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Updating yml for formats
[arvados-tutorial.git]
/
WGS-processing
/
yml
/
helper
/
bwamem-gatk-report-wf.yml
diff --git
a/WGS-processing/yml/helper/bwamem-gatk-report-wf.yml
b/WGS-processing/yml/helper/bwamem-gatk-report-wf.yml
index 074d16a2aa0600825499d5047b729a1a4a196afe..5e5be2c355fdd3475dc6d423394a49b5c954c251 100644
(file)
--- a/
WGS-processing/yml/helper/bwamem-gatk-report-wf.yml
+++ b/
WGS-processing/yml/helper/bwamem-gatk-report-wf.yml
@@
-2,18
+2,22
@@
sample: ERR1726424
reference:
class: File
reference:
class: File
+ format: edam:format_1929
location: keep:a3af04432df3d71d22f2fe8be549ba96+5974/hg38.fa
fastq1:
class: File
location: keep:a3af04432df3d71d22f2fe8be549ba96+5974/hg38.fa
fastq1:
class: File
+ format: edam:format_1930
location: keep:c96565a96cd428fe92bf70e97488bd80+21857/ERR1726424_1.fastq/ERR1726424_1.fastq.gz
fastq2:
class: File
location: keep:c96565a96cd428fe92bf70e97488bd80+21857/ERR1726424_1.fastq/ERR1726424_1.fastq.gz
fastq2:
class: File
+ format: edam:format_1930
location: keep:0ea6e3aaa6ead18a2cc4ba67a22939e9+25007/ERR1726424_2.fastq/ERR1726424_2.fastq.gz
clinvarvcf:
class: File
location: keep:0ea6e3aaa6ead18a2cc4ba67a22939e9+25007/ERR1726424_2.fastq/ERR1726424_2.fastq.gz
clinvarvcf:
class: File
+ format: edam:format_3016
location: keep:242ba3b9049aee86ab2c72db4f3b2822+223/38/clinvar.vcf.gz
reportfunc:
location: keep:242ba3b9049aee86ab2c72db4f3b2822+223/38/clinvar.vcf.gz
reportfunc:
@@
-22,14
+26,17
@@
reportfunc:
headhtml:
class: File
headhtml:
class: File
+ format: edam:format_1964
location: /data-sdd/pgp/arvados-tutorial/src/annotation/head.html
tailhtml:
class: File
location: /data-sdd/pgp/arvados-tutorial/src/annotation/head.html
tailhtml:
class: File
+ format: edam:format_1964
location: /data-sdd/pgp/arvados-tutorial/src/annotation/tail.html
scattercount: '32'
knownsites:
class: File
location: /data-sdd/pgp/arvados-tutorial/src/annotation/tail.html
scattercount: '32'
knownsites:
class: File
+ format: edam:format_3016
location: keep:7c0b13bda857fa15d88c1039182f69d5+8052/Homo_sapiens_assembly38.known_indels.vcf.gz
location: keep:7c0b13bda857fa15d88c1039182f69d5+8052/Homo_sapiens_assembly38.known_indels.vcf.gz