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From: <jgr...@us...> - 2008-02-12 05:01:38
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Revision: 310
http://obi.svn.sourceforge.net/obi/?rev=310&view=rev
Author: jgreenbaum
Date: 2008-02-11 21:01:40 -0800 (Mon, 11 Feb 2008)
Log Message:
-----------
fixed issue with .xtra files throwing errors
Modified Paths:
--------------
branchDevelopment/trunk/sourcecodes/xl2owl/xl2owl.pl
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From: <jgr...@us...> - 2008-02-12 02:42:49
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Revision: 309
http://obi.svn.sourceforge.net/obi/?rev=309&view=rev
Author: jgreenbaum
Date: 2008-02-11 18:42:52 -0800 (Mon, 11 Feb 2008)
Log Message:
-----------
Modified Paths:
--------------
branchDevelopment/trunk/sourcecodes/xl2owl/xl2owl.pl
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From: <jgr...@us...> - 2008-02-11 22:55:35
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Revision: 308
http://obi.svn.sourceforge.net/obi/?rev=308&view=rev
Author: jgreenbaum
Date: 2008-02-11 14:55:38 -0800 (Mon, 11 Feb 2008)
Log Message:
-----------
added perl source code
Added Paths:
-----------
branchDevelopment/trunk/sourcecodes/xl2owl/xl2owl.pl
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From: <jgr...@us...> - 2008-02-11 17:41:11
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Revision: 307
http://obi.svn.sourceforge.net/obi/?rev=307&view=rev
Author: jgreenbaum
Date: 2008-02-11 09:41:12 -0800 (Mon, 11 Feb 2008)
Log Message:
-----------
updated README with instructions for binaries
Modified Paths:
--------------
branchDevelopment/trunk/sourcecodes/xl2owl/README
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From: <dan...@us...> - 2008-02-11 15:17:44
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Revision: 306
http://obi.svn.sourceforge.net/obi/?rev=306&view=rev
Author: daniel_schober
Date: 2008-02-11 06:38:22 -0800 (Mon, 11 Feb 2008)
Log Message:
-----------
refined microarray subclasses, added defs
Modified Paths:
--------------
branchDevelopment/trunk/InstrumentAndPart.owl
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From: <dan...@us...> - 2008-02-11 13:16:37
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Revision: 305
http://obi.svn.sourceforge.net/obi/?rev=305&view=rev
Author: daniel_schober
Date: 2008-02-11 05:16:42 -0800 (Mon, 11 Feb 2008)
Log Message:
-----------
Added def for 'labware
Moved microarray_plattform under plattform
Added class 'microarray'
Added class 'DNA-microarray' (both incl. metadata)
Modified Paths:
--------------
branchDevelopment/trunk/InstrumentAndPart.owl
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From: <al...@us...> - 2008-02-11 12:59:36
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Revision: 304
http://obi.svn.sourceforge.net/obi/?rev=304&view=rev
Author: alanr
Date: 2008-02-11 04:59:24 -0800 (Mon, 11 Feb 2008)
Log Message:
-----------
minor oops - edited _defined_biomaterial -> _defined_material , but missed one instance.
Modified Paths:
--------------
branchDevelopment/trunk/Biomaterial.owl
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From: <al...@us...> - 2008-02-11 04:20:10
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Revision: 303
http://obi.svn.sourceforge.net/obi/?rev=303&view=rev
Author: alanr
Date: 2008-02-10 20:20:14 -0800 (Sun, 10 Feb 2008)
Log Message:
-----------
remove import statements that managed to slip in.
Modified Paths:
--------------
branchDevelopment/trunk/InstrumentAndPart.owl
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From: <p_r...@us...> - 2008-02-10 20:53:05
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Revision: 302
http://obi.svn.sourceforge.net/obi/?rev=302&view=rev
Author: p_rocca_serra
Date: 2008-02-10 12:53:09 -0800 (Sun, 10 Feb 2008)
Log Message:
-----------
Modified Paths:
--------------
branchDevelopment/trunk/Biomaterial.owl
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From: <p_r...@us...> - 2008-02-10 20:52:44
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Revision: 301
http://obi.svn.sourceforge.net/obi/?rev=301&view=rev
Author: p_rocca_serra
Date: 2008-02-10 12:52:49 -0800 (Sun, 10 Feb 2008)
Log Message:
-----------
PRS:
Added detector_role and reporter_role from tracker issue 1866458 as children of reagent
Added a example of usage with pmid for reporter_role
PB#1: Reporter already exists with 2 children (dye and radiolabel). left in place for the moment but requires resolution during role branch call.
