Merge pull request #115 from icgc-argo/helper-functions@1.0.1

[release]

Author: junjun-zhang

helper-functions/Dockerfile

@@ -2,8 +2,10 @@ FROM ubuntu:20.04
 
 LABEL org.opencontainers.image.source https://github.com/icgc-argo/data-processing-utility-tools
 
-RUN groupadd -g 1000 ubuntu &&\
-    useradd -l -u 1000 -g ubuntu ubuntu &&\
+RUN groupadd -g 1000 ubuntu && \
+    useradd -l -u 1000 -g ubuntu ubuntu && \
     install -d -m 0755 -o ubuntu -g ubuntu /home/ubuntu
 
+USER ubuntu
+
 CMD ["/bin/bash"]

helper-functions/main.nf

@@ -24,16 +24,12 @@
 /* this block is auto-generated based on info from pkg.json where   */
 /* changes can be made if needed, do NOT modify this block manually */
 nextflow.enable.dsl = 2
-version = '1.0.0'  // package version
+version = '1.0.1'
 /********************************************************************/
 
 
 // this is kind of like CWL's secondary files
 def getSecondaryFiles(main_file, exts){
-  if (!(main_file instanceof String)) {
-    exit 1, "[getSecondaryFiles] param: main_file must be a string"
-  }
-
   if (!(exts instanceof List)) {
     exit 1, "[getSecondaryFiles] param: exts must be a list of strings"
   }

helper-functions/pkg.json

@@ -1,6 +1,6 @@
 {
     "name": "helper-functions",
-    "version": "1.0.0",
+    "version": "1.0.1",
     "description": "A collection of helper functions",
     "main": "main.nf",
     "deprecated": false,

helper-functions/tests/files-exist.nf

@@ -26,7 +26,7 @@
 /* this block is auto-generated based on info from pkg.json where   */
 /* changes can be made if needed, do NOT modify this block manually */
 nextflow.enable.dsl = 2
-version = '1.0.0'  // package version
+version = '1.0.1'  // package version
 
 container = [
     'ghcr.io': 'ghcr.io/icgc-argo/data-processing-utility-tools.helper-functions'

helper-functions/tests/generate-dummy-file.nf

@@ -26,7 +26,7 @@
 /* this block is auto-generated based on info from pkg.json where   */
 /* changes can be made if needed, do NOT modify this block manually */
 nextflow.enable.dsl = 2
-version = '1.0.0'  // package version
+version = '1.0.1'  // package version
 
 container = [
     'ghcr.io': 'ghcr.io/icgc-argo/data-processing-utility-tools.helper-functions'