fix typos

ga4gh · Dec 20, 2024 · 7a3adb5 · 7a3adb5
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diff --git a/schema/vrs/def/Adjacency.rst b/schema/vrs/def/Adjacency.rst
@@ -6,21 +6,6 @@
 
 The `Adjacency` class represents the adjoining of the end of a sequence with the beginning of an adjacent sequence, potentially with an intervening linker sequence.
 
-**GA4GH Digest**
-
-.. list-table::
-    :class: clean-wrap
-    :header-rows: 1
-    :align: left
-    :widths: auto
-
-    *  - Prefix
-       - Inherent
-
-    *  - AJ
-       - ['adjoinedSequences', 'linker', 'type']
-
-
 **Information Model**
 
 Some Adjacency attributes are inherited from :ref:`Variation`.

diff --git a/schema/vrs/def/Allele.rst b/schema/vrs/def/Allele.rst
@@ -6,21 +6,6 @@
 
 The state of a molecule at a :ref:`Location`.
 
-**GA4GH Digest**
-
-.. list-table::
-    :class: clean-wrap
-    :header-rows: 1
-    :align: left
-    :widths: auto
-
-    *  - Prefix
-       - Inherent
-
-    *  - VA
-       - ['location', 'state', 'type']
-
-
 **Information Model**
 
 Some Allele attributes are inherited from :ref:`Variation`.

diff --git a/schema/vrs/def/CisPhasedBlock.rst b/schema/vrs/def/CisPhasedBlock.rst
@@ -6,21 +6,6 @@
 
 An ordered set of co-occurring :ref:`variants <Variation>` on the same molecule.
 
-**GA4GH Digest**
-
-.. list-table::
-    :class: clean-wrap
-    :header-rows: 1
-    :align: left
-    :widths: auto
-
-    *  - Prefix
-       - Inherent
-
-    *  - CPB
-       - ['members', 'type']
-
-
 **Information Model**
 
 Some CisPhasedBlock attributes are inherited from :ref:`Variation`.

diff --git a/schema/vrs/def/CopyNumberChange.rst b/schema/vrs/def/CopyNumberChange.rst
@@ -6,21 +6,6 @@
 
 An assessment of the copy number of a :ref:`Location` within a system (e.g. genome, cell, etc.) relative to a baseline ploidy.
 
-**GA4GH Digest**
-
-.. list-table::
-    :class: clean-wrap
-    :header-rows: 1
-    :align: left
-    :widths: auto
-
-    *  - Prefix
-       - Inherent
-
-    *  - CX
-       - ['copyChange', 'location', 'type']
-
-
 **Information Model**
 
 Some CopyNumberChange attributes are inherited from :ref:`Variation`.

diff --git a/schema/vrs/def/CopyNumberCount.rst b/schema/vrs/def/CopyNumberCount.rst
@@ -6,21 +6,6 @@
 
 The absolute count of discrete copies of a :ref:`Location` within a system (e.g. genome, cell, etc.).
 
-**GA4GH Digest**
-
-.. list-table::
-    :class: clean-wrap
-    :header-rows: 1
-    :align: left
-    :widths: auto
-
-    *  - Prefix
-       - Inherent
-
-    *  - CN
-       - ['copies', 'location', 'type']
-
-
 **Information Model**
 
 Some CopyNumberCount attributes are inherited from :ref:`Variation`.

diff --git a/schema/vrs/def/DerivativeMolecule.rst b/schema/vrs/def/DerivativeMolecule.rst
@@ -6,21 +6,6 @@
 
 A molecule derived from segments of multiple adjoined molecular sequences, typically resulting from structural variation.
 
-**GA4GH Digest**
-
-.. list-table::
-    :class: clean-wrap
-    :header-rows: 1
-    :align: left
-    :widths: auto
-
-    *  - Prefix
-       - Inherent
-
-    *  - DM
-       - ['components', 'type']
-
-
 **Information Model**
 
 Some DerivativeMolecule attributes are inherited from :ref:`Variation`.

diff --git a/schema/vrs/def/Ga4ghIdentifiableObject.rst b/schema/vrs/def/Ga4ghIdentifiableObject.rst
@@ -6,21 +6,6 @@
 
 An object for which a GA4GH computed identifier can be created.
 
