src/gui/objects/gui_objects.asn
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--
--
-- --------------------------------------------------------------------------
-- The Sequence Graphical View Track Configuration Data Structure
-- --------------------------------------------------------------------------
NCBI-SeqGraphical DEFINITIONS ::=
BEGIN
IMPORTS User-object FROM NCBI-General;
CheckBox ::= SEQUENCE {
name VisibleString,
value BOOLEAN DEFAULT FALSE,
display-name VisibleString OPTIONAL,
help VisibleString OPTIONAL,
legend-text VisibleString OPTIONAL,
optional BOOLEAN OPTIONAL,
conditions SET OF Conditional OPTIONAL
}
TextBox ::= SEQUENCE {
name VisibleString,
value VisibleString,
display-name VisibleString OPTIONAL,
help VisibleString OPTIONAL,
legend-text VisibleString OPTIONAL,
optional BOOLEAN OPTIONAL,
conditions SET OF Conditional OPTIONAL
}
HiddenSetting ::= SEQUENCE {
name VisibleString,
value VisibleString
}
ChoiceItem ::= SEQUENCE {
name VisibleString,
display-name VisibleString OPTIONAL,
help VisibleString OPTIONAL,
legend-text VisibleString OPTIONAL,
optional BOOLEAN OPTIONAL
}
Choice ::= SEQUENCE {
name VisibleString,
curr-value VisibleString,
values SET OF ChoiceItem,
display-name VisibleString OPTIONAL,
help VisibleString OPTIONAL,
optional BOOLEAN OPTIONAL,
conditions SET OF Conditional OPTIONAL
}
Conditional ::= SEQUENCE {
-- conditional control name
name VisibleString,
-- conditional control value
value SET OF VisibleString,
action ENUMERATED {
enable(0),
disable(1)
} DEFAULT enable
}
RangeValue ::= SEQUENCE {
min VisibleString,
max VisibleString,
-- if TRUE range min/max are ignored
autoscale BOOLEAN DEFAULT TRUE,
-- TRUE if max value should go first in UI
inverse BOOLEAN DEFAULT FALSE
}
RangeControl ::= SEQUENCE {
name VisibleString,
value RangeValue,
conditions SET OF Conditional OPTIONAL,
display-name VisibleString OPTIONAL,
help VisibleString OPTIONAL,
optional BOOLEAN OPTIONAL
}
Category ::= SEQUENCE {
name VisibleString,
order INTEGER,
display-name VisibleString OPTIONAL,
help VisibleString OPTIONAL
}
Comment ::= SEQUENCE {
label VisibleString,
pos-str VisibleString
}
LegendItem ::= SEQUENCE {
-- track identifier
id VisibleString,
label VisibleString,
color VisibleString
}
TrackConfig ::= SEQUENCE {
-- track name uniquely identify a track
name VisibleString,
-- track order number
order INTEGER,
-- track type key, such as gene_model_track
key VisibleString,
shown BOOLEAN DEFAULT FALSE,
-- suggested track display name shown in track title bar
display-name VisibleString OPTIONAL,
-- track subtype key, valid only for feature track
subkey VisibleString OPTIONAL,
-- filter apply on a track
filter VisibleString OPTIONAL,
help VisibleString OPTIONAL,
legend-text VisibleString OPTIONAL,
-- one or more particular annotations a track looks at
annots SET OF VisibleString OPTIONAL,
-- one or more comments to hightlight a sequence location
comments SET OF Comment OPTIONAL,
category Category OPTIONAL,
subcategory Category OPTIONAL,
choice-list SET OF Choice OPTIONAL,
check-boxes SET OF CheckBox OPTIONAL,
hidden-settings SET OF HiddenSetting OPTIONAL,
range-controls SET OF RangeControl OPTIONAL,
highlights SET OF VisibleString OPTIONAL,
highlights-color VisibleString OPTIONAL,
setting-group VisibleString OPTIONAL,
sort-by VisibleString OPTIONAL,
