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c5b4f78)
Arvados-DCO-1.1-Signed-off-by: Sarah Wait Zaranek <swz@curii.com>
no issue #
--- /dev/null
+vcf:
+ class: File
+ location: keep:542f0989c5ee117e20d293ef82311192+114145/hu34D5B9_var-GS000015891-ASM.vcf.gz
+
+clinvarvcf:
+ class: File
+ location: keep:80aadf801bccd1e1d838b07d46d4de63+1712/37/clinvar.vcf.gz
sample: hu297A5D_AE2CH6SK4DG
sample: hu297A5D_AE2CH6SK4DG
reference:
class: File
location: keep:a3af04432df3d71d22f2fe8be549ba96+5974/hg38.fa
reference:
class: File
location: keep:a3af04432df3d71d22f2fe8be549ba96+5974/hg38.fa
- location: ../../bam/hu297A5D_AE2CH6SK4DG-EXT_R1.fastq.gz
+ location: keep:fafa02df612fe883b6d7bdc0bc755afb+612/hu297A5D_AE2CH6SK4DG-EXT_R1.fastq.gz
+
- location: ../../bam/hu297A5D_AE2CH6SK4DG-EXT_R2.fastq.gz
+ location: keep:fafa02df612fe883b6d7bdc0bc755afb+612/hu297A5D_AE2CH6SK4DG-EXT_R2.fastq.gz
--- /dev/null
+sample: hu297A5D_AE2CH6SK4DG
+
+reference:
+ class: File
+ location: keep:a3af04432df3d71d22f2fe8be549ba96+5974/hg38.fa
+
+fastq1:
+ class: File
+ location: keep:06a9452462b67765a81352638a610a5a+198/hu297A5D_AE2CH6SK4DG-EXT_100000_R1.fastq.gz
+
+fastq2:
+ class: File
+ location: keep:06a9452462b67765a81352638a610a5a+198/hu297A5D_AE2CH6SK4DG-EXT_100000_R2.fastq.gz
+
+clinvarvcf:
+ class: File
+ location: keep:80aadf801bccd1e1d838b07d46d4de63+1712/38/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
location: keep:a3af04432df3d71d22f2fe8be549ba96+5974/hg38.fa
fastq1:
class: File
location: keep:a3af04432df3d71d22f2fe8be549ba96+5974/hg38.fa
fastq1:
class: File
- location: ../../bam/hu297A5D_AE2CH6SK4DG-EXT_100000_R1.fastq.gz
+ location: keep:06a9452462b67765a81352638a610a5a+198/hu297A5D_AE2CH6SK4DG-EXT_100000_R1.fastq.gz
- location: ../../bam/hu297A5D_AE2CH6SK4DG-EXT_100000_R2.fastq.gz
+ location: keep:06a9452462b67765a81352638a610a5a+198/hu297A5D_AE2CH6SK4DG-EXT_100000_R2.fastq.gz
--- /dev/null
+reportfunc:
+ class: File
+ location: ../src/annotation/generatereport.py
+sampletxt:
+ class: File
+ location: /data-sdd/pgp/arvados-tutorial/src/annotation/hu34D5B9_var-GS000015891-ASM.txt
+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
--- /dev/null
+gvcf:
+ class: File
+ location: keep:02615a79bbe37b48629db97ab43147ae+1123/hu297A5D_AE2CH6SK4DG.gatk.g.vcf
+
+samplename: hu297A5D_AE2CH6SK4DG
--- /dev/null
+gvcf:
+ class: File
+ location: keep:02615a79bbe37b48629db97ab43147ae+1123/hu297A5D_AE2CH6SK4DG.gatk.g.vcf
+
+samplename: hu297A5D_AE2CH6SK4DG
+
+clinvarvcf:
+ class: File
+ location: keep:80aadf801bccd1e1d838b07d46d4de63+1712/38/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