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About Soaplab
Soaplab services are command line applications, wrapped as SOAP services, and served from a Soaplab server. All Soaplab services have the same generic set of SOAP operations (depending on the Soaplab version) as they all share a standardised interface.
Certain tools, like the Taverna workflow workbench, provide automatic support for the Soaplab way of executing these services. In some cases you will need to use the Soaplab Server Base URL rather than the WSDL location in these tools.
More information on Soaplab clients is available here.
Further documentation on Soaplab services is available:
- Soaplab overview
- Soaplab client guide page
- EBI Soaplab server documentation
- Soaplab 2
- Sourceforge site for EMBOSS Soaplab services
Provider:
European Bioinformatics Institute (EMBL-EBI)
Location:
United Kingdom
Submitter/Source:
SoapLab Support (almost 12 years ago)
Base URL:
http://www.ebi.ac.uk:80/soaplab/typed/services/display.prettyplot
WSDL Location:
http://www.ebi.ac.uk/soaplab/typed/services/display.prettyplot?wsdl(download last cached WSDL file)
Documentation URL(s): None Login to add a documentation URL Description(s): from provider’s description doc (over 10 years ago) Draw a sequence alignment with pretty formatting
Login to add a description ELIXIR Description(s): No info yet Login to add an elixir description Details (from Soaplab server): from Soaplab server(over 10 years ago)
- ds_lsr_analysis :
- analysis :
- name : prettyplot
- installation : Soaplab2 default installation
- type : Alignment Multiple, Display
- output :
- description : Draw a sequence alignment with pretty formatting
- version : 6.1.0
- analysis_extension :
- input :
- analysis :
- ds_lsr_analysis :
- analysis :
- name : prettyplot
- installation : Soaplab2 default installation
- type : Alignment Multiple, Display
- output :
- description : Draw a sequence alignment with pretty formatting
- version : 6.1.0
- analysis_extension :
- option :
- name : emboss
- type : normal
- value : true
- name : installation
- type : normal
- value : Soaplab2 default installation
- name : version
- type : normal
- value : 6.1.0
- event :
- action :
- id : _E_1
- app_info :
- category : alignment_multiple
- help_url : http://emboss.sourceforge.net/apps/release/6.1/emboss/apps/prettyplot.html
- parameter :
- data :
- list :
- list_item :
- level : 0
- value : gcg
- level : 0
- value : gcg8
- level : 0
- value : embl
- level : 0
- value : swiss
- level : 0
- value : fasta
- level : 0
- value : ncbi
- level : 0
- value : genbank
- level : 0
- value : nbrf
- level : 0
- value : pir
- level : 0
- value : codata
- level : 0
- value : strider
- level : 0
- value : clustal
- level : 0
- value : phylip
- level : 0
- value : acedb
- level : 0
- value : msf
- level : 0
- value : jackknifer
- level : 0
- value : jackknifernon
- level : 0
- value : nexus
- level : 0
- value : nexusnon
- level : 0
- value : treecon
- level : 0
- value : mega
- level : 0
- value : meganon
- level : 0
- value : ig
- level : 0
- value : staden
- level : 0
- value : text
- level : 0
- value : raw
- type : full
- list_item :
- list :
- base :
- standard :
- list :
- list_item :
- level : 0
- shown_as : Portable Network Graphics (png)
- value : png
- level : 0
- shown_as : Postscript
- value : colourps
- type : full
- list_item :
- repeatable :
- list :
- base :
- data :
- ioformat : unspecified
- iotype : input
- repeatable :
- base :
- range :
- format : %d
- repeatable :
- base :
- name : residuesperline
- help : The number of residues to be displayed on each line
- default : 50
- mandatory : false
- qualifier : residuesperline
- prompt : Number of residues to be displayed on each line
- type : long
- ordering : 6
- range :
- format : %d
- max :
- min : 1
- repeatable :
- base :
- name : resbreak
- option :
- name : calculated_default
- type : normal
- value : ${residuesperline}
- name : calculated_hardmax
- type : normal
- value : ${residuesperline}
- name : scalemin
- type : style
- value : 1
- mandatory : false
- qualifier : resbreak
- prompt : Residues before a space
- type : long
- ordering : 7
- base :
- name : ccolours
- default : false
- mandatory : false
- qualifier : ccolours
- prompt : Colour residues by their consensus value.
- type : boolean
- ordering : 8
- standard :
- repeatable :
- base :
- standard :
- repeatable :
- base :
- standard :
- repeatable :
- base :
- base :
- name : docolour
- default : false
- mandatory : false
- qualifier : docolour
- prompt : Colour residues by table oily, amide etc.
