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[Gusdev-gusdev] how to upload dataset of 'RAD' and 'DoTS' ? many thanks in advance!
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From: sam w. <gus...@ya...> - 2003-11-08 06:18:50
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Dear friends,
I have installed GUS successfully and registed 'ga'
and 'SubmitRow' plugin. now I want to upload data of
'RAD' and 'DoTS'. but when I use 'ga' to upload data
of 'RAD', I met the following problem,
first, I don't know if I need register 'ArrayLoader'
plugin. when I tried to register it using the
following command, I got the errors as follow:
[oracle@GUS perl]$ ga +create
GUS::RAD::Plugin:ArrayLoader --verbose
Reading properties from
/opt/gus/gus_home/config/GUS-PluginMgr.prop
Reading properties from /home/oracle/.gus.properties
DBI subclasses 'GUS::ObjRelP::DbiDbHandle::db' and
::st are not setup, RootClass ignored at
/opt/gus/gus_home/lib/perl/GUS/ObjRelP/DbiDatabase.pm
line 152
DBI subclasses 'GUS::ObjRelP::DbiDbHandle::db' and
::st are not setup, RootClass ignored at
/opt/gus/gus_home/lib/perl/GUS/ObjRelP/DbiDatabase.pm
line 152
DBI subclasses 'GUS::ObjRelP::DbiDbHandle::db' and
::st are not setup, RootClass ignored at
/opt/gus/gus_home/lib/perl/GUS/ObjRelP/DbiDatabase.pm
line 152
ERROR: syntax error at (eval 3) line 1, near "require
GUS::RAD::Plugin:"
--------------------------- STACK TRACE
-------------------------
GUS::PluginMgr::Plugin::error('GUS::PluginMgr::GusApplication=HASH(0x804d00c)','syntax
error at (eval 3) line 1, near "require
GUS::RAD::Plug...') called at
/opt/gus/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm
line 248
GUS::PluginMgr::GusApplication::newFromPluginName('GUS::PluginMgr::GusApplication=HASH(0x804d00c)','GUS::RAD::Plugin:ArrayLoader')
called at
/opt/gus/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm
line 664
GUS::PluginMgr::GusApplication::create_or_update_implementation('GUS::PluginMgr::GusApplication=HASH(0x804d00c)',0,'GUS::RAD::Plugin:ArrayLoader')
called at
/opt/gus/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm
line 456
GUS::PluginMgr::GusApplication::doMajorMode_Create('GUS::PluginMgr::GusApplication=HASH(0x804d00c)','GUS::RAD::Plugin:ArrayLoader')
called at
/opt/gus/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm
line 283
GUS::PluginMgr::GusApplication::doMajorMode('GUS::PluginMgr::GusApplication=HASH(0x804d00c)','GUS::RAD::Plugin:ArrayLoader')
called at
/opt/gus/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm
line 192
GUS::PluginMgr::GusApplication::parseAndRun('GUS::PluginMgr::GusApplication=HASH(0x804d00c)','ARRAY(0x8060680)')
called at /opt/gus/gus_home/bin/ga line 11
if I ignore this error and try to upload data file,
then I got the following errors:
[oracle@GUS perl]$ ga GUS::RAD::Plugin:ArrayLoader
--cfg_file
/opt/gus/projects/RAD/DataLoad/config/ArrayLoader.cfg
--data_file /home/oracle/RADDOTSdataset/assay5quan3
Reading properties from
/opt/gus/gus_home/config/GUS-PluginMgr.prop
ERROR: syntax error at (eval 1) line 1, near "require
GUS::RAD::Plugin:"
--------------------------- STACK TRACE
-------------------------
GUS::PluginMgr::Plugin::error('GUS::PluginMgr::GusApplication=HASH(0x804d00c)','syntax
error at (eval 1) line 1, near "require
GUS::RAD::Plug...') called at
/opt/gus/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm
line 248
GUS::PluginMgr::GusApplication::newFromPluginName('GUS::PluginMgr::GusApplication=HASH(0x804d00c)','GUS::RAD::Plugin:ArrayLoader')
called at
/opt/gus/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm
line 377
GUS::PluginMgr::GusApplication::doMajorMode_Run('GUS::PluginMgr::GusApplication=HASH(0x804d00c)','GUS::RAD::Plugin:ArrayLoader')
called at
/opt/gus/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm
line 283
GUS::PluginMgr::GusApplication::doMajorMode('GUS::PluginMgr::GusApplication=HASH(0x804d00c)','GUS::RAD::Plugin:ArrayLoader')
called at
/opt/gus/gus_home/lib/perl/GUS/PluginMgr/GusApplication.pm
line 192
GUS::PluginMgr::GusApplication::parseAndRun('GUS::PluginMgr::GusApplication=HASH(0x804d00c)','ARRAY(0x8060680)')
called at /opt/gus/gus_home/bin/ga line 11
sorry for the long error information. in a word, I
don't know how can I upload 'RAD' data even though I
found there several plugins for uploading 'RAD'
dataset. besides, I don't know if I should use
'ArrayLoader' plugin to upload dataset download from
the following webpage:
http://www.cbil.upenn.edu/RAD3/php/download.php#study5
because I saw there are totally six differents plugins
in 'RAD'. I don't know which plugin should upload
which data, in fact, I just find the above link about
RAD dataset. and I don't know if there are some other
datasets that can be downloaded from the website.
as for 'DoTS', it seems worse than 'RAD', because I
can't find any plugin to upload the dataset to GUS.
does anyone upload dataset of 'RAD' and 'DoTS' before?
or does any document about how to upload dataset about
'RAD' and 'DoTS'? any hint will be greatly appreciate!
best wishes!
Sammy
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