api alignement

Julien a besoin des infos suivantes pour l'alignement:

• les séquences alignées
• les modifications sur les séquences alignées
• les positions recalculées sur l'alignement par l'api

changed the description

Exemple de schéma

type Alignement {
 
# the list of sequences
sequences:[AlignedSequences]

}

Proposition après discussion avec @julien.touchais

Alignment {
    id: ID!
    /* A track is a sequence of something
    tracks: [Track!]!
    type: AlignType
}


Enum AlignType {
    GUIDE
    TARGET
}

type Track {
    id: ID!
    /* The sequence */
    content: String !
    /*  The sequence the track is associated to */
    ref: Sequence!
    /* Other tracks associated/coupled/grouped with the current track
    links: [Track!]!
}


type SequenceTrack implements Track {
    ...
    /* The modifications which position are adjusted to current Alignement
    aligned_modifications: [AlignedModification!]!
}

/* Tracks encoding the Structure. The content will be parenthesis and dots chars */
type StructureTrack implements Track {
     ...
}

type AlignedModification {
    /* The position corrected for the alignement */
    postion: Int!
    /* The modification */
    ref: Modification!
}

interface SequenceGroups {
    id: ID!
    /* Name of the groups (Optional) */
    name: String
    /*  Description of the group (Optional) */
    description: String
    /* Sequences in the group */
    sequences: [Sequence!]!
}

/* Group a Sequences that are aligned */
type AlignGroup implements SequenceGroups {
    ...
}

added feature label

changed milestone to %Livrable 2

assigned to @philippe.bordron

created branch 25-api-alignement to address this issue

mentioned in merge request !8

added #26 (closed) as child task

added ongoing label

@julien.touchais and @philippe.bordron have discuss and redefined the Alignment

type Alignment {

    "The group id"
    id: ID!

    "The name of the group (Optional)"
    name: String

    "The description of the group (Optional)"
    description: String
    
    "The sequences that are part of group"
    sequences: [Sequence!]!

    "A track is a sequence of something"
    tracks: [Track!]!

    "The type of group"
    type: AlignType
}


enum AlignType {
    GUIDE
    TARGET
}