Updating metagenomics WF to version 2.0.1

Author: asaravia-butler

Metagenomics/Illumina/Workflow_Documentation/README.md

@@ -6,7 +6,7 @@
 
 |Pipeline Version|Current Workflow Version (for respective pipeline version)|
 |:---------------|:---------------------------------------------------------|
-|*[GL-DPPD-7107.md](../Pipeline_GL-DPPD-7107_Versions/GL-DPPD-7107.md)|[2.0.0](SW_MGIllumina)|
+|*[GL-DPPD-7107.md](../Pipeline_GL-DPPD-7107_Versions/GL-DPPD-7107.md)|[2.0.1](SW_MGIllumina)|
 
 *Current GeneLab Pipeline/Workflow Implementation
 

Metagenomics/Illumina/Workflow_Documentation/SW_MGIllumina/CHANGELOG.md

@@ -1,5 +1,11 @@
 # Workflow change log
 
+## [2.0.1](https://github.com/nasa/GeneLab_Data_Processing/tree/SW_MGIllumina_2.0.1/Metagenomics/Illumina/Workflow_Documentation/SW_MGIllumina)
+- updated humann version from 3.5 to 3.6
+    - in accordance with critical bug described here: 
+[https://forum.biobakery.org/t/announcing-humann-3-6-critical-update/4155](https://forum.biobakery.org/t/announcing-humann-3-6-critical-update/4155)
+
+
 ## [2.0.0](https://github.com/nasa/GeneLab_Data_Processing/tree/SW_MGIllumina_2.0.0/Metagenomics/Illumina/Workflow_Documentation/SW_MGIllumina)
 - humann version set to 3.5 with metaphlan 4.0.1 pinned to it
     - the humann conda installation was not pinned to a specific version of metaphlan, and new releases of metaphlan were incompatible

Metagenomics/Illumina/Workflow_Documentation/SW_MGIllumina/README.md

@@ -40,7 +40,7 @@ This downloaded the workflow into a directory called `SW_MGIllumina_*/`, with th
 
 > Note: If wanting an earlier version, the wanted version can be provided as an optional argument like so:
 > ```bash
-> GL-get-workflow MG-Illumina --wanted-version 1.0.0
+> GL-get-workflow MG-Illumina --wanted-version 2.0.0
 > ```
 
 ### 3. Modify the variables in the config.yaml file

Metagenomics/Illumina/Workflow_Documentation/SW_MGIllumina/workflow_code/envs/humann3.yaml

@@ -4,5 +4,5 @@ channels:
     - defaults
     - biobakery
 dependencies:
-    - humann=3.5
+    - humann=3.6
     - metaphlan=4.0.1