Merge pull request #46 from eastgenomics/dev

v1.3.1

dxapp.json

@@ -1,11 +1,11 @@
 {
-  "name": "vcf2xls_nirvana_v1.3.0",
-  "title": "vcf2xls_nirvana_v1.3.0",
+  "name": "vcf2xls_nirvana_v1.3.1",
+  "title": "vcf2xls_nirvana_v1.3.1",
   "summary": "vcf2xls_nirvana adapated for DNAnexus: no queries for Genetics Ark, uses Python STDOUT to replace essential queries for creating QC sheets",
   "dxapi": "1.0.0",
-  "version": "1.3.0",
+  "version": "1.3.1",
   "properties": {
-    "githubRelease": "v1.3.0"
+    "githubRelease": "v1.3.1"
   },
   "inputSpec": [
     {

src/vcf2xls_nirvana.sh

@@ -77,15 +77,15 @@ main() {
 
 
     # Get workflow name and id
-    if dx describe --delim "_" $annotated_vcf_name | grep -q job- ; then
+    if dx describe --delim "_" $annotated_vcf_name | grep job- ; then
         job_id=$(dx describe --delim "_" $annotated_vcf_name | grep job- | cut -d_ -f2)
         analysis=$(dx describe --delim "_" $job_id)
 
-        if dx describe --delim "_" $job_id | grep -q Root ; then
+        if dx describe --delim "_" $job_id | grep Root ; then
             analysis_id=$(dx describe --delim "_" $job_id | grep Root | cut -d_ -f2)
             workflow=$(dx describe --delim "_" $analysis_id)
 
-            if dx describe --delim "_" $analysis_id | grep -q Workflow ; then
+            if dx describe --delim "_" $analysis_id | grep Workflow ; then
                 workflow_id=$(dx describe --delim "_" $analysis_id | grep Workflow | cut -d_ -f2)
                 analysis_name=$(dx describe --name $analysis_id)
                 found_workflow_id=true