[MOBY-dev] Dead services and how to figure them out

Tue Jun 17 14:45:21 UTC 2008

That's strange... 
I tried under my windows maschine with ie and firefox.
And also under a linux box with lynx:
Umgeleitet nach file://localhost/tmp/XXXXnGKM8O/L27195-776TMP.txt

Wget doesn't work (maybe wrong my wrong/missing params):
linux03 /> wget http://moby.ucalgary.ca/moby/ValidateService
--16:40:40--  http://moby.ucalgary.ca/moby/ValidateService
           => `ValidateService'
AuflÃ¶sen des Hostnamen Â»moby.ucalgary.caÂ«.... 136.159.169.80
Connecting to moby.ucalgary.ca|136.159.169.80|:80... verbunden.
HTTP Anforderung gesendet, warte auf Antwort... 200 OK
LÃ¤nge: nicht spezifiziert [text/plain]
ValidateService: Keine Berechtigung

I attached my result.

Hope my tests make sense...

-------- Original-Nachricht --------
> Datum: Tue, 17 Jun 2008 07:01:45 -0700
> Von: "Edward Kawas" <edward.kawas at gmail.com>
> An: "\'Core developer announcements\'" <moby-dev at lists.open-bio.org>
> Betreff: Re: [MOBY-dev] Dead services and how to figure them out

> I get the same behaviour ... I am looking into it!
> 
> Eddie
> 
> -----Original Message-----
> From: moby-dev-bounces at lists.open-bio.org
> [mailto:moby-dev-bounces at lists.open-bio.org] On Behalf Of Andreas
> Groscurth
> Sent: June-17-08 5:40 AM
> To: Core developer announcements
> Subject: Re: [MOBY-dev] Dead services and how to figure them out
> 
> weird..
> 
> also with deleting the browser cache - i only get the list to
> 
> moby.ucalgary.ca
> 
> 
> regardlessly with or without param :(
> 
> andreas
> 
> M4o at gmx.de wrote:
> > Hi all,
> >
> > Andreas maybe try a reload.
> > For me it works for all auths.
> >
> > In my Tool I use the adress with param:
> http://moby.ucalgary.ca/moby/ValidateService?getDeadServices
> >
> > Maybe it is possible to extend the testing of the VaildateService
> function.
> >
> > Moritz
> >
> > -------- Original-Nachricht --------
> >   
> >> Datum: Tue, 17 Jun 2008 14:17:27 +0200
> >> Von: Andreas Groscurth <groscurt at mpiz-koeln.mpg.de>
> >> An: Core developer announcements <moby-dev at lists.open-bio.org>
> >> Betreff: Re: [MOBY-dev] Dead services and how to figure them out
> >>     
> >
> >   
> >> Paul Gordon wrote:
> >>     
> >>> Hi all,
> >>>
> >>> I'll respond to several posts at once:
> >>>
> >>> 1. There is a list of dead services at Moby Central, but it is not 
> >>> used by default in the jMoby API, and it's not part of the formal API.
> >>> http://moby.ucalgary.ca/moby/ValidateService. Eddie, should it be?
> >>>       
> >> thanks for the link - but for me it stops at
> >>
> >> moby.ucalgary.ca
> >>
> >> what about the other authorities ?
> >>
> >> Thanks
> >> andreas
> >> _______________________________________________
> >> MOBY-dev mailing list
> >> MOBY-dev at lists.open-bio.org
> >> http://lists.open-bio.org/mailman/listinfo/moby-dev
> >>     
> >
> >   
> 
> _______________________________________________
> MOBY-dev mailing list
> MOBY-dev at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/moby-dev
> 
> _______________________________________________
> MOBY-dev mailing list
> MOBY-dev at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/moby-dev

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    The following are services, sorted by Service Provider, have been identified as "dead" by the MOBY Service Testing agent.

      A "dead" service is one that does not respond correctly to a MOBY "ping"; where a correct "ping" request/response is:

      REQUEST

            <MOBY>
            	<mobyContent></mobyContent>
            </MOBY>

      RESPONSE

            <MOBY>
            	<mobyContent></mobyContent>
            </MOBY>

      The status of all services is tested hourly, and is recorded in the 
      LSID metadata for each service as a boolean value in the RDF tag
       "isAlive", which may be used by client software to filter-out
       non-functional services.

