ready for review

Author: avantonder

.github/actions/nf-test/action.yml

@@ -106,4 +106,5 @@ runs:
       if: always()
       shell: bash
       run: |
-        sudo rm -rf /home/ubuntu/tests/
+        sudo rm -rf /home/ubuntu/tests/
+        

.gitignore

@@ -10,4 +10,4 @@ null/
 .nf-test.log
 nf-test
 .nf-test*
-.nf-test/
+.nf-test/

.nf-test.log

@@ -1,18 +1,18 @@
-Sept-03 16:06:16.416 [main] INFO  com.askimed.nf.test.App - nf-test 0.9.2
-Sept-03 16:06:16.423 [main] INFO  com.askimed.nf.test.App - Arguments: [test, tests/, --profile=+docker]
-Sept-03 16:06:16.812 [main] INFO  com.askimed.nf.test.App - Nextflow Version: 25.04.6
-Sept-03 16:06:16.812 [main] INFO  com.askimed.nf.test.commands.RunTestsCommand - Load config from file /Users/ajv37/Documents/Pipelines/bactmap/nf-test.config...
-Sept-03 16:06:17.096 [main] INFO  com.askimed.nf.test.lang.dependencies.DependencyResolver - Loaded 73 files from directory /Users/ajv37/Documents/Pipelines/bactmap in 0.107 sec
-Sept-03 16:06:17.096 [main] INFO  com.askimed.nf.test.lang.dependencies.DependencyResolver - Found 1 files containing tests.
-Sept-03 16:06:17.096 [main] DEBUG com.askimed.nf.test.lang.dependencies.DependencyResolver - Found files: [/Users/ajv37/Documents/Pipelines/bactmap/tests/default.nf.test]
-Sept-03 16:06:17.182 [main] INFO  com.askimed.nf.test.commands.RunTestsCommand - Found 1 tests to execute.
-Sept-03 16:06:17.182 [main] INFO  com.askimed.nf.test.core.TestExecutionEngine - Started test plan
-Sept-03 16:06:17.182 [main] INFO  com.askimed.nf.test.core.TestExecutionEngine - Running testsuite 'Test pipeline' from file '/Users/ajv37/Documents/Pipelines/bactmap/tests/default.nf.test'.
-Sept-03 16:06:17.182 [main] INFO  com.askimed.nf.test.core.TestExecutionEngine - Run test '5192f88d: -profile test'. type: com.askimed.nf.test.lang.pipeline.PipelineTest
-Sept-03 16:07:39.491 [main] DEBUG com.askimed.nf.test.lang.extensions.SnapshotFile - Init new snapshot file '/Users/ajv37/Documents/Pipelines/bactmap/tests/default.nf.test.snap'
-Sept-03 16:07:39.492 [main] DEBUG com.askimed.nf.test.lang.extensions.Snapshot - Snapshot '-profile test' not found.
-Sept-03 16:07:39.493 [main] DEBUG com.askimed.nf.test.lang.extensions.SnapshotFile - Created snapshot '-profile test'
-Sept-03 16:07:40.352 [main] DEBUG com.askimed.nf.test.lang.extensions.SnapshotFile - Wrote snapshots to file '/Users/ajv37/Documents/Pipelines/bactmap/tests/default.nf.test.snap'
-Sept-03 16:07:40.352 [main] INFO  com.askimed.nf.test.core.TestExecutionEngine - Test '5192f88d: -profile test' finished. status: PASSED
-Sept-03 16:07:40.353 [main] INFO  com.askimed.nf.test.core.TestExecutionEngine - Testsuite 'Test pipeline' finished. snapshot file: true, skipped tests: false, failed tests: false
-Sept-03 16:07:40.354 [main] INFO  com.askimed.nf.test.core.TestExecutionEngine - Executed 1 tests. 0 tests failed. Done!
+Sept-11 15:08:27.434 [main] INFO  com.askimed.nf.test.App - nf-test 0.9.2
