Start replacing custom Bowtie2 modules with official nf-core ones

nf-core · Jan 24, 2025 · bd46226 · bd46226
1 parent 95120cb
commit bd46226
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Showing 19 changed files with 1,439 additions and 39 deletions.
diff --git a/modules.json b/modules.json
@@ -36,6 +36,16 @@
                         "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
                         "installed_by": ["modules"]
                     },
+                    "bowtie2/align": {
+                        "branch": "master",
+                        "git_sha": "0e9cb409c32d3ec4f0d3804588e4778971c09b7e",
+                        "installed_by": ["modules"]
+                    },
+                    "bowtie2/build": {
+                        "branch": "master",
+                        "git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
+                        "installed_by": ["modules"]
+                    },
                     "cat/fastq": {
                         "branch": "master",
                         "git_sha": "5c460c5a4736974abde2843294f35307ee2b0e5e",

diff --git a/modules/nf-core/bowtie2/align/environment.yml b/modules/nf-core/bowtie2/align/environment.yml
diff --git a/modules/nf-core/bowtie2/align/main.nf b/modules/nf-core/bowtie2/align/main.nf
diff --git a/modules/nf-core/bowtie2/align/meta.yml b/modules/nf-core/bowtie2/align/meta.yml
diff --git a/modules/nf-core/bowtie2/align/tests/cram_crai.config b/modules/nf-core/bowtie2/align/tests/cram_crai.config
diff --git a/modules/nf-core/bowtie2/align/tests/large_index.config b/modules/nf-core/bowtie2/align/tests/large_index.config