[seek-dev] ecogrid query -- using command-line ecogrid client
Bing Zhu
bzhu at sdsc.edu
Wed Jul 21 13:54:56 PDT 2004
BTW, since we encountered some disk problems in the machine, orion.sdsc.edu,
I started another
ecogrid level I service (i.e. Tomcat) in the machine sasa.sdsc.edu at port
8080.
The examples are using the following GSH for SRB node in Ecogrid.
http://sasa.sdsc.edu:8080/ogsa/services/org/ecoinformatics/ecogrid/EcoGridQu
eryInterfaceLevelOneService
Bing
-----Original Message-----
From: Bing Zhu [mailto:bzhu at sdsc.edu]
Sent: Friday, July 23, 2004 1:47 PM
To: davids at sdsc.edu
Cc: seek-dev at ecoinformatics.org
Subject: RE: [seek-dev] ecogrid query -- using command-line ecogrid client
David,
I created some sample query documents for metadata-based searching for
whywhere
data within SRB via our ecogrid system.
The files can be found in the directory,
/export/home/bzhu/seek_client/testfiles, in the
machine landscape.sdsc.edu.
And also I installed the ecogrid client software in
/export/home/bzhu/seek_client. This
is from our ecogrid command-line-based client package. There is a readme
file, Readme.txt,
which has syntax for ecogrid client and examples of running ecogrid query
for Metacat,
SRB, etc.
The exmaple query documents I created are for whywhere data in SRB. If you
upload/
create datasets in Metadat system, same client and syntax can be used for
querying
whywhere data within Metacat.
Here is an example of query metadat for whywhere data. (This is part of the
query document, whywhere2.xml).
<condition operator="LIKE" concept="file title">%World Ocean Atlas
2001 1 degree standard deviation%</condition>
<condition operator="EQUALS" concept="data type">float</condition>
<condition operator="EQUALS" concept="columns">360</condition>
<condition operator="EQUALS" concept="rows">180</condition>
Sincerely,
Bing
-----Original Message-----
From: seek-dev-admin at ecoinformatics.org
[mailto:seek-dev-admin at ecoinformatics.org]On Behalf Of David Stockwell
Sent: Thursday, July 22, 2004 10:30 AM
Cc: seek-dev at ecoinformatics.org
Subject: Re: [seek-dev] ecogrid query
>
>
>Another option is to load EML metadata describing
>the data into the KNB metacat, and then point that at the data objects
>in the SRB.
>
This sounds like a good option. The metadata is a used in the Global
Ecosystems CDs and
would be best to accommodate it. An example is listed below. Who do I
call now?
file title : Olson World Ecosystems Version 1.3A
data type : byte
file type : binary
columns : 720
rows : 360
ref. system : lat/long
ref. units : deg
unit dist. : 1.0000000
min. X : -180.0000000
max. X : 180.0000000
min. Y : -90.0000000
max. Y : 90.0000000
pos'n error : unknown
resolution : 0.5000000
min. value : 0
max. value : 29
value units : classes
value error : unknown
flag value : none
flag def'n : none
legend cats : 30
category 0 : 0 OCEAN/SEA Oceans, Seas (including Black Sea)
category 1 : 1 CONIFOR Conifer Forest
category 2 : 2 BRODLFOR Broadleaf Forest: temperate, subtropical drought
category 3 : 3 MIXEDFOR Mixed Forest: conifer/broadleaf; so. Boreal
category 4 : 4 GRASSHRB Grassland +/- Shrub or Tree
category 5 : 5 TROPICFR Tropical/subtr. Forest: montane, seasonal,
rainforest
category 6 : 6 SCRUBWDS Scrub +/- Woodland &/or fields (evergreen/decid.)