suggestion:moved them as children of reporter role
note: see mapping file to CHEBI role posted on tracker
PB#2: Correction of upper case pb to match requirements of naming convention (partial)
Modified Paths:
--------------
branchDevelopment/trunk/Quality.owl
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From: <jgr...@us...> - 2008-02-10 18:34:16
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Revision: 300
http://obi.svn.sourceforge.net/obi/?rev=300&view=rev
Author: jgreenbaum
Date: 2008-02-10 10:34:21 -0800 (Sun, 10 Feb 2008)
Log Message:
-----------
* Added xl2owl utility to convert between OWL and tab-delimited text
* Created spreadsheets-exported directory including exports of all OWL
files (svn revision 299)
Revision Links:
--------------
http://obi.svn.sourceforge.net/obi/?rev=299&view=rev
Added Paths:
-----------
branchDevelopment/trunk/sourcecodes/xl2owl/
branchDevelopment/trunk/sourcecodes/xl2owl/Example.txt
branchDevelopment/trunk/sourcecodes/xl2owl/README
branchDevelopment/trunk/sourcecodes/xl2owl/binaries/
branchDevelopment/trunk/sourcecodes/xl2owl/binaries/linux/
branchDevelopment/trunk/sourcecodes/xl2owl/binaries/linux/xl2owl
branchDevelopment/trunk/sourcecodes/xl2owl/binaries/osx/
branchDevelopment/trunk/sourcecodes/xl2owl/binaries/osx/xl2owl
branchDevelopment/trunk/sourcecodes/xl2owl/binaries/windows/
branchDevelopment/trunk/sourcecodes/xl2owl/binaries/windows/xl2owl.exe
branchDevelopment/trunk/spreadsheets-exported/
branchDevelopment/trunk/spreadsheets-exported/AnnotationProperty.txt
branchDevelopment/trunk/spreadsheets-exported/Biomaterial.txt
branchDevelopment/trunk/spreadsheets-exported/DataTransformation.txt
branchDevelopment/trunk/spreadsheets-exported/DigitalEntityPlus.txt
branchDevelopment/trunk/spreadsheets-exported/DigitalEntityPlus.txt.xtra
branchDevelopment/trunk/spreadsheets-exported/InstrumentAndPart.txt
branchDevelopment/trunk/spreadsheets-exported/OBI-Function.txt
branchDevelopment/trunk/spreadsheets-exported/Obsolete.txt
branchDevelopment/trunk/spreadsheets-exported/Plan.txt
branchDevelopment/trunk/spreadsheets-exported/PlanAndPlannedProcess.owl
branchDevelopment/trunk/spreadsheets-exported/PlanAndPlannedProcess.owl.xtra
branchDevelopment/trunk/spreadsheets-exported/Quality.txt
branchDevelopment/trunk/spreadsheets-exported/Relations.txt
branchDevelopment/trunk/spreadsheets-exported/Role-staging.txt
branchDevelopment/trunk/spreadsheets-exported/TheRest.txt
branchDevelopment/trunk/spreadsheets-exported/obi-liver.txt
branchDevelopment/trunk/spreadsheets-exported/obi-liver.txt.xtra
branchDevelopment/trunk/spreadsheets-exported/obi-owl-full.txt
branchDevelopment/trunk/spreadsheets-exported/obi.txt
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From: <al...@us...> - 2008-02-09 05:16:48
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Revision: 299
http://obi.svn.sourceforge.net/obi/?rev=299&view=rev
Author: alanr
Date: 2008-02-08 21:16:50 -0800 (Fri, 08 Feb 2008)
Log Message:
-----------
s/_defined_biomaterial/_defined_material/
Modified Paths:
--------------
branchDevelopment/trunk/InstrumentAndPart.owl
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From: <al...@us...> - 2008-02-08 23:04:48
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Revision: 298
http://obi.svn.sourceforge.net/obi/?rev=298&view=rev
Author: alanr
Date: 2008-02-08 15:04:51 -0800 (Fri, 08 Feb 2008)
Log Message:
-----------
s/_defined_biomaterial/_defined_material/
Modified Paths:
--------------
branchDevelopment/trunk/Biomaterial.owl
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From: <mco...@us...> - 2008-02-08 20:38:53
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Revision: 297
http://obi.svn.sourceforge.net/obi/?rev=297&view=rev
Author: mcourtot
Date: 2008-02-08 12:38:49 -0800 (Fri, 08 Feb 2008)
Log Message:
-----------
added relation to material for the defined class artefact_object
Modified Paths:
--------------
branchDevelopment/trunk/InstrumentAndPart.owl
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From: <al...@us...> - 2008-02-08 18:52:05
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Revision: 296
http://obi.svn.sourceforge.net/obi/?rev=296&view=rev
Author: alanr
Date: 2008-02-08 10:52:08 -0800 (Fri, 08 Feb 2008)
Log Message:
-----------
'material' changes per biomaterial call. biomaterial and artefact_object are now defined classes.
