johncliu / ytex Goto Github PK
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Automatically exported from code.google.com/p/ytex
What steps will reproduce the problem?
1.cd YTEX_HOME\examples\fracture\cui
2 ..\..\..\setenv.cmd
3 java %JAVA_OPTS% ytex.kernel.SparseDataExporterImpl -prop export.xml -type
sparsematrix
What is the expected output? What do you see instead?
A non-null table from the export.xml operation in the cui folder.
What version of the product are you using? On what operating system?
Ytex V08 on Window 7.
Please provide any additional information below.
It turned out that in the export.xml file, there is mysql query with condition
where certainty<>-1 but the table ytex.v_document_ontoanno does not have the
column. Instead, the table has a polarity column. Change certainty to polarity
can export a table correctly.
Is this a bug?
Original issue reported on code.google.com by [email protected]
on 19 Sep 2012 at 1:12
What steps will reproduce the problem?
1. Create UMLS MySql DB
2. Install ytex 0.5 per instructions
3. Script hangs at the setting up umls_aui_fword table. I have given it >2 days
to run. When looking at mysql process list, the ytex user account only logs in
once to create the table and doesn't login again. So the mysql settings are
correct as the script can access the db but I can't seem to get it to progress.
What version of the product are you using? On what operating system?
0.5 on RedHat Enterprise Linux 6.2
Please provide any additional information below.
Of Note, I sucessfully installed this on Win7 machine without issue but I need
this on the Linux server for further testing.
Any help would be greatly appreciated.
Original issue reported on code.google.com by [email protected]
on 13 Jan 2012 at 3:48
What steps will reproduce the problem?
1. Download ytex
2. Unzip archive
What is the expected output? What do you see instead?
A top-level "ytex" directory should be created. Instead a number of directories
are created that pollute the current directory where the zip archive is located
What version of the product are you using? On what operating system?
0.3
Original issue reported on code.google.com by [email protected]
on 6 Jun 2011 at 4:58
What steps will reproduce the problem?
1. Open CPE
2. Set descriptor at
yhome/config\desc\ytex\drugnerdesccollection_processing_engine/DrugNER_PlainText
_CPE.xml
3. Set analysis_batch=“test” in Dbconsumer
4. add analysis_engine DrugAggregatePlaintextProcessor Run.
What is the expected output? What do you see instead?
All CUIs including both medicalEventMention and EntityMention should be seen
in the database tables v_document_ontoanno and/or v_document_cui_sent. But only
the latter were.
For example, ibuprofen (C0020740), appeared in the text input file, cehcked and
it is in my umls database, and it even also appeared when view the analysis
result in annotation viewer, but either of the two fore mentioned mysql tables
contain this cui.
What version of the product are you using? On what operating system?
Ytex0.8 and UMLS2012AB level 0.
Please provide any additional information below.
Maybe it is hiding in some other tables that I did not go into. But I would
rather them to be included in the above two tables too for ease of reference in
future.
Original issue reported on code.google.com by [email protected]
on 7 Feb 2013 at 2:43
ytex crashed on a set of notes because of out of range date times. We changed
the tstamp field in ytex.anno_date table from 'datetime' data type to
'datetime2' data type. Problem fixed.
Original issue reported on code.google.com by [email protected]
on 14 Mar 2014 at 7:41
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