augmentのテスト

aug.inv.gfa

H	VN:Z:1.0
S	5	TGC
S	7	CCCCCCCCCC
S	1	ATGTC
S	4	AGTCC
S	6	TTC
S	2	CA
S	3	AG
P	1	1+,2+,5+,3+,6+,4+	5M,2M,3M,2M,3M,5M	
L	1	+	2	+	0M
L	6	+	4	+	0M
L	2	+	5	+	0M
L	2	+	7	+	0M
L	3	+	6	+	0M
L	3	+	7	-	0M
L	5	+	3	+	0M
L	3	-	4	+	0M

aug.test.variant.gfa

H	VN:Z:1.0
S	5	TGC
S	7	CCCCCCCCCC
S	1	ATGTC
S	4	AGTCC
S	6	TTC
S	2	CA
S	3	AG
P	1	1+,2+,5+,3+,6+,4+	5M,2M,3M,2M,3M,5M	
L	1	+	2	+	0M
L	6	+	4	+	0M
L	7	+	6	+	0M
L	2	+	5	+	0M
L	2	+	7	+	0M
L	3	+	6	+	0M
L	5	+	3	+	0M

r.gfa

H	VN:Z:1.0
S	1	ATGTC
S	4	AGTCC
S	2	CATGC
S	3	AGTTC
P	1	1+,2+,3+,4+	5M,5M,5M,5M	
L	1	+	2	+	0M
L	2	+	3	+	0M
L	3	+	4	+	0M

test.inv.json

{
  "name": "58016f018e48d41e",
  "path": {
    "mapping": [
      {
        "edit": [
          {
            "from_length": 5,
            "to_length": 5
          }
        ],
        "position": {
          "node_id": "1"
        },
        "rank": "1"
      },
      {
        "edit": [
          {
            "from_length": 2,
            "to_length": 2
          },
          {
            "to_length": 10,
            "sequence": "CCCCCCCCCC"
          }
        ],
        "position": {
          "node_id": "2"
        },
        "rank": "2"
      },
      {
        "edit": [
          {
            "from_length": 2,
            "to_length": 2
          }
        ],
        "position": {
          "node_id": "3",
          "offset": 3,
          "is_reverse": true
        },
        "rank": "3"
      },
      {
        "edit": [
          {
            "from_length": 5,
            "to_length": 5
          }
        ],
        "position": {
          "node_id": "4"
        },
        "rank": "4"
      }
    ]
  },
  "refpos": [
    {
      "name": "1"
    }
  ],
  "sequence": "ATGTCCACCCCCCCCCCCTAGTCC"
}

test.variant.json

{
  "name": "58016f018e48d41e",
  "path": {
    "mapping": [
      {
        "edit": [
          {
            "from_length": 5,
            "to_length": 5
          }
        ],
        "position": {
          "node_id": "1"
        },
        "rank": "1"
      },
      {
        "edit": [
          {
            "from_length": 2,
            "to_length": 2
          },
          {
            "to_length": 10,
            "sequence": "CCCCCCCCCC"
          }
        ],
        "position": {
          "node_id": "2"
        },
        "rank": "2"
      },
      {
        "edit": [
          {
            "from_length": 3,
            "to_length": 3
          }
        ],
        "position": {
          "node_id": "3",
          "offset": 2
        },
        "rank": "3"
      },
      {
        "edit": [
          {
            "from_length": 5,
            "to_length": 5
          }
        ],
        "position": {
          "node_id": "4"
        },
        "rank": "4"
      }
    ]
  },
  "refpos": [
    {
      "name": "1"
    }
  ],
  "sequence": "ATGTCCACCCCCCCCCCTTCAGTCC"
}