Merge pull request #28 from phac-nml/dev

Update to version 0.2.3

CHANGELOG.md

@@ -3,6 +3,13 @@
 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).
 
+## [0.2.3] - 2024/09/25
+
+### `Changed`
+
+- Updated `FILTER_QUERY` process to treat `query_ids` as a file input (path instead of val) for proper file path handling across environments [PR27](https://github.com/phac-nml/gasnomenclature/pull/27)
+- Addressed [Issue26](https://github.com/phac-nml/gasnomenclature/issues/26)
+
 ## [0.2.2] - 2024/09/13
 
 ### `Changed`
@@ -37,3 +44,4 @@ Initial release of the Genomic Address Nomenclature pipeline to be used to assig
 [0.2.0]: https://github.com/phac-nml/gasnomenclature/releases/tag/0.2.0
 [0.2.1]: https://github.com/phac-nml/gasnomenclature/releases/tag/0.2.1
 [0.2.2]: https://github.com/phac-nml/gasnomenclature/releases/tag/0.2.2
+[0.2.3]: https://github.com/phac-nml/gasnomenclature/releases/tag/0.2.3

modules/local/filter_query/main.nf

@@ -7,7 +7,7 @@ process FILTER_QUERY {
         'biocontainers/csvtk:0.22.0--h9ee0642_1' }"
 
     input:
-    val query_ids
+    path query_ids
     path addresses
     val in_format
     val out_format

nextflow.config

@@ -222,7 +222,7 @@ manifest {
     description     = """Gas Nomenclature assignment pipeline"""
     mainScript      = 'main.nf'
     nextflowVersion = '!>=23.04.0'
-    version         = '0.2.2'
+    version         = '0.2.3'
     doi             = ''
     defaultBranch   = 'main'
 }