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obi-svn-commit
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From: <all...@us...> - 2007-06-05 16:04:47
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Revision: 58
http://obi.svn.sourceforge.net/obi/?rev=58&view=rev
Author: allysonlister
Date: 2007-06-05 09:04:39 -0700 (Tue, 05 Jun 2007)
Log Message:
-----------
These "without" files are no longer needed by the branch files. Clean-up only.
Removed Paths:
-------------
branchDevelopment/trunk/OBIWithoutBiomaterial.owl
branchDevelopment/trunk/OBIWithoutDigitalEntityPlus.owl
branchDevelopment/trunk/OBIWithoutRole.owl
branchDevelopment/trunk/OBIwithoutDataTransformation.owl
branchDevelopment/trunk/OBIwithoutInstrumentAndPart.owl
branchDevelopment/trunk/OBIwithoutPlan.owl
branchDevelopment/trunk/OBIwithoutProtocolAppication.owl
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From: <all...@us...> - 2007-06-05 16:47:24
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Revision: 60
http://obi.svn.sourceforge.net/obi/?rev=60&view=rev
Author: allysonlister
Date: 2007-06-05 09:47:24 -0700 (Tue, 05 Jun 2007)
Log Message:
-----------
Added in Liju's changes from her email sent today.
Modified Paths:
--------------
branchDevelopment/trunk/Biomaterial.owl
branchDevelopment/trunk/DataTransformation.owl
branchDevelopment/trunk/DigitalEntityPlus.owl
branchDevelopment/trunk/Plan.owl
branchDevelopment/trunk/ProtocolAppication.owl
branchDevelopment/trunk/Role.owl
branchDevelopment/trunk/TheRest.owl
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From: <al...@us...> - 2007-06-06 09:45:57
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Revision: 64
http://obi.svn.sourceforge.net/obi/?rev=64&view=rev
Author: alanr
Date: 2007-06-06 02:45:55 -0700 (Wed, 06 Jun 2007)
Log Message:
-----------
fix typos in names
Added Paths:
-----------
branchDevelopment/trunk/ImportingExportingComplementaryOWLFile.doc
branchDevelopment/trunk/ProtocolApplication.owl
Removed Paths:
-------------
branchDevelopment/trunk/ImprotingExportingComplementaryOWLFile.doc
branchDevelopment/trunk/ProtocolAppication.owl
Property Changed:
----------------
branchDevelopment/trunk/
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From: <al...@us...> - 2007-06-07 00:07:07
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Revision: 65
http://obi.svn.sourceforge.net/obi/?rev=65&view=rev
Author: alanr
Date: 2007-06-06 17:07:09 -0700 (Wed, 06 Jun 2007)
Log Message:
-----------
update for protege compatibility
Modified Paths:
--------------
branchDevelopment/trunk/Biomaterial.owl
branchDevelopment/trunk/DataTransformation.owl
branchDevelopment/trunk/DigitalEntityPlus.owl
branchDevelopment/trunk/InstrumentAndPart.owl
branchDevelopment/trunk/Plan.owl
branchDevelopment/trunk/ProtocolApplication.owl
branchDevelopment/trunk/Role.owl
branchDevelopment/trunk/TheRest.owl
Added Paths:
-----------
branchDevelopment/trunk/external/
branchDevelopment/trunk/external/protege-dc.owl
branchDevelopment/trunk/external/protege.owl
branchDevelopment/trunk/external/ro.owl
branchDevelopment/trunk/external/ro_bfo_bridge.owl
branchDevelopment/trunk/obi.owl
branchDevelopment/trunk/obi.repository
Property Changed:
----------------
branchDevelopment/trunk/
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From: <al...@us...> - 2007-06-07 06:41:25
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Revision: 68
http://obi.svn.sourceforge.net/obi/?rev=68&view=rev
Author: alanr
Date: 2007-06-06 23:41:04 -0700 (Wed, 06 Jun 2007)
Log Message:
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Display labels. Externals read-only
Modified Paths:
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branchDevelopment/trunk/obi.owl
branchDevelopment/trunk/obi.pprj
branchDevelopment/trunk/obi.repository
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From: <al...@us...> - 2007-06-13 04:19:26
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Revision: 71
http://obi.svn.sourceforge.net/obi/?rev=71&view=rev
Author: alanr
Date: 2007-06-12 21:19:28 -0700 (Tue, 12 Jun 2007)
Log Message:
-----------
update repository to be safer and add alternative (maybe easier) version. Add draft instructions for 'local' method of working with svn
Modified Paths:
--------------
branchDevelopment/trunk/obi.repository.template
Added Paths:
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branchDevelopment/trunk/instructions-svn-local.txt
branchDevelopment/trunk/obi.repository.template2
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From: <al...@us...> - 2007-06-16 08:26:19