-- track identifier
id VisibleString OPTIONAL,
-- data source db name
dbname VisibleString OPTIONAL,
-- Net storage key used for user-uploded data track
data-key VisibleString OPTIONAL,
-- Optional user-changable settings, such as a threshold value
text-boxes SET OF TextBox OPTIONAL,
-- Show track title (and title bar) or not
show-title BOOLEAN OPTIONAL,
-- if TMS returned is_private attribute, contents of this attribute
is-private BOOLEAN OPTIONAL,
-- stored_scale attribute from TMS (when present there)
-- contains a string (linear, log2, loge, log10) that defines the stored format of a histogram
stored-scale VisibleString OPTIONAL,
-- All tracks with the same render group should be rendered in one call
render-group INTEGER OPTIONAL,
-- Track legend
legend SET OF LegendItem OPTIONAL,
-- user-defined track_id (e.g. to assign graphs to graph overlay)
uId VisibleString OPTIONAL,
-- list of id, annots or track_id that this track contains (e.g. graph_overlay children)
subTracks SET OF VisibleString OPTIONAL,
-- batch for alignment tracks based on AlignDb
batch VisibleString OPTIONAL,
-- affinity token that needs to be presented to seqgraphic.cgi in affinity_token parameter
-- when it is called specifically for this track
affinity-token VisibleString OPTIONAL,
-- data provider for this track
-- if absent, seqgraphic is assumed
data-provider VisibleString OPTIONAL,
-- data is remote
-- if absent, false is assumed
remote-data VisibleString OPTIONAL,
-- contents of TMS seq_data_key to NetCache that contains GBProject with local sequence data
seq-data-key VisibleString OPTIONAL,
-- extra, track dependend, info needed to create the track
extra-info VisibleString OPTIONAL,
-- for remote tracks (bigBed/bigWig), string to which NCBI seq-id is mapped in the remote file
rmt-mapped-id VisibleString OPTIONAL,
-- for remote tracks (BAM), the location of a remote data file containing the index.
big-data-index VisibleString OPTIONAL,
-- hub information to which this track may belong
hub-id VisibleString OPTIONAL,
hub-name VisibleString OPTIONAL,
hub-url VisibleString OPTIONAL
}
TrackConfigSet ::= SET OF TrackConfig
TrackConfigResult ::= SEQUENCE {
track-config-set TrackConfigSet OPTIONAL,
success BOOLEAN OPTIONAL,
err-msg VisibleString OPTIONAL
}
-- old stuff, to be removed
DisplayOptions ::= SEQUENCE {
id VisibleString,
track-type VisibleString,
subtype VisibleString OPTIONAL,
legend-link VisibleString OPTIONAL,
choice-list SET OF Choice OPTIONAL,
check-boxes SET OF CheckBox OPTIONAL,
range-controls SET OF RangeControl OPTIONAL,
hidden-settings SET OF HiddenSetting OPTIONAL
}
DisplayOptionSet ::= SET OF DisplayOptions
-- new stuff
DisplayOptionValue ::= SEQUENCE {
key VisibleString,
label VisibleString OPTIONAL,
help VisibleString OPTIONAL,
legend VisibleString OPTIONAL,
optional BOOLEAN OPTIONAL
}
DisplayOption ::= SEQUENCE {
type VisibleString,
key VisibleString,
label VisibleString OPTIONAL,
dflt VisibleString OPTIONAL,
help VisibleString OPTIONAL,
values SET OF DisplayOptionValue OPTIONAL,
conditions SET OF Conditional OPTIONAL,
optional BOOLEAN OPTIONAL
}
DisplayTrack ::= SEQUENCE {
key VisibleString,
subkey VisibleString OPTIONAL,
options SET OF INTEGER,
help VisibleString OPTIONAL,
legend-text VisibleString OPTIONAL
}
DisplayOptionsBundle ::= SEQUENCE {
version VisibleString DEFAULT "2.0",
