Rearranging for clarity

[arvados-tutorial.git] / WGS-processing / yml / bwa-gatk-report-wf-UK.yml

diff --git a/WGS-processing/yml/bwa-gatk-report-wf-UK.yml b/WGS-processing/yml/bwa-gatk-report-wf-UK.yml
new file mode 100644 (file)
index 0000000..074d16a
--- /dev/null
+++ b/WGS-processing/yml/bwa-gatk-report-wf-UK.yml
@@ -0,0 +1,35 @@
+sample: ERR1726424
+
+reference:
+  class: File
+  location: keep:a3af04432df3d71d22f2fe8be549ba96+5974/hg38.fa
+
+fastq1:
+  class: File
+  location: keep:c96565a96cd428fe92bf70e97488bd80+21857/ERR1726424_1.fastq/ERR1726424_1.fastq.gz 
+
+fastq2:
+  class: File
+  location: keep:0ea6e3aaa6ead18a2cc4ba67a22939e9+25007/ERR1726424_2.fastq/ERR1726424_2.fastq.gz
+
+clinvarvcf:
+  class: File
+  location: keep:242ba3b9049aee86ab2c72db4f3b2822+223/38/clinvar.vcf.gz
+
+reportfunc:
+  class: File
+  location: ../src/annotation/generatereport.py
+
+headhtml:
+  class: File
+  location: /data-sdd/pgp/arvados-tutorial/src/annotation/head.html
+
+tailhtml:
+  class: File
+  location: /data-sdd/pgp/arvados-tutorial/src/annotation/tail.html
+
+scattercount: '32'
+
+knownsites:
+  class: File
+  location: keep:7c0b13bda857fa15d88c1039182f69d5+8052/Homo_sapiens_assembly38.known_indels.vcf.gz