Modified Paths:
--------------
branchDevelopment/trunk/Biomaterial.owl
branchDevelopment/trunk/InstrumentAndPart.owl
branchDevelopment/trunk/PlanAndPlannedProcess.owl
branchDevelopment/trunk/Relations.owl
branchDevelopment/trunk/Role.owl
branchDevelopment/trunk/TheRest.owl
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From: <al...@us...> - 2008-02-08 17:15:46
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Revision: 295
http://obi.svn.sourceforge.net/obi/?rev=295&view=rev
Author: alanr
Date: 2008-02-08 09:15:49 -0800 (Fri, 08 Feb 2008)
Log Message:
-----------
s/consumed/used/
Modified Paths:
--------------
branchDevelopment/trunk/Role.owl
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From: <al...@us...> - 2008-02-08 17:08:02
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Revision: 294
http://obi.svn.sourceforge.net/obi/?rev=294&view=rev
Author: alanr
Date: 2008-02-08 09:08:01 -0800 (Fri, 08 Feb 2008)
Log Message:
-----------
recover roles from previous version. Add protocol_application_role, move treated_role from PlanAndPlannedProcess to Role
Modified Paths:
--------------
branchDevelopment/trunk/PlanAndPlannedProcess.owl
branchDevelopment/trunk/Role.owl
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From: <bjo...@us...> - 2008-02-07 19:55:20
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Revision: 293
http://obi.svn.sourceforge.net/obi/?rev=293&view=rev
Author: bjoernpeters
Date: 2008-02-07 11:55:22 -0800 (Thu, 07 Feb 2008)
Log Message:
-----------
Protocol Application call
Modified Paths:
--------------
branchDevelopment/trunk/PlanAndPlannedProcess.owl
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From: <jam...@us...> - 2008-02-06 13:15:26
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Revision: 292
http://obi.svn.sourceforge.net/obi/?rev=292&view=rev
Author: jamesmalone
Date: 2008-02-06 05:15:26 -0800 (Wed, 06 Feb 2008)
Log Message:
-----------
Update reflecting action items from Nov data transformation workshop:
TB-4, EM-8, EM-16
https://wiki.cbil.upenn.edu/obiwiki/index.php/Data_transformation_workshop
James Malone, Feb 6th 2008
Modified Paths:
--------------
branchDevelopment/trunk/DataTransformation.owl
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From: <al...@us...> - 2008-02-01 03:07:14
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Revision: 291
http://obi.svn.sourceforge.net/obi/?rev=291&view=rev
Author: alanr
Date: 2008-01-31 19:07:18 -0800 (Thu, 31 Jan 2008)
Log Message:
-----------
example starting Philippe's liver transcriptomics experiment.
Added Paths:
-----------
branchDevelopment/trunk/obi-liver.owl
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From: <al...@us...> - 2008-02-01 00:51:42
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Revision: 290
http://obi.svn.sourceforge.net/obi/?rev=290&view=rev
Author: alanr
Date: 2008-01-31 16:51:47 -0800 (Thu, 31 Jan 2008)
Log Message:
-----------
Added Material
Modified Paths:
--------------
branchDevelopment/trunk/Biomaterial.owl
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From: <bb...@us...> - 2008-01-31 18:18:23
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Revision: 289
http://obi.svn.sourceforge.net/obi/?rev=289&view=rev
Author: bbug
Date: 2008-01-31 10:18:08 -0800 (Thu, 31 Jan 2008)
Log Message:
-----------
depricated ALL current OBI Function classes EXCEPT <OBI function> and <instrument function> until the PlanAndPlannedProcess branch has produced a set of canonical instrument processes for review as putative bfo:functions.
Modified Paths:
--------------
branchDevelopment/trunk/OBI-Function.owl
branchDevelopment/trunk/Obsolete.owl
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From: <al...@us...> - 2008-01-31 16:45:49
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Revision: 288
http://obi.svn.sourceforge.net/obi/?rev=288&view=rev
Author: alanr
Date: 2008-01-31 08:45:46 -0800 (Thu, 31 Jan 2008)
Log Message:
-----------
add xmlns="http://obi.sourceforge.net/ontology/OBI.owl#" so that obi property names can be writted <definition_source instead of <OBI:definition_source
Modified Paths:
--------------
branchDevelopment/trunk/Obsolete.owl
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From: <al...@us...> - 2008-01-31 13:34:26
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Revision: 287
http://obi.svn.sourceforge.net/obi/?rev=287&view=rev
Author: alanr
Date: 2008-01-31 05:34:30 -0800 (Thu, 31 Jan 2008)
Log Message:
-----------
forgot namespace
Modified Paths:
--------------
branchDevelopment/trunk/PlanAndPlannedProcess.owl
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From: <al...@us...> - 2008-01-31 07:25:19
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Revision: 286
http://obi.svn.sourceforge.net/obi/?rev=286&view=rev
Author: alanr
Date: 2008-01-30 23:25:21 -0800 (Wed, 30 Jan 2008)
Log Message:
-----------
Merge Plan.owl into ProtocolApplication.owl then renamed PlanAndPlannedProcess.owl
Adjust the templates to match.
****************************************************************
Note: You will need to adjust your obi.owl and obi.repository to
compensate for the name change Remove Plan.owl from all, and change
"ProtocolApplication" to "PlanAndPlannedProcess"
****************************************************************
Modified Paths:
--------------
branchDevelopment/trunk/Plan.owl
branchDevelopment/trunk/obi.owl.template
branchDevelopment/trunk/obi.repository.template
branchDevelopment/trunk/obi.repository.template.pc
branchDevelopment/trunk/sourcecodes/make-all-in-one.pl
Added Paths:
-----------
branchDevelopment/trunk/PlanAndPlannedProcess.owl
Removed Paths:
-------------
branchDevelopment/trunk/ProtocolApplication.owl
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