options SET OF DisplayOption,
tracks SET OF DisplayTrack
}
CategoriesBundle ::= SEQUENCE {
version VisibleString DEFAULT "1.0",
categories SET OF Category,
subcategories SET OF Category
}
END
--
--
--
-- --------------------------------------------------------------------------
-- The GBench Service is a start-up and reporting service use by Genome
-- Workbench. The intention is to provide information to clients about
-- changes in the application (updates, temporary or long-term) and to
-- provide a means for clients to tell us about crashes and other events
-- --------------------------------------------------------------------------
NCBI-GBenchService DEFINITIONS ::=
BEGIN
IMPORTS PluginInfo FROM NCBI-Plugin
Date, User-object, User-field FROM NCBI-General
;
--
-- A request is a choice of a few different entities
--
GBenchServiceRequest ::= CHOICE {
init GBenchInitRequest,
version-update GBenchVersionRequest,
feedback GBenchFeedbackRequest,
generic User-object
}
--
-- Matched replies for our request
--
GBenchServiceReply ::= CHOICE {
init GBenchInitReply,
version-update GBenchVersionReply,
feedback NULL,
generic User-object
}
--
-- At initialization, we only ask for the version of Genome Workbench
-- being run. We must respect our client's privacy, and only request
-- the barest minimum of information. A version request includes only
-- very general information about our clients (the version and build date
-- of the software, as well as an enumerated category for their operating
-- system)
--
-- All of this information would otherwise be available through a weblog;
-- thus, we don't request anything that isn't already public
--
GBenchInitRequest ::= SEQUENCE {
version GBenchVersionInfo
}
--
-- We reply to 'init' with the current version so the client can make a
-- decision about whether to request an update
-- We also send some configuration information, including:
--
-- - a description of publically-available services
-- - a set of optional config libraries we can use to customize and upgrade
-- the configuration
--
GBenchInitReply ::= SEQUENCE {
current-version GBenchVersionInfo,
public-services SET OF PluginInfo OPTIONAL,
extra-configs SET OF User-object OPTIONAL
}
GBenchVersionRequest ::= SEQUENCE {
version GBenchVersionInfo,
version-request ENUMERATED {
download-url(0),
package(1)
} DEFAULT download-url
}
GBenchVersionReply ::= SEQUENCE {
-- the version we return
version GBenchVersionInfo,
-- path where the latest version can be found
download-path VisibleString,
-- the package is the executable to be launched
-- the package portion is zlib compressed!
package OCTET STRING OPTIONAL
}
GBenchFeedbackRequest ::= SEQUENCE {
date Date,
version GBenchVersionInfo,
-- email to contact the submittor
email-addr VisibleString OPTIONAL,
-- description of the issue
-- this is zlib compressed
desc OCTET STRING OPTIONAL,
-- application log
-- this is zlib compressed!
app-log OCTET STRING OPTIONAL,
-- system config information
-- this is zlib compressed!
sys-config OCTET STRING OPTIONAL,
-- set of attachments
attachments SET OF GBenchFeedbackAttachment OPTIONAL,
-- enable subscription to gbench-announce
subscribe BOOLEAN OPTIONAL
}
GBenchFeedbackAttachment ::= SEQUENCE
{
-- path to the file
file-path VisibleString,
-- file contents
-- this is zlib compressed!
