diff --git a/CHANGELOG.md b/CHANGELOG.md
index feb3c137..9e0d2429 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -3,6 +3,22 @@
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).
+## 2.5.3 - [2024-02-05]
+
+### `Added`
+
+### `Changed`
+
+- [#575](https://github.com/nf-core/mag/pull/575) - Deactivated MetaSPAdes, Centrifuge, and GTDB in test_full profile due to some container incompatibilities in nf-core megatest AWS configurations (by @jfy133)
+
+### `Fixed`
+
+- [#574](https://github.com/nf-core/mag/pull/574) - Fix wrong channel going to BIN_SUMMARY (fix by @maxibor)
+
+### `Dependencies`
+
+### `Deprecated`
+
## 2.5.2 - [2024-02-02]
### `Added`
diff --git a/assets/multiqc_config.yml b/assets/multiqc_config.yml
index de0b96a6..234d1d8d 100644
--- a/assets/multiqc_config.yml
+++ b/assets/multiqc_config.yml
@@ -1,7 +1,7 @@
report_comment: >
- This report has been generated by the nf-core/mag
+ This report has been generated by the nf-core/mag
analysis pipeline. For information about how to interpret these results, please see the
- documentation.
+ documentation.
report_section_order:
"nf-core-mag-methods-description":
order: -1000
diff --git a/conf/test_full.config b/conf/test_full.config
index ea694247..d7f3365e 100644
--- a/conf/test_full.config
+++ b/conf/test_full.config
@@ -19,15 +19,21 @@ params {
host_fasta = "s3://ngi-igenomes/test-data/mag/hg19_main_mask_ribo_animal_allplant_allfungus.fa.gz"
input = "s3://ngi-igenomes/test-data/mag/samplesheets/samplesheet.full.csv"
- centrifuge_db = "s3://ngi-igenomes/test-data/mag/p_compressed+h+v.tar.gz"
+ //centrifuge_db = "s3://ngi-igenomes/test-data/mag/p_compressed+h+v.tar.gz"
kraken2_db = "s3://ngi-igenomes/test-data/mag/minikraken_8GB_202003.tgz"
cat_db = "s3://ngi-igenomes/test-data/mag/CAT_prepare_20210107.tar.gz"
- gtdb_db = "s3://ngi-igenomes/test-data/mag/gtdbtk_r202_data.tar.gz"
+ // gtdb_db = "s3://ngi-igenomes/test-data/mag/gtdbtk_r214_data.tar.gz"
+ skip_gtdbtk = true
+
+ // TODO TEMPORARY: deactivate SPAdes due to incompatibility of container with fusion file system
+ skip_spades = true
+ skip_spadeshybrid = true
// reproducibility options for assembly
spades_fix_cpus = 10
spadeshybrid_fix_cpus = 10
megahit_fix_cpu_1 = true
+
// available options to enable reproducibility for BUSCO (--busco_db) not used here
// to allow detection of possible problems in automated lineage selection mode using public databases
diff --git a/nextflow.config b/nextflow.config
index fd0094b9..6a2da3b5 100644
--- a/nextflow.config
+++ b/nextflow.config
@@ -379,7 +379,7 @@ manifest {
description = """Assembly, binning and annotation of metagenomes"""
mainScript = 'main.nf'
nextflowVersion = '!>=23.04.0'
- version = '2.5.2'
+ version = '2.5.3'
doi = '10.1093/nargab/lqac007'
}
diff --git a/workflows/mag.nf b/workflows/mag.nf
index 61ce43bc..6ec7b132 100644
--- a/workflows/mag.nf
+++ b/workflows/mag.nf
@@ -960,7 +960,7 @@ workflow MAG {
// If CAT is not run, then the CAT global summary should be an empty channel
if ( params.cat_db_generate || params.cat_db) {
- ch_cat_global_summary = CAT_SUMMARY.out.summary
+ ch_cat_global_summary = CAT_SUMMARY.out.combined
} else {
ch_cat_global_summary = Channel.empty()
}