[Gmod-apollo-cmts] CVS: apollo/doc/chado transaction-todo,1.112,1.113

[Mark G. <mg...@us...>]

Update of /cvsroot/gmod/apollo/doc/chado
In directory sc8-pr-cvs1.sourceforge.net:/tmp/cvs-serv25159/doc/chado

Modified Files:
	transaction-todo 
Log Message:
fixed rice bug due to protein stuff - the protein id/acc is now being
set in name adapter setTranscriptId for gmod & fly. fly needs the temp
id for its inserting of protein.



Index: transaction-todo
===================================================================
RCS file: /cvsroot/gmod/apollo/doc/chado/transaction-todo,v
retrieving revision 1.112
retrieving revision 1.113
diff -C2 -d -r1.112 -r1.113
*** transaction-todo	28 Apr 2005 22:33:44 -0000	1.112
--- transaction-todo	29 Apr 2005 19:47:08 -0000	1.113
***************
*** 34,38 ****
          at apollo.dataadapter.chado.jdbc.JDBCTransactionWriter.processException(JDBCTransactionWriter.java:375)
          at apollo.dataadapter.chado.jdbc.JDBCTransactionWriter.commitInsert(JDBCTransactionWriter.java:341)
!         at apollo.dataadapter.chado.jdbc.JDBCTransactionWriter.commitTransactions(JDBCTransactionWriter.java:124)
  
  
--- 34,41 ----
          at apollo.dataadapter.chado.jdbc.JDBCTransactionWriter.processException(JDBCTransactionWriter.java:375)
          at apollo.dataadapter.chado.jdbc.JDBCTransactionWriter.commitInsert(JDBCTransactionWriter.java:341)
!         at
!         apollo.dataadapter.chado.jdbc.JDBCTransactionWriter.commitTransactions(JDBCTransactionWriter.java:124)
! -- this is due to peptide ids/acc not being filled in in AE/NA with
!         new gene - ammend this
  
  
***************
*** 138,141 ****
--- 141,150 ----
  
  
+ -----------
+ name adapter
+ ------------
+ GmodNameAdapter.nameIsId is very fly specific - look into this - how
+ is it used and all - move to fly?
+ 
  ---------
  JDBC Read
***************
*** 200,203 ****
--- 209,217 ----
  they are sticking in the database - either shouldnt get temp names or
  db trigger should deal - & i think it should be the former
+ - this is the db trigger that i dropped (update gene name) - but i
+ dont think it will be too bad for apollo to get the transaction right
+ rather than reinstating the trigger & supressing transactions - take
+ the temp out and mimic the transcript name is all - if it gets too
+ involved we should revert to trigger i guess