test: regenerate snapshots under nf-test 0.9.4

znorgaard · claude · znorgaard · commit a76efc58af67 · 2026-06-15T15:42:04.000-07:00
Stale blocks carried nf-test 0.8.4/0.9.0/0.9.2 version stamps because
nf-test only rewrites a snapshot block when its content changes, and these
deterministic md5 blocks had not changed since earlier runs. Drop and
regenerate them so all stamps reflect the pinned 0.9.4.

Co-Authored-By: Claude Opus 4.8 (1M context) &lt;noreply@anthropic.com&gt;
diff --git a/tests/pipeline/multi_fastq.nf.test.snap b/tests/pipeline/multi_fastq.nf.test.snap
@@ -1,4 +1,14 @@
 {
+    "multi_fastq_ht_software_versions": {
+        "content": [
+            "ALIGN_CONSENSUS_BAM:bwa=0.7.18-r1243-dirty,fgbio=2.5.21,samtools=1.21; ALIGN_RAW_BAM:bwa=0.7.18-r1243-dirty,fgbio=2.5.21,samtools=1.21; BWAMEM1_INDEX:bwa=0.7.19-r1273; CALLANDFILTERDUPLEXCONSENSUSREADS:fgbio=2.5.21; COLLECTDUPLEXSEQMETRICS:fgbio=2.5.21; FASTQC:fastqc=0.12.1; FASTQTOBAM:fgbio=2.5.21; GROUPREADSBYUMI:fgbio=2.5.21; SAMTOOLS_DICT:samtools=1.23.1; SAMTOOLS_FAIDX:samtools=1.23.1; Workflow:nf-core/fastquorum=v1.3.0dev"
+        ],
+        "timestamp": "2026-06-05T14:57:44.448018",
+        "meta": {
+            "nf-test": "0.9.4",
+            "nextflow": "25.10.4"
+        }
+    },
     "multi_fastq_rd": {
         "content": [
             "SRR6109255_two_fastqs.grouped-family-sizes.txt:md5,d2b8b8eb6c01a58f9aea6596b44e3735",
@@ -8,17 +18,7 @@
             "SRR6109255_four_fastqs.grouped-family-sizes.txt:md5,150a851a1ae78822b65b74040d05172c",
             "SRR6109255_four_fastqs.duplex_seq_metrics.family_sizes.txt:md5,60dafa16823744a37fe9ad85d08b038c"
         ],
-        "timestamp": "2024-05-20T01:50:53.564089",
-        "meta": {
-            "nf-test": "0.8.4",
-            "nextflow": "23.10.1"
-        }
-    },
-    "multi_fastq_ht_software_versions": {
-        "content": [
-            "ALIGN_CONSENSUS_BAM:bwa=0.7.18-r1243-dirty,fgbio=2.5.21,samtools=1.21; ALIGN_RAW_BAM:bwa=0.7.18-r1243-dirty,fgbio=2.5.21,samtools=1.21; BWAMEM1_INDEX:bwa=0.7.19-r1273; CALLANDFILTERDUPLEXCONSENSUSREADS:fgbio=2.5.21; COLLECTDUPLEXSEQMETRICS:fgbio=2.5.21; FASTQC:fastqc=0.12.1; FASTQTOBAM:fgbio=2.5.21; GROUPREADSBYUMI:fgbio=2.5.21; SAMTOOLS_DICT:samtools=1.23.1; SAMTOOLS_FAIDX:samtools=1.23.1; Workflow:nf-core/fastquorum=v1.3.0dev"
-        ],
-        "timestamp": "2026-06-05T14:57:44.448018",
+        "timestamp": "2026-06-12T16:09:35.523504",
         "meta": {
             "nf-test": "0.9.4",
             "nextflow": "25.10.4"
@@ -43,10 +43,10 @@
             "SRR6109255_four_fastqs.grouped-family-sizes.txt:md5,150a851a1ae78822b65b74040d05172c",
             "SRR6109255_four_fastqs.duplex_seq_metrics.family_sizes.txt:md5,60dafa16823744a37fe9ad85d08b038c"
         ],
-        "timestamp": "2024-05-20T01:58:10.241449",
+        "timestamp": "2026-06-12T16:12:01.884969",
         "meta": {
-            "nf-test": "0.8.4",
-            "nextflow": "23.10.1"
+            "nf-test": "0.9.4",
+            "nextflow": "25.10.4"
         }
     }
 }
diff --git a/tests/pipeline/multi_lanes.nf.test.snap b/tests/pipeline/multi_lanes.nf.test.snap
@@ -18,10 +18,10 @@
             "SRR6109255_three_lanes.grouped-family-sizes.txt:md5,4c720d70e6c0bd8fe38cb3befc608982",
             "SRR6109255_three_lanes.duplex_seq_metrics.family_sizes.txt:md5,dc78b321e46046f1ee1e5b3a678b79a2"
         ],
-        "timestamp": "2024-05-20T01:42:46.597128",
+        "timestamp": "2026-06-12T16:17:29.01606",
         "meta": {
-            "nf-test": "0.8.4",
-            "nextflow": "23.10.1"
+            "nf-test": "0.9.4",
+            "nextflow": "25.10.4"
         }
     },
     "multi_lanes_ht_software_versions": {
@@ -43,10 +43,10 @@
             "SRR6109255_three_lanes.grouped-family-sizes.txt:md5,4c720d70e6c0bd8fe38cb3befc608982",
             "SRR6109255_three_lanes.duplex_seq_metrics.family_sizes.txt:md5,dc78b321e46046f1ee1e5b3a678b79a2"
         ],