data OCTET STRING
}
OS-Ver ::= ENUMERATED {
unknown(0),
-- bitmaks covering all Windows versions
-- this corresponds to 0xff
windows-generic(127),
-- specific windows versions
-- 0x1
windows-95(1),
-- 0x2
windows-98(2),
-- 0x3
windows-me(3),
-- 0x4
windows-351(4),
-- 0x5
windows-nt4(5),
-- 0x6
windows-2000(6),
-- 0x7
windows-xp(7),
-- 0x8
windows-2003(8),
-- 0x9
windows-2003-R2(9),
-- 0xa
windows-vista(10),
-- 0xb
windows-2008(11),
-- 0xc
windows-2008-R2(12),
-- 0xd
windows-seven(13),
-- 0xe
windows-2012(14),
-- 0xf
windows-eight(15),
-- 0x10
windows-2012-R2(16),
-- 0x11
windows-eight-one(17),
-- 0x12
windows-2016(18),
-- 0x13
windows-ten(19),
-- bitmask covering all MacOS X versions
-- this corresponds to 0xff00
macosx-generic(65280),
-- specific MacOS X versions
-- 0x100
macosx-10-1(256),
-- 0x200
macosx-10-2(512),
-- 0x300
macosx-10-3(768),
-- 0x400
macosx-10-4(1024),
-- 0x500
macosx-10-5(1280),
-- 0x600
macosx-10-6(1536),
-- 0x700
macosx-10-7(1792),
-- 0x800
macosx-10-8(2048),
-- 0x900
macosx-10-9(2304),
-- 0xA00
macosx-10-10(2560),
-- 0xB00
macosx-10-11(2816),
-- 0xC00
macosx-10-12(3072),
-- 0xD00
macosx-10-13(3328),
-- 0xE00
macosx-10-14(3584),
-- 0xF00
macosx-10-15(3840),
-- bitmask for all linux and unix flavors
-- this corresponds to 0xff0000
unix-generic(16711680),
-- specific supported versions
-- 0x10000
unix-linux(65536),
-- 0x20000
unix-solaris-9(131072),
-- 0x30000
unix-solaris-10(196608),
-- CPU attributes
-- general mask (0xff000000)
cpu-generic(251658240),
-- any intel x32 (0x01000000)
intel-x32(16777216),
-- any amd x64 (0x02000000)
amd-x64(33554432),
-- any intel x64 (0x03000000)
intel-x64(50331648),
-- any powerpc (0x04000000)
ppc(67108864),
-- any sparc (0x05000000)
sparc(83886080),
-- any mips (0x06000000)
mips(100663296),
-- any alpha (0x07000000)
alpha(117440512)
}
GBenchVersionInfo ::= SEQUENCE {
ver-major INTEGER,
ver-minor INTEGER,
ver-patch INTEGER,
os-ver INTEGER,
-- os-arch INTEGER OPTIONAL,
os-ver-string VisibleString OPTIONAL,
build-date Date OPTIONAL
}
END
--- -------------------------------------------------------------------------
---
--- Definitions for standard plugin interfaces
---
--- -------------------------------------------------------------------------
NCBI-Plugin DEFINITIONS ::=
BEGIN
EXPORTS PluginValue, PluginValueConstraint,
PluginArg, PluginArgSet, PluginInfo, PluginInfoSet,
PluginRequest, PluginReply, PluginReplyAction,
PluginMessage, MessageStatus, MessageHistoryInfo,
PluginCommand;
IMPORTS Annotdesc, Bioseq, Seq-annot FROM NCBI-Sequence
Seq-submit FROM NCBI-Submit
Seq-id, Seq-loc FROM NCBI-Seqloc
Seq-align, Seq-align-set FROM NCBI-Seqalign
Bioseq-set, Seq-entry FROM NCBI-Seqset
Seq-feat FROM NCBI-Seqfeat
GBProjectHandle FROM NCBI-GUI-Project;
---
--- This defines the object stored in a plugin cache
---
PluginCache ::= SET OF PluginLibInfo
---
--- kludge around missing CTypeRef code (doesn't support
--- SET OF SEQUENCE {...} if the sequence includes a derived class)
---
PluginLibInfo ::= SEQUENCE {
library VisibleString,
enabled BOOLEAN DEFAULT TRUE, -- flag: is this plugin enabled?
