Merge branch 'bump-111' into 'dev'

bump v1.1.1 See merge request epi2melabs/workflows/wf-16s!9
epi2me-labs · Mar 6, 2024 · d0e1670 · d0e1670
2 parents 137d59e + 42e4c93
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -4,6 +4,10 @@ All notable changes to this project will be documented in this file.
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.1.0/),
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
+## [v1.1.1]
+### Changed
+- Bump to wf-metagenomics v2.9.1
+
 ## [v1.1.0]
 ### Added
 - Workflow now accepts BAM or FASTQ files as input (using the `--bam` or `--fastq` parameters, respectively).

diff --git a/README.md b/README.md
@@ -109,7 +109,7 @@ input_reads.fastq   ─── input_directory  ─── input_directory
                                              │   └── reads2.fastq
                                              └── barcode03
                                               └── reads0.fastq
-
+```
 
 
 

diff --git a/docs/06_input_example.md b/docs/06_input_example.md
@@ -14,3 +14,4 @@ input_reads.fastq   ─── input_directory  ─── input_directory
                                              │   └── reads2.fastq
                                              └── barcode03
                                               └── reads0.fastq
+```
diff --git a/nextflow.config b/nextflow.config
@@ -114,7 +114,7 @@ manifest {
     description     = 'Identification of the origin of single reads from 16S/ITS amplicon sequencing.'
     mainScript      = 'main.nf'
     nextflowVersion = '>=23.04.2'
-    version         = 'v1.1.0'
+    version         = 'v1.1.1'
 }
 
 

diff --git a/wf-metagenomics b/wf-metagenomics
-Original file line number
+Diff line change
@@ Expand Up @@
                                                  │   └── reads2.fastq
                                                  └── barcode03
                                                   └── reads0.fastq
+    ```
@@ Expand Down @@
+4 −2		.gitlab-ci.yml
+5 −0		CHANGELOG.md
+1 −1		README.md
+3 −1		bin/workflow_glue/aggregate_lineages_bracken.py
+1 −1		docs/06_input_parameters.md
+1 −1		nextflow.config
+1 −1		nextflow_schema.json
+2 −2		subworkflows/kraken_pipeline.nf
+2 −3		subworkflows/minimap_pipeline.nf
+6 −6		subworkflows/real_time_pipeline.nf