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Mirrors
biopet.biopet
Commits
85054669
Commit
85054669
authored
Apr 11, 2017
by
Peter van 't Hof
Browse files
Remove redundent queries
parent
af88febc
Changes
17
Hide whitespace changes
Inline
Side-by-side
bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/bamMetricsFront.ssp
View file @
85054669
#import(nl.lumc.sasc.biopet.utils.summary.
Summary
)
#import(nl.lumc.sasc.biopet.
core.report.ReportPag
e)
<%@ var summary: Summary %>
<%@ var r
ootPath: String
%>
<%@ var sampleId: Option[Int] %>
#import(nl.lumc.sasc.biopet.utils.summary.
db.Schema.Run
)
#import(nl.lumc.sasc.biopet.
utils.summary.db.Schema.Sampl
e)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Library)
<%@ var r
unId: Int
%>
<%@ var sampleId: Option[Int]
= None
%>
<%@ var libId: Option[Int] = None %>
<%@ var run: Run %>
<%@ var allSamples: Seq[Sample] %>
<%@ var allLibraries: Seq[Library] %>
<table class="table">
<tbody>
<tr><th>Pipeline</th><td>
BamMetrics
</td></tr>
<tr><th>Version</th><td>${
summary.getValue("meta", "pipeline_
version
")
}</td></tr>
<tr><th>Last commit hash</th><td>${
summary.getValue("meta", "last_
commit
_h
ash
")
}</td></tr>
<tr><th>Output directory</th><td>${
summary.getValue("meta", "output_dir")
}</td></tr>
<tr><th>Sample
ID
</th><td>${
sampleId
}</td></tr>
#if (libId.isDefined)
<tr><th>Library
ID
</th><td>${
libId
}</td></tr>
#end
<tr><th>Pipeline</th><td>
GearsSingle
</td></tr>
<tr><th>Version</th><td>${
run.
version}</td></tr>
<tr><th>Last commit hash</th><td>${
run.
commit
H
ash}</td></tr>
<tr><th>Output directory</th><td>${
run.outputDir
}</td></tr>
<tr><th>Sample</th><td>${
allSamples.filter(_.id == sampleId.get).headOption.map(_.name)
}</td></tr>
<tr><th>Library</th><td>${
allLibraries.filter(_.id == libId.get).headOption.map(_.name)
}</td></tr>
</tbody>
</table>
<br/>
...
...
carp/src/main/resources/nl/lumc/sasc/biopet/pipelines/carp/carpFront.ssp
View file @
85054669
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb)
#import(scala.concurrent.Await)
#import(scala.concurrent.duration.Duration)
<%@ var summary: SummaryDb %>
<%@ var runId: Int %>
#{
val run = Await.result(summary.getRuns(runId = Some(runId)), Duration.Inf).head
}#
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Run)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Sample)
<%@ var run: Run %>
<%@ var allSamples: List[Sample] %>
<table class="table">
<tbody>
<tr><th>Pipeline</th><td>Carp</td></tr>
<tr><th>Version</th><td>${run.version}</td></tr>
<tr><th>Last commit hash</th><td>${run.commitHash}</td></tr>
<tr><th>Output directory</th><td>${run.outputDir}</td></tr>
<tr><th>Number of samples</th><td>${allSamples.size}</td></tr>
</tbody>
</table>
<br/>
...
...
flexiprep/src/main/resources/nl/lumc/sasc/biopet/pipelines/flexiprep/flexiprepBaseSummary.ssp
View file @
85054669
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Sample)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Library)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb._)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb.Implicts._)
#import(nl.lumc.sasc.biopet.core.report.ReportPage)
...
...
