Merge pull request #2 from moka-guys/v1.1.0

V1.1.0 (#2)

README.md

@@ -1,16 +1,16 @@
-dnanexus_normals_readcount_analysis_v1.0.0
+dnanexus_normals_readcount_analysis_v1.1.0
 Exome depth is run in two stages. Firstly, read counts are calculated and the second step filers out the CNVs of interest. Read counts are calculated over the entire genome and the CNVs are filtered out using a subpanel BED file.
 
 CNV calling can be performed by providing a readcount file for a set of known normals. 
 
-dnanexus_normals_readcount_analysis_v1.0.0 calculates readcounts for a panel of normals samples intended to use as an input for https://github.com/moka-guys/dnanexus_ED_readcount_analysis
+dnanexus_normals_readcount_analysis_v1.1.0 calculates readcounts for a panel of normals samples intended to use as an input for https://github.com/moka-guys/dnanexus_ED_readcount_analysis
 
 What does the app do?
 This app runs the read count calculation stage for a set of known normals.
 
 Using the provided DNANexus project and the list of Pan numbers the app downloads BAMs and BAI.
 
-A Docker image containing Exome depth is downloaded from 001 - The Exomedepth image taken from https://github.com/moka-guys/seglh-cnv/releases/tag/v2.0.0
+A Docker image containing Exome depth is downloaded from 001 - The Exomedepth image taken from https://github.com/moka-guys/seglh-cnv/releases/tag/v2.1.0
 
 The readCount.R script is then called, producing a readcount file (normals.RData) 
 

dxapp.json

@@ -1,8 +1,11 @@
 {
-  "name": "ED_panel_of_normals_v1.0.0",
-  "title": "ED_panel_of_normals_v1.0.0",
-  "summary": "v1.0.0 - Create panel of normals for cnv calling",
+  "name": "ED_panel_of_normals_v1.1.0",
+  "title": "ED_panel_of_normals_v1.1.0",
+  "summary": "v1.1.0 - Create panel of normals for cnv calling",
   "dxapi": "1.0.0",
+  "properties": {
+    "github release": "v1.1.0"
+  },
   "inputSpec": [
     {
       "name": "project_name",

src/code.sh

@@ -1,5 +1,5 @@
 #!/bin/bash
-# ED_panel_of_normals_v1.0.0
+# ED_panel_of_normals_v1.1.0
 
 # The following line causes bash to exit at any point if there is any error
 # and to output each line as it is executed -- useful for debugging
@@ -74,7 +74,7 @@ cd /home/dnanexus
 
 mark-section "setting up Exomedepth docker image"
 # Location of the ExomeDepth docker file
-docker_file_id=project-ByfFPz00jy1fk6PjpZ95F27J:file-GYzKz400jy1yx101F34p8qj2
+docker_file_id=project-ByfFPz00jy1fk6PjpZ95F27J:file-Gbjy9yj0JQXkKB8bfFz856V6
 # download the docker file from 001_Tools...
 dx download $docker_file_id --auth "${API_KEY}"
 docker_file=$(dx describe ${docker_file_id} --name)