Merge pull request #27 from emo-bon/ro-crate

This PR adds the RO-crate generation of the wf running. 

The wf now will return only a `.zip` file which will include: 
- the folder `results` of the initial outut
- a copy of the `config.yml` the user provided
- the `.yml` file metaGOflow automatically builds based on the user's config 
- the `ro-crate-metadata.json` file

Author: hariszaf

.gitignore

@@ -116,8 +116,15 @@ venv.bak/
 
 # Ignore real-world test samples
 test_input/SRR*
+test_input/DB*
 
 # Ignore dev output 
 TEST_*/
 *.output
 
+STELIOS_TEST/
+marine_sediment_dbh/
+
+slurm_run.sh
+
+

RunTimeResearchObject-f0b553d37e4255a3291393948f3e308bd88ed301.zip

@@ -1,15 +1,15 @@
 # Steps to go for
 qc_and_merge_step: true
-taxonomic_inventory: false
-cgc_step: false
-reads_functional_annotation: false
+taxonomic_inventory: true
+cgc_step: true
+reads_functional_annotation: true
 assemble: false
 
 # Global
-threads: 20
+threads: 40
 
-# For parallelization cases might worth decrease global value of threads
-interproscan_threads: 20
+# As a rule of thumb keep that as floor(threads/8) where threads the previous parameter
+interproscan_threads: 4
 
 # fastp parameters
 detect_adapter_for_pe: false