+Sept-11 15:08:27.441 [main] INFO  com.askimed.nf.test.App - Arguments: [test, tests/, --profile=+docker]
+Sept-11 15:08:27.968 [main] INFO  com.askimed.nf.test.App - Nextflow Version: 25.04.6
+Sept-11 15:08:27.969 [main] INFO  com.askimed.nf.test.commands.RunTestsCommand - Load config from file /Users/ajv37/Documents/Pipelines/bactmap/nf-test.config...
+Sept-11 15:08:28.853 [main] INFO  com.askimed.nf.test.lang.dependencies.DependencyResolver - Loaded 73 files from directory /Users/ajv37/Documents/Pipelines/bactmap in 0.108 sec
+Sept-11 15:08:28.854 [main] INFO  com.askimed.nf.test.lang.dependencies.DependencyResolver - Found 1 files containing tests.
+Sept-11 15:08:28.854 [main] DEBUG com.askimed.nf.test.lang.dependencies.DependencyResolver - Found files: [/Users/ajv37/Documents/Pipelines/bactmap/tests/default.nf.test]
+Sept-11 15:08:28.920 [main] INFO  com.askimed.nf.test.commands.RunTestsCommand - Found 1 tests to execute.
+Sept-11 15:08:28.920 [main] INFO  com.askimed.nf.test.core.TestExecutionEngine - Started test plan
+Sept-11 15:08:28.920 [main] INFO  com.askimed.nf.test.core.TestExecutionEngine - Running testsuite 'Test pipeline' from file '/Users/ajv37/Documents/Pipelines/bactmap/tests/default.nf.test'.
+Sept-11 15:08:28.920 [main] INFO  com.askimed.nf.test.core.TestExecutionEngine - Run test '5192f88d: -profile test'. type: com.askimed.nf.test.lang.pipeline.PipelineTest
+Sept-11 15:10:29.299 [main] DEBUG com.askimed.nf.test.lang.extensions.SnapshotFile - Init new snapshot file '/Users/ajv37/Documents/Pipelines/bactmap/tests/default.nf.test.snap'
+Sept-11 15:10:29.302 [main] DEBUG com.askimed.nf.test.lang.extensions.Snapshot - Snapshot '-profile test' not found.
+Sept-11 15:10:29.302 [main] DEBUG com.askimed.nf.test.lang.extensions.SnapshotFile - Created snapshot '-profile test'
+Sept-11 15:10:30.173 [main] DEBUG com.askimed.nf.test.lang.extensions.SnapshotFile - Wrote snapshots to file '/Users/ajv37/Documents/Pipelines/bactmap/tests/default.nf.test.snap'
+Sept-11 15:10:30.173 [main] INFO  com.askimed.nf.test.core.TestExecutionEngine - Test '5192f88d: -profile test' finished. status: PASSED
+Sept-11 15:10:30.175 [main] INFO  com.askimed.nf.test.core.TestExecutionEngine - Testsuite 'Test pipeline' finished. snapshot file: true, skipped tests: false, failed tests: false
+Sept-11 15:10:30.176 [main] INFO  com.askimed.nf.test.core.TestExecutionEngine - Executed 1 tests. 0 tests failed. Done!

.nf-test/plugins/769ef9cb3e09a5479af8ae24f9f6ea54.json

@@ -90,7 +90,7 @@
   }]
 },{
   "id": "nft-utils",
-  "latest": "0.0.5",
+  "latest": "0.0.6",
   "url": "https://github.com/nf-core/nft-utils",
   "github": "nf-core/nft-utils",
   "description": "nf-test utility functions for Nextflow pipelines.",
@@ -111,6 +111,9 @@
   },{
     "version": "0.0.5",
     "url": "https://github.com/nf-core/nft-utils/releases/download/0.0.5/nft-utils-0.0.5.jar"
+  },{
+    "version": "0.0.6",
+    "url": "https://github.com/nf-core/nft-utils/releases/download/0.0.6/nft-utils-0.0.6.jar"
   }]
 },{
   "id": "nft-fastq",