From 9bb1d5dfa56a24f2148a7eb442242025109006e5 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Famke=20Ba=CC=88uerle?= <famke.baeuerle@gmail.com>
Date: Fri, 22 Mar 2024 12:51:29 +0100
Subject: [PATCH] remove pyest files, update snapshot

---
 .../download/tests/main.nf.test.snap          | 37 +++++++++++++++++++
 .../nf-core/ensemblvep/download/main.nf       | 14 -------
 .../ensemblvep/download/nextflow.config       |  9 -----
 .../nf-core/ensemblvep/download/test.yml      |  7 ----
 4 files changed, 37 insertions(+), 30 deletions(-)
 delete mode 100644 tests/modules/nf-core/ensemblvep/download/main.nf
 delete mode 100644 tests/modules/nf-core/ensemblvep/download/nextflow.config
 delete mode 100644 tests/modules/nf-core/ensemblvep/download/test.yml

diff --git a/modules/nf-core/ensemblvep/download/tests/main.nf.test.snap b/modules/nf-core/ensemblvep/download/tests/main.nf.test.snap
index 6234283b330..7aadba983ac 100644
--- a/modules/nf-core/ensemblvep/download/tests/main.nf.test.snap
+++ b/modules/nf-core/ensemblvep/download/tests/main.nf.test.snap
@@ -281,5 +281,42 @@
             "nextflow": "23.10.0"
         },
         "timestamp": "2024-03-22T12:05:07.2862"
+    },
+    "celegans - download - stub": {
+        "content": [
+            {
+                "0": [
+                    [
+                        {
+                            "id": "110_WBcel235"
+                        },
+                        [
+                            
+                        ]
+                    ]
+                ],
+                "1": [
+                    "versions.yml:md5,aa3b969e6e50b03b42b0322db7c3286a"
+                ],
+                "cache": [
+                    [
+                        {
+                            "id": "110_WBcel235"
+                        },
+                        [
+                            
+                        ]
+                    ]
+                ],
+                "versions": [
+                    "versions.yml:md5,aa3b969e6e50b03b42b0322db7c3286a"
+                ]
+            }
+        ],
+        "meta": {
+            "nf-test": "0.8.4",
+            "nextflow": "23.10.0"
+        },
+        "timestamp": "2024-03-22T12:43:38.447524"
     }
 }
\ No newline at end of file
diff --git a/tests/modules/nf-core/ensemblvep/download/main.nf b/tests/modules/nf-core/ensemblvep/download/main.nf
deleted file mode 100644
index dc3d39a5dd1..00000000000
--- a/tests/modules/nf-core/ensemblvep/download/main.nf
+++ /dev/null
@@ -1,14 +0,0 @@
-#!/usr/bin/env nextflow
-
-nextflow.enable.dsl = 2
-
-include { ENSEMBLVEP_DOWNLOAD } from '../../../../../modules/nf-core/ensemblvep/download/main'
-
-vep_cache_version = "110"
-vep_genome = "WBcel235"
-vep_species = "caenorhabditis_elegans"
-vep_cache_input = Channel.of([[id:"${vep_cache_version}_${vep_genome}"], vep_genome, vep_species, vep_cache_version])
-
-workflow test_ensemblvep_download {
-    ENSEMBLVEP_DOWNLOAD(vep_cache_input)
-}
diff --git a/tests/modules/nf-core/ensemblvep/download/nextflow.config b/tests/modules/nf-core/ensemblvep/download/nextflow.config
deleted file mode 100644
index 28c8e007ff9..00000000000
--- a/tests/modules/nf-core/ensemblvep/download/nextflow.config
+++ /dev/null
@@ -1,9 +0,0 @@
-process {
-
-    publishDir = { "${params.outdir}/${task.process.tokenize(':')[-1].tokenize('_')[0].toLowerCase()}" }
-
-    withName: ENSEMBLVEP_DOWNLOAD {
-        ext.args = '--AUTO c --CONVERT --NO_BIOPERL --NO_HTSLIB --NO_TEST --NO_UPDATE'
-    }
-
-}
diff --git a/tests/modules/nf-core/ensemblvep/download/test.yml b/tests/modules/nf-core/ensemblvep/download/test.yml
deleted file mode 100644
index ca826f9000b..00000000000
--- a/tests/modules/nf-core/ensemblvep/download/test.yml
+++ /dev/null
@@ -1,7 +0,0 @@
-- name: ensemblvep test_ensemblvep_download
-  command: nextflow run ./tests/modules/nf-core/ensemblvep/download -entry test_ensemblvep_download -c ./tests/config/nextflow.config -c ./tests/modules/nf-core/ensemblvep/download/nextflow.config
-  tags:
-    - ensemblvep
-    - ensemblvep/download
-  files:
-    - path: output/ensemblvep/vep_cache/caenorhabditis_elegans/110_WBcel235/