fix(pints): Refactor to merge groups based on issue

Started out just trying to make the tests deterministic. Re-read the issue and realized this is how they should be merged.
nf-core · Nov 9, 2024 · 136a9ca · 136a9ca
1 parent dac9111
commit 136a9ca
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Showing 22 changed files with 699 additions and 89 deletions.
diff --git a/modules.json b/modules.json
@@ -219,6 +219,11 @@
                         "git_sha": "46eca555142d6e597729fcb682adcc791796f514",
                         "installed_by": ["bam_dedup_stats_samtools_umitools", "bam_sort_stats_samtools"]
                     },
+                    "samtools/merge": {
+                        "branch": "master",
+                        "git_sha": "b13f07be4c508d6ff6312d354d09f2493243e208",
+                        "installed_by": ["modules"]
+                    },
                     "samtools/sort": {
                         "branch": "master",
                         "git_sha": "46eca555142d6e597729fcb682adcc791796f514",

diff --git a/modules/nf-core/pints/caller/main.nf b/modules/nf-core/pints/caller/main.nf
diff --git a/modules/nf-core/pints/caller/pints-caller.diff b/modules/nf-core/pints/caller/pints-caller.diff
diff --git a/modules/nf-core/samtools/merge/environment.yml b/modules/nf-core/samtools/merge/environment.yml
diff --git a/modules/nf-core/samtools/merge/main.nf b/modules/nf-core/samtools/merge/main.nf
diff --git a/modules/nf-core/samtools/merge/meta.yml b/modules/nf-core/samtools/merge/meta.yml
diff --git a/modules/nf-core/samtools/merge/tests/index.config b/modules/nf-core/samtools/merge/tests/index.config
diff --git a/modules/nf-core/samtools/merge/tests/main.nf.test b/modules/nf-core/samtools/merge/tests/main.nf.test