add test data

viash-hub · Feb 5, 2024 · afee952 · afee952
1 parent d42281a
commit afee952
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Showing 6 changed files with 22 additions and 0 deletions.
diff --git a/src/lofreq/call/config.vsh.yaml b/src/lofreq/call/config.vsh.yaml
@@ -25,6 +25,12 @@ functionality:
             Input BAM file.
           required: true
           example: "normal.bam"
+        - name: --input_bai
+          type: file
+          description: |
+            Index file for the input BAM file.
+          required: true
+          example: "normal.bai"
         - name: --ref
           alternatives: -f
           type: file
@@ -225,6 +231,10 @@ functionality:
   resources:
     - type: bash_script
       path: script.sh
+  test_resources:
+    - type: bash_script
+      path: test.sh
+    - path: test_data
 platforms:
   - type: docker
     image: quay.io/biocontainers/lofreq:2.1.5--py38h794fc9e_10

diff --git a/src/lofreq/call/test.sh b/src/lofreq/call/test.sh
diff --git a/src/lofreq/call/test_data/a.bai b/src/lofreq/call/test_data/a.bai
diff --git a/src/lofreq/call/test_data/a.bam b/src/lofreq/call/test_data/a.bam
diff --git a/src/lofreq/call/test_data/genome.fasta b/src/lofreq/call/test_data/genome.fasta
@@ -0,0 +1,8 @@
+>SheilaA
+GCTAGCTCAGAAAAAAAAAA
+>SheilaB
+GCTAGCTCAGAAAAAAAAAA
+>SheilaC
+GCTAGCTCAGAAAAAAAAAA
+>SheilaD
+GCTAGCTCAGAAAAAAAAAA
diff --git a/src/lofreq/call/test_data/genome.fasta.fai b/src/lofreq/call/test_data/genome.fasta.fai
@@ -0,0 +1,4 @@
+SheilaA	20	9	20	21
+SheilaB	20	39	20	21
+SheilaC	20	69	20	21
+SheilaD	20	99	20	21