info PluginInfoSet
}
---
--- PluginInfo defines the basic information that all plugins must support
---
PluginInfoSet ::= SET OF PluginInfo
PluginIconInfo ::= SEQUENCE {
path VisibleString,
alias VisibleString
}
PluginInfo ::= SEQUENCE {
ver-major INTEGER, -- major version number
ver-minor INTEGER, -- minor version number
ver-revision INTEGER, -- plugin-specific revision number
ver-build-date VisibleString, -- date of build
class-name VisibleString, -- text tag uniquely identifying
-- this plugin
menu-item VisibleString OPTIONAL, -- menu item that will be shown
-- in a GUI
tooltip VisibleString OPTIONAL, -- text for mouse-overs and status
-- bars
help-file VisibleString OPTIONAL, -- location of the help file
-- associated with this plugin
-- if 'autorun' is true, we launch this
-- plugin command at application startup
autorun BOOLEAN DEFAULT FALSE,
-- if 'foreground-only' is true, then this plugin will run entirely
-- in the foreground (main) thread. This is a requirement of any
-- plugin that services a GUI directly, as GUI components must be
-- manipulated only in the foreground thread on some platforms
affinity ENUMERATED {
foreground(0),
background(1),
background-restartable(2)
} DEFAULT background,
-- the command and requirements
-- for this plugin
command PluginCommand,
-- optional information about an icon suitable for this plugin
-- this is managed as a named resource, with separate registration
-- of the resource binding the name to an image
icon-info PluginIconInfo OPTIONAL,
-- here is the set of user types to which this plugin subscribes
-- any object of these types will work for this plugin
applicable-user-types SET OF PluginUserType OPTIONAL
}
---
--- PluginRequest defines the commands we can issue to a plugin
---
PluginRequest ::= SEQUENCE {
command PluginCommand
}
--
-- user types for determining which plugins apply to a given set of objects
--
PluginUserType ::= SEQUENCE {
type VisibleString,
subtype VisibleString OPTIONAL
}
---
--- PluginReply defines the responses received from a plugin after completion
--- of its activities.
---
PluginReply ::= SEQUENCE {
status MessageStatus DEFAULT failed,
action SET OF PluginReplyAction OPTIONAL,
raw SET OF PluginValue OPTIONAL, -- things we've produced
formatted PluginArgSet OPTIONAL -- caller-defined args
}
---
--- PluginReplyAction lists possible modes of action for the items returned
--- from a plugin
---
PluginReplyAction ::= CHOICE {
-- add this item to the associated project
add-to-project NULL,
-- launch a view named by the supplied argument
new-view VisibleString,
-- launch a view named by the supplied argument
new-composite-view VisibleString,
-- store this object for future use
-- The string parameter is used as a caller-defined key for retrieval
store VisibleString,
-- create an empty project(s) for Raw item(s), takes plugin param as argument
create-project VisibleString,
-- create single project for any number of Raw items
create-single-project VisibleString,
-- attach loaded project to Project Manager
attach-project GBProjectHandle,
-- refresh loaded project to Project Manager
refresh-project GBProjectHandle,
--a dd an entry to the MRU list
add-to-MRU PluginMRUEntry,
-- show an error message
error VisibleString,
-- execute 'run' on a named plugin with our results
plugin-cmd-run VisibleString,
-- register object created by the plugin
register-interface NULL,
-- report a warning to the user
warning VisibleString,
-- report an info-level message to the user
info VisibleString
}
---
--- PluginCommand is the list of arguments that a plugin takes
