/GUS/gus_home/lib/xml
> >>>>> [mkdir] Created dir: /usr/local/GUS/gus_home/lib/rng
> >>>>> [copy] Copying 2 files to /usr/local/GUS/gus_home/lib/rng
> >>>>> [mkdir] Created dir: /usr/local/GUS/gus_home/lib/perl/WDK/Model
> >>>>> [copy] Copying 24 files to
> >>>>> /usr/local/GUS/gus_home/lib/perl/WDK/Model
> >>>>> [copy] Copying 10 files to /usr/local/GUS/gus_home/lib/java
> >>>>> [mkdir] Created dir: /usr/local/GUS/gus_home/doc/WDK/Model
> >>>>> [copy] Copying 9 files to /usr/local/GUS/gus_home/doc/WDK/Model
> >>>>> [jar] Building jar: /usr/local/GUS/gus_home/lib/java/WDK-Model.jar
> >>>>> [echo] .
> >>>>> [echo] IMPORTANT REMINDER: If you have not already done so,
> >>>>> please copy any .jar needed for database connectivity (such as
> >>>>> oracle-classes12.jar) into /usr/local/GUS/gus_home/lib/java. The WDK
> >>>>> does not supply these. See the installation instructions available at
> >>>>> www.gusdb.org/wdk for details.
> >>>>> [echo] .
> >>>>> [echo] .
> >>>>> [echo] Installing WDK/Controller
> >>>>> [copy] Copying 3 files to /usr/local/GUS/gus_home/lib/java
> >>>>> [jar] Building jar:
> >>>>> /usr/local/GUS/gus_home/lib/java/WDK-Controller.jar
> >>>>> [echo] .
> >>>>> [echo] Installing WDK/View
> >>>>> [copy] Copying 2 files to /usr/local/GUS/gus_home/lib/java
> >>>>> [concat] No existing files and no nested text, doing nothing
> >>>>> [echo] .
> >>>>> [echo] Installing WDKToySite/Model
> >>>>> [copy] Copying 5 files to /usr/local/GUS/gus_home/config
> >>>>> [mkdir] Created dir: /usr/local/GUS/gus_home/doc/WDKToySite/Model
> >>>>> [copy] Copying 1 file to
> >>>>> /usr/local/GUS/gus_home/doc/WDKToySite/Model
> >>>>> [mkdir] Created dir: /usr/local/GUS/gus_home/data/WDKToySite/Model
> >>>>> [copy] Copying 13 files to
> >>>>> /usr/local/GUS/gus_home/data/WDKToySite/Model
> >>>>> [concat] No existing files and no nested text, doing nothing
> >>>>>
> >>>>> Here is our ".bashrc" file:
> >>>>>
> >>>>> [root@phytomonas poliana]# more .bashrc
> >>>>> # .bashrc
> >>>>>
> >>>>> PATH=$PATH:/usr/local/pgsql/bin; export PATH
> >>>>> PATH=$PATH:/usr/java/j2sdk1.4.2_06/bin; export PATH
> >>>>> PATH=$PATH:/usr/local/apache-ant-1.6.2/bin; export PATH
> >>>>> export ANT_HOME=/usr/local/apache-ant-1.6.2
> >>>>> export JAVA_HOME=/usr/java/j2sdk1.4.2_06
> >>>>> export CATALINA_HOME=/usr/local/jakarta-tomcat-5.0.28
> >>>>> export GUS_HOME=/usr/local/GUS/gus_home
> >>>>> export PROJECT_HOME=/usr/local/GUS/project_home
> >>>>> export GUS_CONFIG_FILE=$GUS_HOME/.gus.properties
> >>>>> PATH=$GUS_HOME/bin:$PROJECT_HOME/install/bin:$ANT_HOME/bin:$PATH; export
> >>>>> PATH
> >>>>> export PERL5LIB=/usr/local/GUS/gus_home/lib/perl
> >>>>>
> >>>>> Here is the software/system we are using:
> >>>>>
> >>>>> Ant: apache-ant-1.6.2
> >>>>> TomCat: jakarta-tomcat-5.0.28
> >>>>> Java: Java(TM) 2 Runtime Environment, Standard Edition (build
> >>>>> 1.4.2_06-b03)
> >>>>> Java HotSpot(TM) Client VM (build 1.4.2_06-b03, mixed mode)
> >>>>> Postgres: postgresql-7.4.6
> >>>>> Perl: 5.8.3
> >>>>> Fedora Core 1
> >>>>> Kernel: 2.4.22-1.2199.nptl
> >>>>>
> >>>>> and, we are using the scripts for the "PostgreSQL" version posted by
> >>>>> Jeetendra (by the way, Jeetendra plugins are working fine, "SubmitRow"
> >>>>> went OK then just using "LoadTaxon", the load iof the latter is taking
> >>>>> more than 48 hours ... and still running...)