	CDK.SF.NET
		CalculateAccurateMass

	ab.wur.nl
		MetwareGetExperimentRaw
		random_number
		xcmsFindPeaks

	arabidopsis.info
		getArabidopsisImageByNASCinsertNumber
		getArabidopsisImageByNASCstockCode

	arexdb.org
		getGOCollection

	asrp.cgrb.oregonstate.edu
		ASRP_miRNA_target_in_AGI
		ASRP_smallRNA_hit_in_IGR_downstream_of_AGI
		ASRP_smallRNA_hit_in_IGR_upstream_of_AGI
		ASRP_smallRNA_sequence_from_chromosomal_AGI

	bibiserv.techfak.uni-bielefeld.de
		RNAShapes_ConsensusShapes
		RNAShapes_Sampling
		RNAShapes_ShapeFolding
		RNAShapes_ShapeProbabilities
		RNAShapes_SuboptimalShapeFolding

	bioassist.nl
		BioAssistSequenceSorter

	bioinfo.cipf.es
		displayDifferentialExpressionTest
		runDifferentialExpressionTest

	bioinfo.icapture.ubc.ca
		GeneticMap2GFF
		getGoTerm
		getGoTermAssociations
		RetrieveGOFromKeywords

	bioinfo.mpimp-golm.mpg.de
		getTrypticPeptideSequenceByAGI

	biomoby.renci.org
		AntiGenic
		BackTranAmbig
		BackTranSeq
		Banana
		Biosed
		Blast
		Btwisted
		Cai
		Chaos
		Charge
		Checktrans
		Chips
		Clustalw
		Codcmp
		CompSeq
		Cons
		Consense
		CPGPlot
		CPGReport
		Cusp
		DeGapSeq
		DescSeq
		DiffSeq
		DNAComp
		DNADist
		DNAPars
		DNAPenny
		DotMatcher
		DotPath
		Dottup
		Drawgram
		Drawtree
		DReg
		EInverted
		Emowse
		EQuickTandem
		Est2Genome
		ETandem
		ExtractBlastReportSequences
		ExtractFeat
		ExtractSeq
		Fitch
		Freak
		FuzzNuc
		FuzzPro
		FuzzTran
		Garnier
		Geecee
		GetOrf
		HelixTurnHelix
		Iep
		InfoAlign
		IsNucleotideSequence
		IsoChore
		Kitsch
		Listor
		LookupSequence
		MakeNucSeq
		MakeProtSeq
		MarScan
		MaskFeat
		Matcher
		MegaMerger
		Merger
		MSBAR
		Needle
		Neighbor
		NewCPGReport
		NewCPGSeek
		NotSeq
		Octanol
		OddComp
		Palindrome
		PatMatDB
		PatMatMotifs
		PepCoil
		PepInfo
		PepNet
		PepStats
		PepWheel
		PepWindow
		PepWindowAll
		PlotCon
		PlotOrf
		PolyDot
		PrettyPlot
		PrettySeq
		ProtDist
		ProtPars
		Recoder
		RegisterAminoAcidSequence
		RegisterNucleotideSequence
		RegisterSequence
		RevSeq
		SeqMatchAll
		SeqRetSplit
		ShowAlign
		ShowFeat
		ShowOrf
		ShowSeq
		SigCleave
		Splitter
		Stretcher
		SuperMatcher
		Syco
		TFScan
		TranSeq
		TrimEST
		TrimSeq
		Union
		Water
		Wobble
		WordCount
		WordMatch

	bioserv.rpbs.jussieu.fr
		ASA
		ASAfromPDBid
		Automat
		BasicBuilder
		Clustalw
		CysPred
		ExtractTurn
		HBonds
		HCA
		Jnet
		Mead_PKa
		Mead_Pot
		NetAsa
		PredAcc
		PSea
		psiBlast
		psiPred
		Stride
		Substitution

	bioweb.pasteur.fr
		Melting

	ccgb.umn.edu
		GI2ScientificName
		MtKeyword

	ccrc.uga.edu
		ccrctest

	cshl.edu
		getArabidoposisAMIRNA

	heaven.mshri.on.ca
		GridService

	imb.uq.edu.au
		IMB_Get_MaximallyRepresentativeCluster

	inblosam.com
		extractGeneProteinNames

	itdinges.mine.nu
		Echo
		helloWorld

	llama.med.harvard.edu
		CCSBHI1
		CorrelatedCoexpression
		GavinSpoke
		Giot
		Harbison
		Ito2001
		Johnson
		LCI
		LeeTF
		Phosphorylome
		Shyamsundar
		Stelzl
		Su
		Tong2004
		Uetz
		Zhang

	metnetdb.org
		getMetNetComments
		getMetNetPathways

	migale.jouy.inra.fr
		Water

	mips.gsf.de
		BlastFastaVsArabiProteincoding
		BlastRawSeqVsArabiContigs
		BlastRawSeqVsArabiProteincoding
		getCosBBHForGene
		MIPSBlast
		MIPSBlastBetterE13
		MIPSBlastXML
		MIPSBlastXMLClickableImage

	mncn.csic.es
		getCoordinatesOfTaxon

	moby.ucalgary.ca
		ABIChromatogramToDNASequence
		ReverseComplementSequence
		TrimSequenceEndsOfAmbiguities
		TrimSequencePolyATail
		TrimSequenceVector