- type : boolean
- ordering : 12
- standard :
- repeatable :
- base :
- base :
- range :
- format : %d
- min : 0
- repeatable :
- base :
- name : identity
- default : 0
- mandatory : false
- qualifier : identity
- prompt : Only match those which are identical in all sequences.
- type : long
- ordering : 15
- base :
- name : box
- default : false
- mandatory : false
- qualifier : box
- prompt : Display prettyboxes
- type : boolean
- ordering : 16
- base :
- name : boxcol
- default : false
- mandatory : false
- qualifier : boxcol
- prompt : Colour the background in the boxes
- type : boolean
- ordering : 17
- standard :
- repeatable :
- base :
- base :
- name : name
- default : false
- mandatory : false
- qualifier : name
- prompt : Display the sequence names
- type : boolean
- ordering : 19
- range :
- format : %d
- repeatable :
- base :
- name : maxnamelen
- default : 10
- mandatory : false
- qualifier : maxnamelen
- prompt : Margin size for the sequence name.
- type : long
- ordering : 20
- base :
- name : number
- default : false
- mandatory : false
- qualifier : number
- prompt : Display the residue number
- type : boolean
- ordering : 21
- base :
- name : listoptions
- default : false
- mandatory : false
- qualifier : listoptions
- prompt : Display the date and options used
- type : boolean
- ordering : 22
- range :
- format : %f
- repeatable :
- base :
- name : plurality
- option :
- name : calculated_default
- type : normal
- value : ${sequences.totweight} / 2
- mandatory : false
- qualifier : plurality
- prompt : Plurality check value (totweight/2)
- type : float
- ordering : 23
- base :
- name : consensus
- default : false
- mandatory : false
- qualifier : consensus
- prompt : Display the consensus
- type : boolean
- ordering : 25
- base :
- name : collision
- default : false
- mandatory : false
- qualifier : collision
- prompt : Allow collisions in calculating consensus
- type : boolean
- ordering : 26
- standard :
- list :
- list_item :
- level : 0
- shown_as : Normal collision check. (default)
- value : 0
- level : 0
- shown_as : Compares identical scores with the max score found. So if any other residue matches the identical score then a collision has occurred.
- value : 1
- level : 0
- shown_as : If another residue has a greater than or equal to matching score and these do not match then a collision has occurred.
- value : 2
- level : 0
- shown_as : Checks all those not in the current consensus.If any of these give a top score for matching or identical scores then a collision has occured.
- value : 3
- type : full
- list_item :
- repeatable :
- list :
- base :
- range :
- format : %d
- repeatable :
- base :
- name : showscore
- default : -1
- mandatory : false
- qualifier : showscore
- prompt : Print residue scores
- type : long
- ordering : 29
- base :
- name : portrait
- default : false
- mandatory : false
- qualifier : portrait
- prompt : Set page to Portrait
- type : boolean
- ordering : 30
- data :
- result :
- iotype : output
- base :
- data :
- result :
- iotype : output
- base :
- name : Graphics_in_PNG
- option :
- name : allow_non_existent
- type : normal
- value : true
- name : datatype
- type : normal
- value : bindata
- name : mimetype
- type : normal
- value : image/png
- name : nodisplay
- type : style
- value : true
- mandatory : false
- qualifier : Graphics_in_PNG
- type : byte[][]
- method : %%%Graphics_in_PNG%%% ${Graphics_in_PNG}
- ordering : 33
- data :
- option :
- input :
- name : residuesperline
- default : 50
- mandatory : false
- type : long
- name : ccolours
- default : false
- mandatory : false
- type : boolean
- name : docolour
- default : false
- mandatory : false
- type : boolean
- name : identity
- default : 0
- mandatory : false
- type : long
- name : box
- default : false
- mandatory : false
- type : boolean
- name : boxcol
- default : false
- mandatory : false
- type : boolean
- name : name
- default : false
- mandatory : false
- type : boolean
- name : maxnamelen
- default : 10
- mandatory : false
- type : long
- name : number
- default : false
- mandatory : false
- type : boolean
- name : listoptions
- default : false
- mandatory : false
- type : boolean
- name : consensus
- default : false
- mandatory : false
- type : boolean
- name : collision
- default : false
- mandatory : false
- type : boolean
- name : showscore
- default : -1
- mandatory : false
- type : long
- name : portrait
- default : false
- mandatory : false
- type : boolean
- analysis :
License(s): No info yet Login to add license info Cost: No info yet Login to add cost info Usage conditions: No info yet Login to add usage conditions info Contact info: No info yet Login to add contact info How to cite this service: No info yet Login to add how to cite info Publications about this service: for this service (this can be in a common citation format like Bibtex, MLA or APA, a DOI, a URL, etc.) No info yet Login to add publications info Citations of this service: No info yet Login to add citations info Example workflows using this service: See all workflows on myExperiment that use this service Login to add workflows info