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==To Do==
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*emails
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*deliverables!
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**ReadMe file (finish editing)
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*EC question
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==TallyEngine Customization (cw20151203)==
 
==TallyEngine Customization (cw20151203)==
 
In GenMAPP Builder version 3.0.0 Build 5 - cw20151203, the ''Bordetella pertussis'' species profile was customized to import 11 ORF gene IDs that were not exported in previous versions. To account for this change, the TallyEngine was customized for ''Bordetella pertussis'' to count "ORF" gene listings separately from "Ordered Locus Names". To do this, I followed the procedure documented below:
 
In GenMAPP Builder version 3.0.0 Build 5 - cw20151203, the ''Bordetella pertussis'' species profile was customized to import 11 ORF gene IDs that were not exported in previous versions. To account for this change, the TallyEngine was customized for ''Bordetella pertussis'' to count "ORF" gene listings separately from "Ordered Locus Names". To do this, I followed the procedure documented below:
 
Using version "3.0.0-build-5-cw20151210" of GenMAPP Builder ([[File:Dist cw20151210.zip]]), I conducted a new import-export cycle to create an updated gene database for ''Bordetella pertussis''. The Gene Database Testing Report for this new gene database can be found here: [[Gene Database Testing Report- cw20151210]].
 
Using version "3.0.0-build-5-cw20151210" of GenMAPP Builder ([[File:Dist cw20151210.zip]]), I conducted a new import-export cycle to create an updated gene database for ''Bordetella pertussis''. The Gene Database Testing Report for this new gene database can be found here: [[Gene Database Testing Report- cw20151210]].
   Exception encountered, of type "Error"
[65cc62b6] /biodb/fall2015/index.php?diff=prev&oldid=7819&title=Bklein7_Week_15 Error from line 434 of /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php: Call to undefined function each()
Backtrace:
#0 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(544): DiffEngine->diag()
#1 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(344): DiffEngine->compareSeq()
#2 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(227): DiffEngine->diffLocal()
#3 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(721): DiffEngine->diff()
#4 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(859): Diff->__construct()
#5 /apps/xmlpipedb/biodb/fall2015/includes/diff/DairikiDiff.php(980): MappedDiff->__construct()
#6 /apps/xmlpipedb/biodb/fall2015/includes/diff/TableDiffFormatter.php(194): WordLevelDiff->__construct()
#7 /apps/xmlpipedb/biodb/fall2015/includes/diff/DiffFormatter.php(140): TableDiffFormatter->changed()
#8 /apps/xmlpipedb/biodb/fall2015/includes/diff/DiffFormatter.php(82): DiffFormatter->block()
#9 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(888): DiffFormatter->format()
#10 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(802): DifferenceEngine->generateTextDiffBody()
#11 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(733): DifferenceEngine->generateContentDiffBody()
#12 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(662): DifferenceEngine->getDiffBody()
#13 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(632): DifferenceEngine->getDiff()
#14 /apps/xmlpipedb/biodb/fall2015/includes/diff/DifferenceEngine.php(453): DifferenceEngine->showDiff()
#15 /apps/xmlpipedb/biodb/fall2015/includes/page/Article.php(795): DifferenceEngine->showDiffPage()
#16 /apps/xmlpipedb/biodb/fall2015/includes/page/Article.php(506): Article->showDiffPage()
#17 /apps/xmlpipedb/biodb/fall2015/includes/actions/ViewAction.php(44): Article->view()
#18 /apps/xmlpipedb/biodb/fall2015/includes/MediaWiki.php(395): ViewAction->show()
#19 /apps/xmlpipedb/biodb/fall2015/includes/MediaWiki.php(273): MediaWiki->performAction()
#20 /apps/xmlpipedb/biodb/fall2015/includes/MediaWiki.php(566): MediaWiki->performRequest()
#21 /apps/xmlpipedb/biodb/fall2015/includes/MediaWiki.php(414): MediaWiki->main()
#22 /apps/xmlpipedb/biodb/fall2015/index.php(44): MediaWiki->run()
#23 {main}