features/gaps.feature in genomer-plugin-summary-0.0.3 vs features/gaps.feature in genomer-plugin-summary-0.0.4
- old
+ new
@@ -235,5 +235,39 @@
+----------+----------+----------+----------+--------------+
| 1 | 1 | 7 | 7 | contig |
| 2 | 5 | 11 | 15 | unresolved |
+----------+----------+----------+----------+--------------+
"""
+
+ @disable-bundler
+ Scenario: Generating CSV output
+ Given I create a new genomer project
+ And I write to "assembly/scaffold.yml" with:
+ """
+ ---
+ -
+ sequence:
+ source: "contig00001"
+ inserts:
+ -
+ source: "insert_1"
+ open: 4
+ close: 5
+ -
+ unresolved:
+ length: 5
+ """
+ And I write to "assembly/sequence.fna" with:
+ """
+ >contig00001
+ ATGNNNATG
+ >insert_1
+ AAA
+ """
+ When I run `genomer summary gaps --output=csv`
+ Then the exit status should be 0
+ And the output should contain:
+ """
+ number,length,start,end,type
+ 1,1,7,7,contig
+ 2,5,11,15,unresolved
+ """