nf-core · kbestak · Dec 4, 2023 · Dec 2, 2023 · Dec 3, 2023 · Dec 4, 2023
diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -3,6 +3,18 @@
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/)
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
+## v1.0.1dev - [2023.12.02]
+
+Replaced local module for mindagap/duplicatefinder with nf-core module.
+
+### `Added`
+
+- installed mindagap/duplicatefinder via nf-core tools
+
+### `Removed`
+
+- removed local mindagap_duplicatefinder.nf in local modules
+
 ## v1.0.1dev - [2023.11.30.]
 
 Changes to clahe - more nf-core compliant, script change, versions, updated tests.

diff --git a/modules.json b/modules.json
@@ -30,6 +30,11 @@
                         "git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
                         "installed_by": ["modules"]
                     },
+                    "mindagap/duplicatefinder": {
+                        "branch": "master",
+                        "git_sha": "cdc42519bf7d6d2cac9b5f14cb56e0060477c69c",
+                        "installed_by": ["modules"]
+                    },
                     "mindagap/mindagap": {
                         "branch": "master",
                         "git_sha": "8fc1d24c710ebe1d5de0f2447ec9439fd3d9d66a",

diff --git a/modules/nf-core/mindagap/duplicatefinder/environment.yml b/modules/nf-core/mindagap/duplicatefinder/environment.yml
diff --git a/modules/local/mindagap_duplicatefinder.nf → .../nf-core/mindagap/duplicatefinder/main.nf b/modules/local/mindagap_duplicatefinder.nf → .../nf-core/mindagap/duplicatefinder/main.nf
diff --git a/modules/nf-core/mindagap/duplicatefinder/meta.yml b/modules/nf-core/mindagap/duplicatefinder/meta.yml
diff --git a/modules/nf-core/mindagap/duplicatefinder/tests/main.nf.test b/modules/nf-core/mindagap/duplicatefinder/tests/main.nf.test
diff --git a/modules/nf-core/mindagap/duplicatefinder/tests/main.nf.test.snap b/modules/nf-core/mindagap/duplicatefinder/tests/main.nf.test.snap
diff --git a/modules/nf-core/mindagap/duplicatefinder/tests/nextflow.config b/modules/nf-core/mindagap/duplicatefinder/tests/nextflow.config
diff --git a/modules/nf-core/mindagap/duplicatefinder/tests/tags.yml b/modules/nf-core/mindagap/duplicatefinder/tests/tags.yml
diff --git a/workflows/molkart.nf b/workflows/molkart.nf
@@ -36,7 +36,6 @@ include { CREATETRAININGTIFF          } from '../modules/local/createtrainingtif
 include { CREATEILASTIKTRAININGSUBSET } from '../modules/local/createilastiktrainingsubset'
 include { CREATE_STACK                } from '../modules/local/create_stack'
 include { CLAHE                       } from '../modules/local/clahe_dask'
-include { MINDAGAP_DUPLICATEFINDER    } from '../modules/local/mindagap_duplicatefinder'
 include { SPOT2CELL                   } from '../modules/local/spot2cell'
 include { TIFFH5CONVERT               } from '../modules/local/tiffh5convert'
 include { MOLCART_QC                  } from '../modules/local/molcart_qc'
@@ -56,6 +55,7 @@ include { MOLCART_QC                  } from '../modules/local/molcart_qc'
 //
 include { MULTIQC                     } from '../modules/nf-core/multiqc/main'
 include { CUSTOM_DUMPSOFTWAREVERSIONS } from '../modules/nf-core/custom/dumpsoftwareversions/main'
+include { MINDAGAP_DUPLICATEFINDER    } from '../modules/nf-core/mindagap/duplicatefinder/main'
 include { MINDAGAP_MINDAGAP           } from '../modules/nf-core/mindagap/mindagap/main'
 include { CELLPOSE                    } from '../modules/nf-core/cellpose/main'
 include { DEEPCELL_MESMER             } from '../modules/nf-core/deepcell/mesmer/main'