-**GA4GH Digest**
-
-.. list-table::
-    :class: clean-wrap
-    :header-rows: 1
-    :align: left
-    :widths: auto
-
-    *  - Prefix
-       - Inherent
-
-    *  - None
-       - ['type']
-
-
 **Information Model**
 
 Some Ga4ghIdentifiableObject attributes are inherited from :ref:`gks-core:Entity`.

diff --git a/schema/vrs/def/LengthExpression.rst b/schema/vrs/def/LengthExpression.rst
@@ -6,21 +6,6 @@
 
 A sequence expressed only by its length.
 
-**GA4GH Digest**
-
-.. list-table::
-    :class: clean-wrap
-    :header-rows: 1
-    :align: left
-    :widths: auto
-
-    *  - Prefix
-       - Inherent
-
-    *  - None
-       - ['length', 'type']
-
-
 **Information Model**
 
 Some LengthExpression attributes are inherited from :ref:`SequenceExpression`.

diff --git a/schema/vrs/def/LiteralSequenceExpression.rst b/schema/vrs/def/LiteralSequenceExpression.rst
@@ -6,21 +6,6 @@
 
 An explicit expression of a Sequence.
 
-**GA4GH Digest**
-
-.. list-table::
-    :class: clean-wrap
-    :header-rows: 1
-    :align: left
-    :widths: auto
-
-    *  - Prefix
-       - Inherent
-
-    *  - None
-       - ['sequence', 'type']
-
-
 **Information Model**
 
 Some LiteralSequenceExpression attributes are inherited from :ref:`SequenceExpression`.

diff --git a/schema/vrs/def/ReferenceLengthExpression.rst b/schema/vrs/def/ReferenceLengthExpression.rst
@@ -6,21 +6,6 @@
 
 An expression of a sequence that is derived from repeating a subsequence of an associated :ref:`SequenceLocation`.
 
-**GA4GH Digest**
-
-.. list-table::
-    :class: clean-wrap
-    :header-rows: 1
-    :align: left
-    :widths: auto
-
-    *  - Prefix
-       - Inherent
-
-    *  - None
-       - ['length', 'repeatSubunitLength', 'type']
-
-
 **Information Model**
 
 Some ReferenceLengthExpression attributes are inherited from :ref:`SequenceExpression`.

diff --git a/schema/vrs/def/SequenceExpression.rst b/schema/vrs/def/SequenceExpression.rst
@@ -6,21 +6,6 @@
 
 An expression describing a :ref:`Sequence`.
 
-**GA4GH Digest**
-
-.. list-table::
-    :class: clean-wrap
-    :header-rows: 1
-    :align: left
-    :widths: auto
-
-    *  - Prefix
-       - Inherent
-
-    *  - None
-       - ['type']
-
-
 **Information Model**
 
 Some SequenceExpression attributes are inherited from :ref:`gks-core:Entity`.

diff --git a/schema/vrs/def/SequenceLocation.rst b/schema/vrs/def/SequenceLocation.rst
@@ -6,21 +6,6 @@
 
 A :ref:`Location` defined by an interval on a referenced :ref:`Sequence`.
 
-**GA4GH Digest**
-
-.. list-table::
-    :class: clean-wrap
-    :header-rows: 1
-    :align: left
-    :widths: auto
-
-    *  - Prefix
-       - Inherent
-
-    *  - SL
-       - ['end', 'sequenceReference', 'start', 'type']
-
-
 **Information Model**
 
 Some SequenceLocation attributes are inherited from :ref:`Ga4ghIdentifiableObject`.
@@ -86,12 +71,12 @@ Some SequenceLocation attributes are inherited from :ref:`Ga4ghIdentifiableObjec
       - 
       - integer | :ref:`Range`
       - 0..1
-      - The start coordinate or range of the SequenceLocation. The minimum value of this coordinate or range is 0. For locations on linear sequences, this MUST represent a coordinate or range  less than or equal to the value of `end`. For circular sequences, `start` is greater than `end` when the location spans the sequence 0 coordinate.
+      - The start coordinate or range of the SequenceLocation. The minimum value of this coordinate or range is 0. For locations on linear sequences, this MUST represent a coordinate or range less than or equal to the value of `end`. For circular sequences, `start` is greater than `end` when the location spans the sequence 0 coordinate.
    *  - end
       - 
       - integer | :ref:`Range`
       - 0..1
-      - The end coordinate or range of the SequenceLocation. The minimum value of this coordinate or range is 0. For locations on linear sequences, this MUST represent a coordinate or range  grater than or equal to the value of `start`. For circular sequences, `end` is less than `start` when the location spans the sequence 0 coordinate.
+      - The end coordinate or range of the SequenceLocation. The minimum value of this coordinate or range is 0. For locations on linear sequences, this MUST represent a coordinate or range greater than or equal to the value of `start`. For circular sequences, `end` is less than `start` when the location spans the sequence 0 coordinate.
    *  - sequence
       - 
       - :ref:`sequenceString`

