1.3.0dev -> 1.3.0

CHANGELOG.md

@@ -3,18 +3,38 @@
 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).
 
-## [1.3.0dev] nfcore/quantms - [TBD] - Vaduz
+## [1.3.0] nfcore/quantms - [08/04/2024] - Santiago
 
 ### `Added`
 
+- [#335](https://github.com/bigbio/quantms/pull/335) (Performance improvement) Improvements in DIA pipeline to use random/subset files for library search
+- [#351](https://github.com/bigbio/quantms/pull/351) Identification workflow for DDA data
+
 ### `Changed`
 
+- [#365](https://github.com/bigbio/quantms/pull/365) Updated sdrf-pipelines==0.0.26
+- [#359](https://github.com/bigbio/quantms/pull/359) Updated pmultiqc==0.0.25
+
+
 ### `Fixed`
 
+- [#357](https://github.com/bigbio/quantms/pull/357) Chymotrypsin -> Chymotrypsin/P in MSGF+
+- [#355](https://github.com/bigbio/quantms/pull/355) Fixes bin/diann_convert.py
+- [#316](https://github.com/bigbio/quantms/pull/316) Fixing MSGF+ error
+
 ### `Dependencies`
 
 ### `Parameters`
 
+- id_only: Only perform identification, no quantification
+- min_peaks: Minimum number of peaks in a spectrum to be considered for search
+- export_decoy_psm: Export decoy PSMs
+- skip_rescoring: Skip rescoring
+- skip_preliminary_analysis: Skip preliminary analysis in DIA-NN
+- empirical_assembly_log: Path to the empirical assembly log file
+- random_preanalysis: Use random/subset files for library search
+- empirical_assembly_ms_n: Number of MS runs to use for empirical assembly
+
 ### `Deprecations`
 
 ## [1.2.0] nfcore/quantms - [11/02/2023] - Thimphu

nextflow.config

@@ -462,7 +462,7 @@ manifest {
     description     = """Quantitative Mass Spectrometry nf-core workflow"""
     mainScript      = 'main.nf'
     nextflowVersion = '!>=23.04.0'
-    version         = '1.3.0dev'
+    version         = '1.3.0'
     doi             = '10.5281/zenodo.7754148'
 }