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Revision: 72
http://obi.svn.sourceforge.net/obi/?rev=72&view=rev
Author: alanr
Date: 2007-06-16 01:26:21 -0700 (Sat, 16 Jun 2007)
Log Message:
-----------
obi.owl, obi.pprj -> templates
Modified Paths:
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branchDevelopment/trunk/instructions-svn-local.txt
Added Paths:
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branchDevelopment/trunk/obi.owl.template
branchDevelopment/trunk/obi.pprj.template
Removed Paths:
-------------
branchDevelopment/trunk/obi.owl
branchDevelopment/trunk/obi.pprj
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From: <al...@us...> - 2007-06-16 19:34:39
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Revision: 73
http://obi.svn.sourceforge.net/obi/?rev=73&view=rev
Author: alanr
Date: 2007-06-16 12:34:41 -0700 (Sat, 16 Jun 2007)
Log Message:
-----------
Add Obsolete.owl and instructions to use
Modified Paths:
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branchDevelopment/trunk/instructions-svn-local.txt
branchDevelopment/trunk/obi.owl.template
branchDevelopment/trunk/obi.repository.template
Added Paths:
-----------
branchDevelopment/trunk/Obsolete.owl
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From: <al...@us...> - 2007-06-19 05:58:39
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Revision: 74
http://obi.svn.sourceforge.net/obi/?rev=74&view=rev
Author: alanr
Date: 2007-06-18 22:58:41 -0700 (Mon, 18 Jun 2007)
Log Message:
-----------
move old instructions out of the way
Added Paths:
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branchDevelopment/trunk/older/
branchDevelopment/trunk/older/ImportingExportingComplementaryOWLFile.doc
Removed Paths:
-------------
branchDevelopment/trunk/ImportingExportingComplementaryOWLFile.doc
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From: <wh...@us...> - 2007-06-22 19:13:04
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Revision: 80
http://obi.svn.sourceforge.net/obi/?rev=80&view=rev
Author: whetzel
Date: 2007-06-22 12:13:06 -0700 (Fri, 22 Jun 2007)
Log Message:
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add in owl:versionInfo and set as svn keyword
Modified Paths:
--------------
branchDevelopment/trunk/Biomaterial.owl
branchDevelopment/trunk/DataTransformation.owl
branchDevelopment/trunk/DigitalEntityPlus.owl
branchDevelopment/trunk/Obsolete.owl
branchDevelopment/trunk/Plan.owl
branchDevelopment/trunk/ProtocolApplication.owl
branchDevelopment/trunk/Role.owl
branchDevelopment/trunk/TheRest.owl
Property Changed:
----------------
branchDevelopment/trunk/Biomaterial.owl
branchDevelopment/trunk/DataTransformation.owl
branchDevelopment/trunk/DigitalEntityPlus.owl
branchDevelopment/trunk/Obsolete.owl
branchDevelopment/trunk/Plan.owl
branchDevelopment/trunk/ProtocolApplication.owl
branchDevelopment/trunk/Role.owl
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From: <al...@us...> - 2007-06-24 16:29:35
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Revision: 81
http://obi.svn.sourceforge.net/obi/?rev=81&view=rev
Author: alanr
Date: 2007-06-24 09:29:35 -0700 (Sun, 24 Jun 2007)
Log Message:
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Fix type introduced with svn keyword, add Relations.owl
Modified Paths:
--------------
branchDevelopment/trunk/Biomaterial.owl
branchDevelopment/trunk/DataTransformation.owl
branchDevelopment/trunk/DigitalEntityPlus.owl
branchDevelopment/trunk/InstrumentAndPart.owl
branchDevelopment/trunk/Obsolete.owl
branchDevelopment/trunk/Plan.owl
branchDevelopment/trunk/ProtocolApplication.owl
branchDevelopment/trunk/Role.owl
branchDevelopment/trunk/obi.owl.template
branchDevelopment/trunk/obi.repository.template
Added Paths:
-----------
branchDevelopment/trunk/Relations.owl
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From: <al...@us...> - 2007-06-26 04:24:17
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Revision: 82
http://obi.svn.sourceforge.net/obi/?rev=82&view=rev
Author: alanr
Date: 2007-06-25 21:24:15 -0700 (Mon, 25 Jun 2007)
Log Message:
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simplify instructions for protege 3.3 beta 411 +
Modified Paths:
--------------
branchDevelopment/trunk/instructions-svn-local.txt
branchDevelopment/trunk/obi.repository.template
Removed Paths:
-------------
branchDevelopment/trunk/obi.repository.template2
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From: <al...@us...> - 2007-07-10 18:29:33
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Revision: 100
