update snapshot with outpath

nf-core · Oct 14, 2024 · a706319 · a706319
1 parent 67217ca
commit a706319
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Showing 2 changed files with 6 additions and 6 deletions.
diff --git a/subworkflows/local/generate_downstream_samplesheets/main.nf b/subworkflows/local/generate_downstream_samplesheets/main.nf
@@ -64,10 +64,10 @@ workflow SAMPLESHEET_MAG{
                                         def out_path       = file(params.outdir).toString() + '/filter/filtered/'
                                         def sample         = meta.id
                                         def run            = meta.run
-                                        def group          = ""                                                                                 // only used for co-abundance in binning
-                                        def short_reads_1  = meta.long_reads == (reads.size() > 2) ? outpath + reads[0].getName() : ""                    // If long reads, but no short reads, then short_reads_1 is empty
-                                        def short_reads_2  = meta.long_reads == (reads.size() > 2) && reads[1] ? outpath + reads[1].getName() : ""
-                                        def long_reads     = meta.long_reads ? outpath + reads.last().getName() : ""                                      // If long reads, take final element
+                                        def group          = ""                                                                                       // only used for co-abundance in binning
+                                        def short_reads_1  = meta.long_reads == (reads.size() > 2) ? out_path + reads[0].getName() : ""                // If long reads, but no short reads, then short_reads_1 is empty
+                                        def short_reads_2  = meta.long_reads == (reads.size() > 2) && reads[1] ? out_path + reads[1].getName() : ""
+                                        def long_reads     = meta.long_reads ? out_path + reads.last().getName() : ""                                  // If long reads, take final element
                                     [sample: sample, run: run, group: group, short_reads_1: short_reads_1, short_reads_2: short_reads_2, long_reads: long_reads]
                                 }
                                 .tap{ ch_colnames } //ch_header exists using ch_colnames instead

diff --git a/subworkflows/local/generate_downstream_samplesheets/tests/main.nf.test.snap b/subworkflows/local/generate_downstream_samplesheets/tests/main.nf.test.snap
@@ -3,13 +3,13 @@
         "content": [
             [
                 "taxprofiler.csv:md5,3af063f070342c72605b0277a7df4c36",
-                "mag.csv:md5,b7826905be577df908978e0e75f2a288"
+                "mag.csv:md5,cb28c6bbf1ff5028a6c31dcbbc5f815a"
             ]
         ],
         "meta": {
             "nf-test": "0.9.0",
             "nextflow": "24.04.4"
         },
-        "timestamp": "2024-10-14T10:48:25.402183468"
+        "timestamp": "2024-10-14T11:08:57.333343647"
     }
 }