Thread: [XMLPipeDB-developer] Uniprot Files now on the Wiki
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From: Kevin M. <km...@li...> - 2015-02-11 01:28:02
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Dr. Dionisio, Both Uniprot Files (The old working file and the new non working file) for L. major are on the wiki at the top of my profile. Hope that this helps. Kevin McGee |
From: John D. N. D. <do...@lm...> - 2015-02-19 05:30:13
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Hi Kevin, Sorry it took me until the break to look into this. The issue is that the latest XML has again added a new element (maybe more) that the XMLPipeDB database code does not handle. I will need to update this code then produce a new release. Stand by and I will let you know when it is out. Specifically, the new element is a 'cofactor' tag. The precise reported error is: DefaultValidationEventHandler: [ERROR]: Unexpected element {http://uniprot.org/uniprot}:cofactor Location: line 41 Because processing aborts at this point, it is not yet known if other new elements exist. As I work to update the database code, I will seek to make sure that we cover everything that is new in this file. John David N. Dionisio, PhD Associate Professor, Computer Science Associate Director, University Honors Program Loyola Marymount University > On Feb 10, 2015, at 5:27 PM, Kevin McGee <km...@li...> wrote: > > Dr. Dionisio, > > Both Uniprot Files (The old working file and the new non working file) for L. major are on the wiki at the top of my profile. Hope that this helps. > > > Kevin McGee > ------------------------------------------------------------------------------ > Dive into the World of Parallel Programming. The Go Parallel Website, > sponsored by Intel and developed in partnership with Slashdot Media, is your > hub for all things parallel software development, from weekly thought > leadership blogs to news, videos, case studies, tutorials and more. Take a > look and join the conversation now. http://goparallel.sourceforge.net/_______________________________________________ > xmlpipedb-developer mailing list > xml...@li... > https://lists.sourceforge.net/lists/listinfo/xmlpipedb-developer |
From: John D. N. D. <do...@lm...> - 2015-03-01 09:54:44
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Hi Kevin, I've completed an update to GenMAPP Builder that should be able to import L. major version 54 now. The new GenMAPP Builder version is 2.0b82. Let me know how it goes; thanks! John David N. Dionisio, PhD Associate Professor, Computer Science Associate Director, University Honors Program Loyola Marymount University > On Feb 10, 2015, at 5:27 PM, Kevin McGee <km...@li...> wrote: > > Dr. Dionisio, > > Both Uniprot Files (The old working file and the new non working file) for L. major are on the wiki at the top of my profile. Hope that this helps. > > > Kevin McGee > ------------------------------------------------------------------------------ > Dive into the World of Parallel Programming. The Go Parallel Website, > sponsored by Intel and developed in partnership with Slashdot Media, is your > hub for all things parallel software development, from weekly thought > leadership blogs to news, videos, case studies, tutorials and more. Take a > look and join the conversation now. http://goparallel.sourceforge.net/_______________________________________________ > xmlpipedb-developer mailing list > xml...@li... > https://lists.sourceforge.net/lists/listinfo/xmlpipedb-developer |
From: Kam D. <kda...@lm...> - 2015-06-16 21:47:32
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Hi, It looks like UniProt loaded OK, but gmb2b83 crashed during the export. Screenshot of error on this page: http://xmlpipedb.sourceforge.net/wiki/index.php/Gene_Database_Testing_Report_S._oneidensis_MR-1_2015-06-16 Kam |