fixed bug; updated meta.yml

.github/workflows/quast.yml

@@ -37,4 +37,4 @@ jobs:
         run: python -m pip install --upgrade pip pytest-workflow
 
       # Test the module
-      - run: pytest --tag quest --symlink --wt 2
+      - run: pytest --tag quast --symlink --wt 2

software/quast/quast_noref/meta.yml

@@ -5,9 +5,9 @@ keywords:
   - assembly
   - quality
 tools:
-  - star:
+  - quast:
       description: |
-        QUAST calculate quality metrics for genome assemblies
+        QUAST calculates quality metrics for genome assemblies
       homepage: http://bioinf.spbau.ru/quast
       doi:
 params:
@@ -34,15 +34,16 @@ params:
 
 input:
   - consensus:
-      type: map
+      type: file
       description: |
-        Groovy Map containing sample information
+        Fasta file containing the assembly of interest
 
 output:
-  - report:
+  - results:
       type: file
       description: The lineage report
       pattern: "{prefix}.lineage_report.csv"
+  - tsv:
 
   - version:
       type: file

software/quast/quast_ref/meta.yml

@@ -1,13 +1,13 @@
-name: quast
+name: quast_reference
 description: Quality Assessment Tool for Genome Assemblies
 keywords:
   - quast
   - assembly
   - quality
 tools:
-  - star:
+  - quast:
       description: |
-        QUAST calculate quality metrics for genome assemblies
+        QUAST calculates quality metrics for genome assemblies
       homepage: http://bioinf.spbau.ru/quast
       doi:
 params:
@@ -34,9 +34,9 @@ params:
 
 input:
   - consensus:
-      type: map
+      type: file
       description: |
-        Groovy Map containing sample information
+        Fasta file containing the assembly of interest
   - fasta:
       type: file
       description: |
@@ -46,10 +46,11 @@ input:
       description: The genome GFF file
 
 output:
-  - report:
-      type: file
-      description: The lineage report
+  - quast:
+      type: directory
+      description: Directory containing complete quast report
       pattern: "{prefix}.lineage_report.csv"
+  - report:
 
   - version:
       type: file