> >>>>>
> >>>>> any further suggestions to debug the WDK install ?
> >>>>>
> >>>>> Thanks, Alberto
> >>>>>
> >>>>>
> >>>>>
> >>>>>
> >>>>>
> >>>>>
> >>>>> At 13:49 10/1/2005, Dave Barkan wrote:
> >>>>>
> >>>>>> Hello,
> >>>>>> This error message is usually indicative of the build system being
> >>>>>> unable to connect to your database instance.
> >>>>>> Make sure that you have configured your $GUS_CONFIG_FILE and your
> >>>>>> environment variables as detailed in steps 5 and 9 of the GUS
> >>>>>> installation instructions at
> >>>>>> http://www.gusdb.org/documentation/install-setup.html
> >>>>>> Off the top of my head, that is the most likely solution to your
> >>>>>> problem, but if that doesn't work, I would suggest asking your DBA if
> >>>>>> they can think of anything regarding your local connection and database
> >>>>>> instance.
> >>>>>> Dave
> >>>>>> On Fri, 7 Jan 2005, davila wrote:
> >>>>>>
> >>>>>>> Hi Marc,
> >>>>>>> We just tried to install the WDK 1.1. by using:
> >>>>>>> build GUS install -append
> >>>>>>> then got this errors:
> >>>>>>> ...
> >>>>>>> [javac]
> >>>>>>> /usr/local/GUS/project_home/GUS/Model/src/java/org/gusdb/model/DoTS/AAFamilyExperiment_Table.java:24:
> >>>>>>> illegal start of expression
> >>>>>>> [javac] tableAtts.put("modification_date", new
> >>>>>>> GUSTableAttribute("modification_date", "date", "java.lang.notdefyet",
> >>>>>>> -1, , -1, false, false) );
> >>>>>>> [javac] ^
> >>>>>>> [javac]
> >>>>>>> /usr/local/GUS/project_home/GUS/Model/src/java/org/gusdb/model/DoTS/AAFamilyExperiment_Table.java:24:
> >>>>>>> ')' expected
> >>>>>>> [javac] tableAtts.put("modification_date", new
> >>>>>>> GUSTableAttribute("modification_date", "date", "java.lang.notdefyet",
> >>>>>>> -1, , -1, false, false) );
> >>>>>>> [javac] ^
> >>>>>>> [javac] 100 errors
> >>>>>>> BUILD FAILED
> >>>>>>> /usr/local/GUS/project_home/install/build.xml:26: The following error
> >>>>>>> occurred while executing this line:
> >>>>>>> /usr/local/GUS/project_home/GUS/build.xml:73: The following error
> >>>>>>> occurred while executing this line:
> >>>>>>> /usr/local/GUS/project_home/install/build.xml:221: The following error
> >>>>>>> occurred while executing this line:
> >>>>>>> /usr/local/GUS/project_home/install/build.xml:240: Compile failed; see
> >>>>>>> the compiler error output for details.
