Skip to content
GitLab
Projects
Groups
Snippets
/
Help
Help
Support
Community forum
Keyboard shortcuts
?
Submit feedback
Contribute to GitLab
Sign in
Toggle navigation
Menu
Open sidebar
SASC
sentinel-legacy
Commits
f5280322
Commit
f5280322
authored
Jun 29, 2015
by
bow
Browse files
Rename ReferenceRecord.name -> ReferenceRecord.refName
parent
6689ded3
Changes
2
Hide whitespace changes
Inline
Side-by-side
src/main/scala/nl/lumc/sasc/sentinel/models/ReferenceRecord.scala
View file @
f5280322
...
...
@@ -27,14 +27,14 @@ import org.bson.types.ObjectId
* @param refId Database IDs.
* @param contigs Record of all contigs / chromosomes in this reference sequence.
* @param combinedMd5 MD5 checksum of the concatenated string of all contig MD5 checksums, sorted alphabetically.
* @param
n
ame Reference sequence name.
* @param
refN
ame Reference sequence name.
* @param creationTimeUtc UTC time when the reference record was created.
*/
case
class
ReferenceRecord
(
@Key
(
"_id"
)
refId
:
ObjectId
,
contigs
:
Seq
[
ReferenceContigRecord
],
combinedMd5
:
String
,
n
ame
:
Option
[
String
]
=
None
,
refN
ame
:
Option
[
String
]
=
None
,
species
:
Option
[
String
]
=
None
,
creationTimeUtc
:
Option
[
Date
]
=
None
)
...
...
src/main/scala/nl/lumc/sasc/sentinel/processors/gentrap/GentrapV04InputProcessor.scala
View file @
f5280322
...
...
@@ -58,7 +58,7 @@ class GentrapV04InputProcessor(protected val mongo: MongodbAccessObject)
combinedMd5
=
calcMd5
(
contigs
.
map
(
_
.
md5
).
sorted
),
contigs
=
contigs
,
species
=
(
refJson
\
"species"
).
extractOpt
[
String
],
n
ame
=
(
refJson
\
"name"
).
extractOpt
[
String
],
refN
ame
=
(
refJson
\
"name"
).
extractOpt
[
String
],
creationTimeUtc
=
Option
(
getUtcTimeNow
))
}
...
...
Write
Preview
Supports
Markdown
0%
Try again
or
attach a new file
.
Cancel
You are about to add
0
people
to the discussion. Proceed with caution.
Finish editing this message first!
Cancel
Please
register
or
sign in
to comment