http://obi.svn.sourceforge.net/obi/?rev=100&view=rev
Author: alanr
Date: 2007-07-10 11:29:35 -0700 (Tue, 10 Jul 2007)
Log Message:
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move platform and children from TheRest.owl to InstrumentAndPart.owl
Modified Paths:
--------------
branchDevelopment/trunk/Biomaterial.owl
branchDevelopment/trunk/InstrumentAndPart.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...> - 2008-03-06 07:34:15
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Revision: 385
http://obi.svn.sourceforge.net/obi/?rev=385&view=rev
Author: alanr
Date: 2008-03-05 23:34:17 -0800 (Wed, 05 Mar 2008)
Log Message:
-----------
obi-owl-full adds range restriction to curation_status
AnnotationProperty removes EnumerationClass, and makes curation status
a subclass of information_content_entity
Modified Paths:
--------------
branchDevelopment/trunk/AnnotationProperty.owl
branchDevelopment/trunk/obi-owl-full.owl
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From: <jam...@us...> - 2008-03-06 14:30:29
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Revision: 386
http://obi.svn.sourceforge.net/obi/?rev=386&view=rev
Author: jamesmalone
Date: 2008-03-06 06:30:23 -0800 (Thu, 06 Mar 2008)
Log Message:
-----------
Addition of feature class, log_base and has_feature_value datatype property JM
Modified Paths:
--------------
branchDevelopment/trunk/DataTransformation.owl
branchDevelopment/trunk/Relations.owl
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From: <p_r...@us...> - 2008-04-04 21:41:37
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Revision: 489
http://obi.svn.sourceforge.net/obi/?rev=489&view=rev
Author: p_rocca_serra
Date: 2008-04-04 14:41:39 -0700 (Fri, 04 Apr 2008)
Log Message:
-----------
moved from _biomaterial_deprecated under material + creation of restriction has_role some (reagent_role or specimen_role)
obsoleted _move_to relation, move_to_site
Modified Paths:
--------------
branchDevelopment/trunk/Biomaterial.owl
branchDevelopment/trunk/Obsolete.owl
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From: <fgi...@us...> - 2007-06-28 13:21:57
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Revision: 84
http://obi.svn.sourceforge.net/obi/?rev=84&view=rev
Author: fgibson_sf
Date: 2007-06-28 06:21:49 -0700 (Thu, 28 Jun 2007)
Log Message:
-----------
-Changed artefact to artefact_object and normalised definition
-Moved everything under artefact_object to leave artifact and biomaterial_entity under object. This included physical_document for TheRest branch
-Normalised definition of device
-Normailised definition of instrument
-Renamed analyser and sorter to flow_cytometer_analyzer and flow_cytometer_sorter
-Moved flow_cytometer_sorter as a subclass of flow_cytometer_analyzer
-Added comment on labware
Modified Paths:
--------------
branchDevelopment/trunk/InstrumentAndPart.owl
branchDevelopment/trunk/TheRest.owl
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From: <dan...@us...> - 2007-07-03 16:40:54
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Revision: 88
http://obi.svn.sourceforge.net/obi/?rev=88&view=rev
Author: daniel_schober
Date: 2007-07-03 09:40:55 -0700 (Tue, 03 Jul 2007)
Log Message:
-----------
For the time being, as the ID handling is still discussed the last used IDs for the branches can be stored here.
Added Paths:
-----------
branchDevelopment/trunk/lastac_autoID/
branchDevelopment/trunk/lastac_autoID/default.properties.InstrumentAndPart
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From: <al...@us...> - 2007-07-10 17:27:12
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Revision: 99
http://obi.svn.sourceforge.net/obi/?rev=99&view=rev
Author: alanr
Date: 2007-07-10 10:27:09 -0700 (Tue, 10 Jul 2007)
Log Message:
-----------
AA: AR will break out all the meta data properties into a sep OWL file so Bill can use these for BIRNLEX instead of his own
Modified Paths:
--------------
branchDevelopment/trunk/obi.owl.template
branchDevelopment/trunk/obi.repository.template
branchDevelopment/trunk/obi.repository.template.pc
Added Paths:
-----------
branchDevelopment/trunk/AnnotationProperty.owl
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From: <bb...@us...> - 2007-07-11 11:01:07
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Revision: 103
http://obi.svn.sourceforge.net/obi/?rev=103&view=rev
Author: bbug
Date: 2007-07-11 04:01:10 -0700 (Wed, 11 Jul 2007)
Log Message:
-----------
This is the first pass on the OBI Function branch. Updated the main obi.owl and obi.repository templates to properly include and locate this new OWL file.
