TestAcedb.java File Reference

Functions
System.out.	println ("Executing query1:\n"+query1)
	while (seqset.next())
System.out.	println ("query1 done")
System.out.	println ("Executing query2:\n"+query1)
System.out.	println ("query2 done")
	catch (AceException ae)
Variables
String	query1 = "select s, s->corresponding_protein[1], len, ss->Species[1] from s in class sequence, len in (s->CDS[2]-s->CDS[1]+1), ss in s->Source where exists_tag s->CDS and len > 18 and not exists_tag s->cDNA_EST"
String	query2 = "select s, s->corresponding_protein[1], len, s->Species[1] from s in class Sequence, len in (s->CDS[2]-s->CDS[1]+1) where exists_tag s->CDS and len > 18 and exists_tag s->cDNA_EST"
Result	seqset = anace.execQuery(query1)
String	aceid
String	prtid
String	length
String	p_cluster
String	n_cluster
String	source

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Function Documentation

catch

(

AceException

ae

)

[package]

System.out. println

(

"query2 done"

)

[package]

System.out. println

(

"Executing query2:\n"+

query1

)

[package]

System.out. println

(

"query1 done"

)

[package]

System.out. println

(

"Executing query1:\n"+

query1

)

[package]

while

(

seqset.

next()

)

[package]

Referenced by get_stats(), feature::getAllQualifiers(), dyaln::outputTab(), and print_pipmaker_exons().

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Variable Documentation

String aceid

Referenced by createFileFrom(), loadFrom(), CDSload::main(), and updateFrom().

String length

Referenced by feature::acronymWithAllDigits(), acronymWithTag(), alignProtein(), assembleChain(), astypes(), Book::Book(), Branch_length(), Boxchain::buildAlignment(), checkBadStopIndex(), checkUTRChimera(), feature::composeTitle(), createFileFrom(), Lale::extendhit(), Finish(), njtree::finish(), Finish_branch_length(), gbseq::getOrgAcronym(), hit::hit(), isRepeat(), load_distrib(), loadGenomic(), makeExonLength(), feature::makeGeneSymbol(), Refreader::newRef(), Reference::parseJournal(), pickGoodModel(), Fetchaceprt::prepareKeyset(), Gsubreader::read(), updateFrom(), gbprt::write(), and feature::writeSource().

String n_cluster

Referenced by createFileFrom().

String p_cluster

Referenced by createFileFrom().

String prtid

Referenced by alignProtein(), createFileFrom(), loadFrom(), CDSload::main(), and updateFrom().

String query1 = "select s, s->corresponding_protein[1], len, ss->Species[1] from s in class sequence, len in (s->CDS[2]-s->CDS[1]+1), ss in s->Source where exists_tag s->CDS and len > 18 and not exists_tag s->cDNA_EST"

String query2 = "select s, s->corresponding_protein[1], len, s->Species[1] from s in class Sequence, len in (s->CDS[2]-s->CDS[1]+1) where exists_tag s->CDS and len > 18 and exists_tag s->cDNA_EST"

seqset = anace.execQuery(query1)

Referenced by CDSload::main().

String source

Referenced by updateFrom().