---
PluginCommand ::= SEQUENCE {
command ENUMERATED {
-- general-purpose commands
no-command(0),
init(1),
get-status(2),
finish(3),
abort(4),
create-interface(5),
-- data commands
load(6),
save(7),
import(8),
load-project(9),
save-project(10),
-- data source commands
search(11),
manage(12),
-- algorithm commands
run(13),
suspend(14),
resume(15),
-- view commands
new-view(16),
new-composite-view(17)
},
-- optional named context
context VisibleString OPTIONAL,
-- input arguments
args PluginArgSet OPTIONAL
}
---
--- PluginArgSet defines a set of arguments
---
PluginArgSet ::= SEQUENCE OF PluginArg
---
--- PluginArg defines the properties of a given argument
---
PluginArg ::= SEQUENCE {
name VisibleString,
desc VisibleString OPTIONAL,
long-desc VisibleString OPTIONAL,
optional BOOLEAN DEFAULT FALSE,
default BOOLEAN DEFAULT FALSE,
hidden BOOLEAN DEFAULT FALSE,
data CHOICE {
single PluginValue,
array SET OF PluginValue
},
constraint SET OF PluginValueConstraint OPTIONAL
}
---
--- Wrappers for non-serializable objects
--- For these we encode a pointer and a name of the object type
---
PluginObject ::= SEQUENCE {
objaddr VisibleString,
subtype VisibleString
}
---
--- PluginValue variant
---
PluginValue ::= CHOICE {
integer VisibleString,
double VisibleString,
string VisibleString,
secret-string VisibleString,
input-file VisibleString,
output-file VisibleString,
boolean VisibleString,
project PluginObject,
dataHandle PluginObject,
object PluginObject
}
---
--- Value constraints
---
PluginValueConstraint ::= CHOICE {
--- simple constraints for built-in types
lower VisibleString,
upper VisibleString,
range PluginValueRangeConstraint,
set SET OF VisibleString,
--- bioseq constraints
seq-repr SET OF INTEGER, --- segmented, raw, virtual, etc
seq-mol SET OF INTEGER, --- nucleic acid, protein, etc
seq-mol-same-type NULL,
seq-length-lower INTEGER,
seq-length-upper INTEGER,
seq-length-range PluginValueRangeConstraint,
seq-length-same NULL,
--- seq-entry constraints
entry-type INTEGER, --- genprod set, nucprot set, etc
--- seq-annot constraints
annot-type INTEGER, --- feature table, alignments, graphs
--- seq-feat constraints
feat-type SET OF INTEGER, --- gene, rna, user, pub, etc.
feat-subtype SET OF INTEGER, --- any recognized subtype
feat-has-product NULL, --- only features with the product flag set
--- ProjectItem constraints
project-item-type VisibleString --- the type of item available in a project item
--- this should be available either from CTypeInfo
--- or from type_info<>.
}
PluginValueRangeConstraint ::= SEQUENCE {
lower VisibleString,
upper VisibleString
}
---
--- MessageStatus defines return codes for plugin operations
---
MessageStatus ::= ENUMERATED {
failed(0),
success(1),
not-handled(2),
ignored(3),
pending(4) --indicates that background processing is still in progress
}
---
--- PluginMessage holds information regarding a single request to a plugin
---
PluginMessage ::= SEQUENCE {
-- routing information
source VisibleString OPTIONAL, -- source plugin
destination VisibleString, -- destination plugin
--- context in which we operate
context VisibleString OPTIONAL,
--- PluginMessage we are responding to
in-reply-to PluginMessage OPTIONAL,
request PluginRequest, -- command to be passed to the plugin
reply PluginReply -- reply received from a plugin
}
---
--- MRU structures
---
PluginMRUEntry ::= SEQUENCE {
label VisibleString,
message PluginMessage
}
---
--- PluginMessageChain holds a set of plugin messages that are intended to
--- be called sequentially.
