Unstable files also for other tests in catpack/reads

nf-core · Jan 25, 2025 · 2335038 · 2335038
1 parent 6ebedbb
commit 2335038
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Showing 2 changed files with 14 additions and 56 deletions.
diff --git a/modules/nf-core/catpack/reads/tests/main.nf.test b/modules/nf-core/catpack/reads/tests/main.nf.test
@@ -111,9 +111,9 @@ nextflow_process {
                 { assert process.success },
                 { assert snapshot(
                         file(process.out.rat_log.get(0).get(1)).readLines().last().contains('RAT is done!'),
-                        process.out.complete_abundance,
-                        process.out.contig_abundance,
-                        process.out.read2classification,
+                        file(process.out.complete_abundance.get(0).get(1)).readLines().last().contains('unclassified'),
+                        file(process.out.contig_abundance.get(0).get(1)).readLines().last().contains('NODE_2'),
+                        file(process.out.read2classification.get(0).get(1)).readLines().last().contains('no taxid assigned'),
                         process.out.alignment_diamond,
                         process.out.contig2classification,
                         file(process.out.cat_log.get(0).get(1)).readLines().last().contains('CAT is done!'),
@@ -164,9 +164,9 @@ nextflow_process {
                 { assert process.success },
                 { assert snapshot(
                         file(process.out.rat_log.get(0).get(1)).readLines().last().contains('RAT is done!'),
-                        process.out.complete_abundance,
-                        process.out.contig_abundance,
-                        process.out.read2classification,
+                        file(process.out.complete_abundance.get(0).get(1)).readLines().last().contains('unclassified'),
+                        file(process.out.contig_abundance.get(0).get(1)).readLines().last().contains('NODE_2'),
+                        file(process.out.read2classification.get(0).get(1)).readLines().last().contains('no taxid assigned'),
                         process.out.alignment_diamond,
                         process.out.contig2classification,
                         file(process.out.cat_log.get(0).get(1)).readLines().last().contains('CAT is done!'),

diff --git a/modules/nf-core/catpack/reads/tests/main.nf.test.snap b/modules/nf-core/catpack/reads/tests/main.nf.test.snap
@@ -2,30 +2,9 @@
     "sarscov2 - mr": {
         "content": [
             true,
-            [
-                [
-                    {
-                        "id": "test"
-                    },
-                    "test.complete.abundance.txt:md5,7e79f1bf50a92c78dfc0e6715b035def"
-                ]
-            ],
-            [
-                [
-                    {
-                        "id": "test"
-                    },
-                    "test.contig.abundance.txt:md5,7b1ac957710c7a3b53d441f77d4840e5"
-                ]
-            ],
-            [
-                [
-                    {
-                        "id": "test"
-                    },
-                    "test.read2classification.txt:md5,d7814c4d778e3a9801c4a39cda667d63"
-                ]
-            ],
+            true,
+            true,
+            true,
             [
                 [
                     {
@@ -102,7 +81,7 @@
             "nf-test": "0.9.2",
             "nextflow": "24.10.4"
         },
-        "timestamp": "2025-01-25T10:13:49.765319288"
+        "timestamp": "2025-01-25T16:42:10.917626872"
     },
     "sarscov2 - mcr - stub": {
         "content": [
@@ -338,30 +317,9 @@
     "sarscov2 - cr": {
         "content": [
             true,
-            [
-                [
-                    {
-                        "id": "test"
-                    },
-                    "test.complete.abundance.txt:md5,ffca4f764020b79891283bbdbbbaf403"
-                ]
-            ],
-            [
-                [
-                    {
-                        "id": "test"
-                    },
-                    "test.contig.abundance.txt:md5,2cdca2eec589ca8af2d23b8b9b3f4492"
-                ]
-            ],
-            [
-                [
-                    {
-                        "id": "test"
-                    },
-                    "test.read2classification.txt:md5,024b743326f8eadb2f7a8d3c714e615f"
-                ]
-            ],
+            true,
+            true,
+            true,
             [
                 [
                     {
@@ -438,7 +396,7 @@
             "nf-test": "0.9.2",
             "nextflow": "24.10.4"
         },
-        "timestamp": "2025-01-25T10:13:37.295849696"
+        "timestamp": "2025-01-25T16:42:03.190414401"
     },
     "sarscov2 - mcr": {
         "content": [