diff --git a/schema/vrs/def/SequenceReference.rst b/schema/vrs/def/SequenceReference.rst
@@ -6,21 +6,6 @@
 
 A sequence of nucleic or amino acid character codes.
 
-**GA4GH Digest**
-
-.. list-table::
-    :class: clean-wrap
-    :header-rows: 1
-    :align: left
-    :widths: auto
-
-    *  - Prefix
-       - Inherent
-
-    *  - None
-       - ['refgetAccession', 'type']
-
-
 **Information Model**
 
 Some SequenceReference attributes are inherited from :ref:`gks-core:Entity`.

diff --git a/schema/vrs/def/Terminus.rst b/schema/vrs/def/Terminus.rst
@@ -6,21 +6,6 @@
 
 The `Terminus` data class provides a structure for describing the end (terminus) of a molecule. Structurally similar to Adjacency, but used for describing where a molecule terminates (instead of adjoining another molecule).
 
-**GA4GH Digest**
-
-.. list-table::
-    :class: clean-wrap
-    :header-rows: 1
-    :align: left
-    :widths: auto
-
-    *  - Prefix
-       - Inherent
-
-    *  - TM
-       - ['location', 'type']
-
-
 **Information Model**
 
 Some Terminus attributes are inherited from :ref:`Variation`.

diff --git a/schema/vrs/def/TraversalBlock.rst b/schema/vrs/def/TraversalBlock.rst
@@ -6,21 +6,6 @@
 
 A component used to describe the orientation of applicable molecular variation within a DerivativeMolecule.
 
-**GA4GH Digest**
-
-.. list-table::
-    :class: clean-wrap
-    :header-rows: 1
-    :align: left
-    :widths: auto
-
-    *  - Prefix
-       - Inherent
-
-    *  - None
-       - ['type', 'component', 'orientation']
-
-
 **Information Model**
 
 Some TraversalBlock attributes are inherited from :ref:`gks-core:Entity`.

diff --git a/schema/vrs/def/Variation.rst b/schema/vrs/def/Variation.rst
@@ -6,21 +6,6 @@
 
 A representation of the state of one or more biomolecules.
 
-**GA4GH Digest**
-
-.. list-table::
-    :class: clean-wrap
-    :header-rows: 1
-    :align: left
-    :widths: auto
-
-    *  - Prefix
-       - Inherent
-
-    *  - None
-       - ['type']
-
-
 **Information Model**
 
 Some Variation attributes are inherited from :ref:`Ga4ghIdentifiableObject`.

diff --git a/schema/vrs/json/Adjacency b/schema/vrs/json/Adjacency
@@ -8,8 +8,7 @@
       "prefix": "AJ",
       "inherent": [
          "adjoinedSequences",
-         "linker",
-         "type"
+         "linker"
       ]
    },
    "description": "The `Adjacency` class represents the adjoining of the end of a sequence with the beginning of an adjacent sequence, potentially with an intervening linker sequence.",

diff --git a/schema/vrs/json/Allele b/schema/vrs/json/Allele
@@ -8,8 +8,7 @@
       "prefix": "VA",
       "inherent": [
          "location",
-         "state",
-         "type"
+         "state"
       ]
    },
    "description": "The state of a molecule at a Location.",

diff --git a/schema/vrs/json/CisPhasedBlock b/schema/vrs/json/CisPhasedBlock
@@ -7,8 +7,7 @@
    "ga4gh": {
       "prefix": "CPB",
       "inherent": [
-         "members",
-         "type"
+         "members"
       ]
    },
    "description": "An ordered set of co-occurring variants on the same molecule.",