-        "timestamp": "2024-05-20T01:34:44.993842",
+        "timestamp": "2026-06-12T16:14:54.129516",
         "meta": {
-            "nf-test": "0.8.4",
-            "nextflow": "23.10.1"
+            "nf-test": "0.9.4",
+            "nextflow": "25.10.4"
         }
     }
 }
diff --git a/tests/pipeline/single_fastq.nf.test.snap b/tests/pipeline/single_fastq.nf.test.snap
@@ -3,10 +3,10 @@
         "content": [
             "SRR6109255_one_fastq.grouped-family-sizes.txt:md5,29eb69ede70485d5893c581211586590"
         ],
-        "timestamp": "2024-11-13T16:29:47.975703",
+        "timestamp": "2026-06-12T16:21:56.307424",
         "meta": {
-            "nf-test": "0.9.0",
-            "nextflow": "24.04.4"
+            "nf-test": "0.9.4",
+            "nextflow": "25.10.4"
         }
     },
     "single_fastq_ht_software_versions": {
@@ -33,10 +33,10 @@
         "content": [
             "SRR6109255_one_fastq.grouped-family-sizes.txt:md5,29eb69ede70485d5893c581211586590"
         ],
-        "timestamp": "2024-11-13T16:32:31.496755",
+        "timestamp": "2026-06-12T16:23:52.225738",
         "meta": {
-            "nf-test": "0.9.0",
-            "nextflow": "24.04.4"
+            "nf-test": "0.9.4",
+            "nextflow": "25.10.4"
         }
     }
 }
diff --git a/tests/pipeline/tiny.nf.test.snap b/tests/pipeline/tiny.nf.test.snap
@@ -3,42 +3,42 @@
         "content": [
             "ALIGN_CONSENSUS_BAM:bwa=0.7.18-r1243-dirty,fgbio=2.5.21,samtools=1.21; ALIGN_RAW_BAM:bwa=0.7.18-r1243-dirty,fgbio=2.5.21,samtools=1.21; BWAMEM1_INDEX:bwa=0.7.19-r1273; CALLDDUPLEXCONSENSUSREADS:fgbio=2.5.21; COLLECTDUPLEXSEQMETRICS:fgbio=2.5.21; FASTQC:fastqc=0.12.1; FASTQTOBAM:fgbio=2.5.21; FILTERCONSENSUSREADS:fgbio=2.5.21; GROUPREADSBYUMI:fgbio=2.5.21; SAMTOOLS_DICT:samtools=1.23.1; SAMTOOLS_FAIDX:samtools=1.23.1; Workflow:nf-core/fastquorum=v1.3.0dev"
         ],
+        "timestamp": "2026-06-12T16:26:07.226149",
         "meta": {
-            "nf-test": "0.9.2",
+            "nf-test": "0.9.4",
             "nextflow": "25.10.4"
-        },
-        "timestamp": "2026-06-05T14:22:44.213539"
+        }
     },
     "tiny_ht_software_versions": {
         "content": [
             "ALIGN_CONSENSUS_BAM:bwa=0.7.18-r1243-dirty,fgbio=2.5.21,samtools=1.21; ALIGN_RAW_BAM:bwa=0.7.18-r1243-dirty,fgbio=2.5.21,samtools=1.21; BWAMEM1_INDEX:bwa=0.7.19-r1273; CALLANDFILTERDUPLEXCONSENSUSREADS:fgbio=2.5.21; COLLECTDUPLEXSEQMETRICS:fgbio=2.5.21; FASTQC:fastqc=0.12.1; FASTQTOBAM:fgbio=2.5.21; GROUPREADSBYUMI:fgbio=2.5.21; SAMTOOLS_DICT:samtools=1.23.1; SAMTOOLS_FAIDX:samtools=1.23.1; Workflow:nf-core/fastquorum=v1.3.0dev"
         ],
+        "timestamp": "2026-06-12T16:28:11.914271",
         "meta": {
-            "nf-test": "0.9.2",
+            "nf-test": "0.9.4",
             "nextflow": "25.10.4"
-        },
-        "timestamp": "2026-06-05T14:24:51.7043"
+        }
     },
     "tiny_rd": {
         "content": [
             "SRR6109255.grouped-family-sizes.txt:md5,d2b8b8eb6c01a58f9aea6596b44e3735",
             "SRR6109255.duplex_seq_metrics.family_sizes.txt:md5,1439dc926491ef89f34dc5c56dc61b56"
         ],
+        "timestamp": "2026-06-12T16:26:07.22827",
         "meta": {
-            "nf-test": "0.8.4",
-            "nextflow": "23.10.1"
-        },
-        "timestamp": "2024-05-19T23:42:19.171887"
+            "nf-test": "0.9.4",
+            "nextflow": "25.10.4"
+        }
     },
     "tiny_ht": {
         "content": [
             "SRR6109255.grouped-family-sizes.txt:md5,d2b8b8eb6c01a58f9aea6596b44e3735",
             "SRR6109255.duplex_seq_metrics.family_sizes.txt:md5,1439dc926491ef89f34dc5c56dc61b56"
         ],
+        "timestamp": "2026-06-12T16:28:11.917828",
         "meta": {
-            "nf-test": "0.8.4",
-            "nextflow": "23.10.1"
-        },
-        "timestamp": "2024-05-19T23:48:57.112733"
+            "nf-test": "0.9.4",
+            "nextflow": "25.10.4"
+        }
     }
 }