Modified Paths:
--------------
branchDevelopment/trunk/obi.owl.template
branchDevelopment/trunk/obi.repository.template
Added Paths:
-----------
branchDevelopment/trunk/OBI-Function.owl
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From: <al...@us...> - 2007-07-11 19:08:01
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Revision: 107
http://obi.svn.sourceforge.net/obi/?rev=107&view=rev
Author: alanr
Date: 2007-07-11 12:07:55 -0700 (Wed, 11 Jul 2007)
Log Message:
-----------
changes from today - needs cleanup/ obi ids etc
Modified Paths:
--------------
branchDevelopment/trunk/DigitalEntityPlus.owl
branchDevelopment/trunk/Plan.owl
branchDevelopment/trunk/ProtocolApplication.owl
branchDevelopment/trunk/Relations.owl
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From: <al...@us...> - 2007-07-12 14:33:21
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Revision: 108
http://obi.svn.sourceforge.net/obi/?rev=108&view=rev
Author: alanr
Date: 2007-07-12 07:33:23 -0700 (Thu, 12 Jul 2007)
Log Message:
-----------
fork bfo.owl for the moment
Modified Paths:
--------------
branchDevelopment/trunk/Biomaterial.owl
branchDevelopment/trunk/InstrumentAndPart.owl
branchDevelopment/trunk/Plan.owl
branchDevelopment/trunk/ProtocolApplication.owl
branchDevelopment/trunk/Relations.owl
branchDevelopment/trunk/Role.owl
Property Changed:
----------------
branchDevelopment/trunk/
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From: <al...@us...> - 2007-07-12 14:34:22
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Revision: 109
http://obi.svn.sourceforge.net/obi/?rev=109&view=rev
Author: alanr
Date: 2007-07-12 07:34:25 -0700 (Thu, 12 Jul 2007)
Log Message:
-----------
really fork bfo now
Added Paths:
-----------
branchDevelopment/trunk/bfo/
branchDevelopment/trunk/bfo/bfo.owl
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From: <al...@us...> - 2007-07-16 03:32:23
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Revision: 114
http://obi.svn.sourceforge.net/obi/?rev=114&view=rev
Author: alanr
Date: 2007-07-15 20:32:20 -0700 (Sun, 15 Jul 2007)
Log Message:
-----------
This is a checkin of the most recent state of OBI development at the end of the workshop.
Not all classes have OBI ids or definitions (particularly the ones that were added as
we worked through the use cases at the workshop)
InstrumentAndPart.owl
platform is moved from TheRest.owl to InstrumentAndPart.owl
obi.owl.template
Added Quality.owl
ProtocolApplication.owl
Additions for use cases we worked on at workshop
obi-lsw.owl.template
A template for the top level owl file that should be used for LSW
Biomaterial.owl
Additions for use cases we worked on at workshop
Quality.owl
New file, currently no OBI specific qualities
Plan.owl
Additions for use cases we worked on at workshop, including complex
definition of intervention study (that now works) :
is_realized_as some
(span:Process and
(p11:has_part some
(has_input some
(has_role some treated_role))))
OBI-Function.owl
Changed "definition_source" to current "definition_citation"
Relations.owl
New relations (no definitions yet, but domain and ranges in place): has_quality, has_role, is_realized_as/is_realization_of, is_concretized_as/is_concretization_of
obi.repository.template
Add Quality.owl
obi.repository.template.pc
Add Quality.owl, OBI-Function.owl, obi-owl-full.owl
Role.owl
Additions for use cases we worked on at workshop
instructions-svn-local.txt
Updated to include PC instructions for obi.repository, new branch files.
Modified Paths:
--------------
branchDevelopment/trunk/Biomaterial.owl
branchDevelopment/trunk/InstrumentAndPart.owl
branchDevelopment/trunk/OBI-Function.owl
branchDevelopment/trunk/Plan.owl
branchDevelopment/trunk/ProtocolApplication.owl
branchDevelopment/trunk/Relations.owl
branchDevelopment/trunk/Role.owl
branchDevelopment/trunk/instructions-svn-local.txt
branchDevelopment/trunk/obi.owl.template
branchDevelopment/trunk/obi.repository.template
branchDevelopment/trunk/obi.repository.template.pc
Added Paths:
-----------
branchDevelopment/trunk/Quality.owl
branchDevelopment/trunk/obi-lsw.owl.template
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