fix annotation subwf tests

nf-cmgg · Oct 14, 2024 · 790af14 · 790af14
1 parent c7d1fb2
commit 790af14
Showing 1 changed file with 18 additions and 26 deletions.
diff --git a/tests/subworkflows/local/vcf_annotation/main.nf.test b/tests/subworkflows/local/vcf_annotation/main.nf.test
@@ -26,20 +26,16 @@ nextflow_workflow {
                     [id:"fasta"],
                     file(params.fasta, checkIfExists:true)
                 ])
-                input[2] = Channel.value([
-                    [id:"fai"],
-                    file(params.fai, checkIfExists:true)
-                ])
-                input[3] = Channel.value(file("vep_cache"))
-                input[4] = Channel.value([file("file1.txt"), file("file2.txt")])
+                input[2] = Channel.value(file("vep_cache"))
+                input[3] = Channel.value([file("file1.txt"), file("file2.txt")])
+                input[4] = []
                 input[5] = []
                 input[6] = []
-                input[7] = []
-                input[8] = "GRCh38"
-                input[9] = "homo_sapiens"
-                input[10] = 105
-                input[11] = 50000
-                input[12] = false
+                input[7] = "GRCh38"
+                input[8] = "homo_sapiens"
+                input[9] = 105
+                input[10] = 50000
+                input[11] = false
                 """
             }
         }
@@ -73,20 +69,16 @@ nextflow_workflow {
                     [id:"fasta"],
                     file(params.fasta, checkIfExists:true)
                 ])
-                input[2] = Channel.value([
-                    [id:"fai"],
-                    file(params.fai, checkIfExists:true)
-                ])
-                input[3] = Channel.value(file("vep_cache"))
-                input[4] = Channel.value([file("file1.txt"), file("file2.txt")])
-                input[5] = Channel.value(file("vcfanno.toml"))
-                input[6] = []
-                input[7] = Channel.value([file("file1.txt"), file("file2.txt")])
-                input[8] = "GRCh38"
-                input[9] = "homo_sapiens"
-                input[10] = 105
-                input[11] = 50000
-                input[12] = true
+                input[2] = Channel.value(file("vep_cache"))
+                input[3] = Channel.value([file("file1.txt"), file("file2.txt")])
+                input[4] = Channel.value(file("vcfanno.toml"))
+                input[5] = []
+                input[6] = Channel.value([file("file1.txt"), file("file2.txt")])
+                input[7] = "GRCh38"
+                input[8] = "homo_sapiens"
+                input[9] = 105
+                input[10] = 50000
+                input[11] = true
                 """
             }
         }