category 7 : 7 SEMIDTUN Semidesert shrub/steppe; Tundra (polar, alpine)
category 8 : 8 FLDWDSAV Field/Woods complex &/or Savanna, tallgrass
category 9 : 9 NORTAIGA Northern Boreal Taiga woodland/tundra
category 10 : 10 FORFDREV Forest/Field; Dry Evergreen broadleaf woods
category 11 : 11 WETLAND Wetlands: mires (bog/fen); marsh/swamp +/-
mangrove
category 12 : 12 DESERTS Desert: bare/alpine; sandy; salt/soda
category 13 : 13 SHRBTRST Shrub/Tree: succulent/thorn
category 14 : 14 CROPSETL Crop/Settlement (irrigated or not)
category 15 : 15 CONIFRFC Conifer snowy Rainforest, coastal
category 16 : 16 not used
category 17 : 17 not used
category 18 : 18 not used
category 19 : 19 MANGROVE Mangrove/wet forest/thicket + tidal flat
category 20 : 20 WALANCST Water (~51-90%) & Land, Coast/hinterland
complexes
category 21 : 21 not used
category 22 : 22 not used
category 23 : 23 ISLFRING Island or Fringe land (91-99% water)
category 24 : 24 LANDWATR Land/Water (~21-50%) complexes
category 25 : 25 ICE Ice: Glaciers & emerging rocks near fringe
category 26 : 26 POLARDES Polar Desert
category 27 : 27 WTNDMHTH Wooded Tundra Margin; Heath/moorland
category 28 : 28 not used
category 29 : 29 INLDWATR Inland Water bodies (including Caspian Sea)
comment : 14 Major Ecosystem classes and 8 fringe classes, plus Ocean
lineage : Derived from WE1.4D by aggregating classes to .5-degree
completeness: .5-degree coverage complete for land areas, based on WE1.4D
consistency : All values represent spatial dominance at .5-degree
Arcot Rajasekar wrote:
>Matt
> I like the approach of a separate metadata respository wityh links
>to an object repository. But if the metadata is not in EML then we may
>have to do some other metadata repository possibly MCAT.
>
> thanks
>raja
>
>On Thu, 22 Jul 2004, Matt Jones wrote:
>
>
>
>>Hi David,
>>
>>You can query using the existing ecogrid interfaces, but only against
>>the metadata that is available for the data source. By default, SRB
>>doesn't have much contextual metadata. I've talked with Raja about
>>modifying SRB to accept an EML description of the data and load that
>>into the extended metadata for the dataset, but that hasn't been done
>>yet as far as I know. Another option is to load EML metadata describing
>>the data into the KNB metacat, and then point that at the data objects
>>in the SRB. Then, searching the EcoGrid will find metadata records in
>>one system that point at data objects in abother system. But you'd be
>>able to search the much more comprehensive EML metadata.
>>
>>If you have metadata you want to query, you can use the QueryBuilder to
>>construct a query, but it is intended as a developer's tool for testing,
>>not an end-user tool. Steve Tekell is designing and implementing a
>>web-based query app for EcoGrid targeted at scientists. When finished,
>>it will be installed as part of the SEEK web site. Until then, Rod's
>>tool and the commandline client are your options for submitting a query.
>> There is an extremely simple query tool prototype in Kepler, but right
>>now it only searches the KNB Ecogrid node.
>>
>>Matt
>>
>>David Stockwell wrote:
>>
>>
>>>Hi,
>>>We are at the point now where we would like to query
>>>the metadata on our datasets to return a list of those of interest,
>>>for further processing. Could anyone suggest how we might
>>>use the ecogrid to say, query for all datasets that concern climate?
>>>Is this something I can use the QueryBuilder for Rod?
>>>Cheers
>>>
>>>_______________________________________________
>>>seek-dev mailing list
>>>seek-dev at ecoinformatics.org
>>>http://www.ecoinformatics.org/mailman/listinfo/seek-dev
>>>
>>>
>>
>>
--
David R.B. Stockwell, PhD
Assistant Research Scientist
University of California, San Diego
San Diego Supercomputer Center, MC 0505
9500 Gilman Dr, Bldg 109
La Jolla, CA 92093-0505
Tel: 858 8220942
Fax: 858 5345056
Web: http://biodi.sdsc.edu
Email: davids at sdsc.edu
_______________________________________________
seek-dev mailing list
seek-dev at ecoinformatics.org
http://www.ecoinformatics.org/mailman/listinfo/seek-dev
More information about the Seek-dev
mailing list