> >>>>>>> I saw you got a similar problem and solved it. Could you kindly share
> >>>>>>> how did you solve that ?
> >>>>>>> We use:
> >>>>>>> Java: Java(TM) 2 Runtime Environment, Standard Edition (build
> >>>>>>> 1.4.2_06-b03)
> >>>>>>> Java HotSpot(TM) Client VM (build 1.4.2_06-b03, mixed mode)
> >>>>>>> Apache Ant version 1.6.2 compiled on July 16 2004
> >>>>>>> Thanks, Alberto
> >>>>>>>
> >>>>>>>
> >>>>>>> From: marc jackson <dechon@ho...>
> >>>>>>> Re: problems building gus on redhat linux
> >>>>>>> 2004-12-17 10:21
> >>>>>>> That wasn"t it, but things are resolved. For now. :)
> >>>>>>> Thanks for your help!
> >>>>>>> Regards,
> >>>>>>> Marc
> >>>>>>> >From: Steve Fischer <sfischer@pc...>
> >>>>>>> >To: marc jackson <dechon@ho...>
> >>>>>>> >CC: gusdev-gusdev@li...
> >>>>>>> >Subject: Re: [Gusdev-gusdev] problems building gus on redhat linux
> >>>>>>> >Date: Fri, 17 Dec 2004 07:36:37 -0500
> >>>>>>> >
> >>>>>>> >Marc-
> >>>>>>> >
> >>>>>>> >i suspect that you haven"t defined the environment variable
> >>>>>>> >$GUS_CONFIG_FILE.
> >>>>>>> >
> >>>>>>> >it should be discussed in the docs.
> >>>>>>> >
> >>>>>>> >steve
> >>>>>>> >
> >>>>>>> >[sfischer@cottus ~]$ echo $GUS_CONFIG_FILE
> >>>>>>> >/home/sfischer/.gus.properties
> >>>>>>> >[sfischer@cottus ~]$ more $GUS_CONFIG_FILE
> >>>>>>> >databaseLogin=your_login
> >>>>>>> >databasePassword=your_password
> >>>>>>> >
> >>>>>>> >readOnlyDatabaseLogin=your_login
> >>>>>>> >readOnlyDatabasePassword=your_password
> >>>>>>> >
> >>>>>>> >dbiDsn=dbi:Oracle:host=cbilbld.pcbi.upenn.edu;sid=cbilbld
> >>>>>>> #your
> >>>>>>> >dsn string here
> >>>>>>> >
> >>>>>>> >coreSchemaName=Core
> >>>>>>> >userName=sfischer #your user name here
> >>>>>>> >group=CBIL # your group name here
> >>>>>>> >project=GUS # your project here
> >>>>>>> >[sfischer@cottus ~]$
> >>>>>>> >
> >>>>>>> >
> >>>>>>> >
> >>>>>>> >marc jackson wrote:
> >>>>>>> >
> >>>>>>> >>Hello,
> >>>>>>> >> I"m having a problem getting GUS to install/compile. I"ve
> >>>>>>> been
> >>>>>>> >>able to configure the database, but when I go to run the
> >>>>>>> "ga"
> >>>>>>> >>command to bootstrap in data. it pukes. In working with Ed
> >>>>>>> >>Robinson, we got to the 2nd build. Specifically:
> >>>>>>> >> build GUS install -append returns the following error:
> >>>>>>> >> [exec] Required property "group" must be specified in at
> >>>>>>> >>/opt/gus/gus_home/lib/perl/CBIL/Util/PropertySet.pm line 53.
> >>>>>>> >>BUILD FAILED
> >>>>>>> >>/opt/gus/project_home/install/build.xml:26: The following
> >>>>>>> error
> >>>>>>> >>occurred while executing this line:
> >>>>>>> >>/opt/gus/project_home/GUS/build.xml:190: exec returned: -1
> >>>>>>> >> any help would be appreacited.
> >>>>>>> >> Regards,
> >>>>>>> >> Marc
> >
> >
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