---
PluginMessageChain ::= SEQUENCE OF PluginMessage
---
--- MessageHistoryInfo holds information about plugin commands
---
MessageHistoryInfo ::= SEQUENCE {
id INTEGER,
description VisibleString,
reply-to INTEGER DEFAULT 0,
time VisibleString OPTIONAL
}
END
--- -------------------------------------------------------------------------
--- Definitions for GUI project
--- GUI projects are the basic units of data used in Genome Workbench
---
--- -------------------------------------------------------------------------
NCBI-GUI-Project DEFINITIONS ::=
BEGIN
IMPORTS Annotdesc, Seq-annot FROM NCBI-Sequence
Seq-submit FROM NCBI-Submit
Seq-entry FROM NCBI-Seqset
Seq-id, Seq-loc FROM NCBI-Seqloc
Seq-align, Seq-align-set FROM NCBI-Seqalign
Date, User-object FROM NCBI-General
ProjectItem,
ProjectHistoryItem,
ProjectDescr, ProjectAnnot,
FolderInfo, ViewDescriptor,
ProjectFolder,
LoaderDescriptor FROM NCBI-GBProject
PluginMessage FROM NCBI-Plugin;
EXPORTS GBWorkspace, GBProject, GBProjectHandle, WorkspaceFolder;
--
-- A workspace is a hierarchically organized set of projects
-- Projects represent the leaves in the tree
--
GBWorkspace ::= SEQUENCE {
-- standard descriptors
descr ProjectDescr,
-- projects in this workspace
workspace WorkspaceFolder,
-- GUI layout items
layout SET OF ViewDesc OPTIONAL,
-- arbitrary annotations
annot SET OF ProjectAnnot OPTIONAL
}
WorkspaceFolder ::= SEQUENCE {
info FolderInfo,
folders SET OF WorkspaceFolder OPTIONAL,
projects SET OF GBProjectHandle OPTIONAL
}
--
-- A project handle is an abstraction that binds all possible versions
-- This is stored in a workspace; the serialized component
--
GBProjectHandle ::= SEQUENCE {
-- URI for the project
-- this can be a local file (default) or an http:// or ftp:// link
filename VisibleString,
-- flag: is this project disabled?
disabled BOOLEAN DEFAULT FALSE
}
--
-- Version 1 (unversioned) project
-- This project description is frozen as of 12/1/2005 and should not be
-- modified. Further, its core dependencies should also not be changed in
-- any breaking way.
--
GBProject ::= SEQUENCE {
-- next counter for project items
counter INTEGER DEFAULT 0,
-- standard descriptors
descr ProjectDescr,
-- the core item we wrap
core ProjectItem,
-- a set of extra analyses perfromed by the user
-- each of these may have descriptors
extra ProjectFolder OPTIONAL,
-- a copy of the original plugin message used to generate this project
orig-message PluginMessage OPTIONAL,
-- history of things done to this object
history SET OF ProjectHistoryItem OPTIONAL,
--name of the plugin that can handle External Data for the project
data-plugin VisibleString OPTIONAL,
--optional parameter for the data-plugin
plugin-param VisibleString OPTIONAL,
-- arbitrary annotations
annot SET OF ProjectAnnot OPTIONAL,
-- a set of data sources including data loader and data
loaders SET OF LoaderDescriptor OPTIONAL,
--- set of views, associated with project
views SET OF ViewDescriptor OPTIONAL
}
ViewDesc ::= SEQUENCE {
view VisibleString,
range Seq-loc
}
END
--
--
-- --------------------------------------------------------------------------
-- Data structure for storing id mapping information including tax id
-- and gencoll assembly information
-- --------------------------------------------------------------------------
--
--
NCBI-AssmInfo DEFINITIONS ::=
BEGIN
SV-AssmAccs ::= SEQUENCE {
seq-id VisibleString,
assm-context-status INTEGER,
assm-acc-best VisibleString OPTIONAL,
assm-accs SET OF VisibleString OPTIONAL
}
DL-AssmInfoResponse ::= SEQUENCE {
success BOOLEAN,
msg VisibleString OPTIONAL,
data DL-AssmInfo OPTIONAL
}
DL-AssmInfo ::= CHOICE {
tax-ids SET OF DL-TaxId,
assemblies SET OF DL-Assembly
}
DL-TaxId ::= SEQUENCE {
id VisibleString,
name VisibleString OPTIONAL,
scientific-name VisibleString OPTIONAL,
division VisibleString OPTIONAL
}
DL-Assembly ::= SEQUENCE {
name VisibleString,
accession VisibleString,
organism VisibleString OPTIONAL,
category VisibleString OPTIONAL,
release-type VisibleString OPTIONAL,
class VisibleString OPTIONAL,
descr VisibleString OPTIONAL,
release-date VisibleString OPTIONAL,
other-names SET OF VisibleString OPTIONAL
}
END