@@ -17,9 +19,11 @@
<%@ var showTable: Boolean = true %>
<%@ var showIntro: Boolean = true %>
<%@ var multisample: Boolean = true %>
<%@ var allSamples: List[Sample] %>
<%@ var allLibraries: List[Library] %>
#{
val samples =
Await.result(summary.getSamples(runId = Some(runId), sampleI
d =
sampleId), Duration.Inf
)
val libraries =
Await.result(summary.getLibraries(runI
d =
Some(runId), sampleId = sampleId), Duration.Inf
)
val samples =
sampleId.map(id => allSamples.filter(_.i
d =
=
id)).getOrElse(allSamples
)
val libraries =
libId.map(id => allLibraries.filter(_.i
d =
=
id)).getOrElse(allLibraries
)
val settings = summary.getSettingsForLibraries(runId, "flexiprep", keyValues = Map(
"skip_trim" -> List("skip_trim"), "skip_clip" -> List("skip_clip"), "paired" -> List("paired")))
settings.count(_._2.getOrElse("skip_trim", None) == Some(true))
...
...
flexiprep/src/main/resources/nl/lumc/sasc/biopet/pipelines/flexiprep/flexiprepFront.ssp
View file @
85054669
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb._)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb.Implicts._)
#import(nl.lumc.sasc.biopet.core.report.ReportPage)
#import(scala.concurrent.Await)
#import(scala.concurrent.duration.Duration)
<%@ var summary: SummaryDb %>
<%@ var rootPath: String %>
<%@ var runId: Int %>
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Run)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Sample)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Library)
<%@ var sampleId: Option[Int] %>
<%@ var libId: Option[Int] %>
#{
val run = Await.result(summary.getRuns(runId = Some(runId)), Duration.Inf).head
}#
<%@ var run: Run %>
<%@ var allSamples: List[Sample] %>
<%@ var allLibraries: List[Library] %>
<table class="table">
<tbody>
<tr><th>Pipeline</th><td>Flexiprep</td></tr>
<tr><th>Version</th><td>${run.version}</td></tr>
<tr><th>Last commit hash</th><td>${run.commitHash}</td></tr>
<tr><th>Output directory</th><td>${run.outputDir}</td></tr>
<tr><th>Sample ID</th><td>${
Await.result(summary.getSampleName(sampleId.get), Duration.Inf
)}</td></tr>
<tr><th>Library ID</th><td>${
Await.result(summary.getLibraryName(libId.get), Duration.Inf
)}</td></tr>
<tr><th>Sample ID</th><td>${
allSamples.filter(_.id == sampleId.get).headOption.map(_.name
)}</td></tr>
<tr><th>Library ID</th><td>${
allLibraries.filter(_.id == libId.get).headOption.map(_.name
)}</td></tr>
</tbody>
</table>
<br/>
...
...
flexiprep/src/main/resources/nl/lumc/sasc/biopet/pipelines/flexiprep/flexiprepReadSummary.ssp
View file @
85054669
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Sample)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Library)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb._)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb.Implicts._)
#import(nl.lumc.sasc.biopet.core.report.ReportPage)
...
...
@@ -16,9 +18,11 @@
<%@ var showTable: Boolean = true %>
<%@ var showIntro: Boolean = true %>
<%@ var multisample: Boolean = true %>
<%@ var allSamples: List[Sample] %>
<%@ var allLibraries: List[Library] %>
#{
val samples =
Await.result(summary.getSamples(runId = Some(runId), sampleI
d =
sampleId), Duration.Inf
)
val libraries =
Await.result(summary.getLibraries(runI
d =
Some(runId), sampleId = sampleId), Duration.Inf
)
val samples =
sampleId.map(id => allSamples.filter(_.i
d =
=
id)).getOrElse(allSamples
)
val libraries =
libId.map(id => allLibraries.filter(_.i
d =
=
id)).getOrElse(allLibraries
)
val settings = summary.getSettingsForLibraries(runId, "flexiprep", keyValues = Map(
"skip_trim" -> List("skip_trim"), "skip_clip" -> List("skip_clip"), "paired" -> List("paired")))
settings.count(_._2.getOrElse("skip_trim", None) == Some(true))
...
...
gears/src/main/resources/nl/lumc/sasc/biopet/pipelines/gears/gearsFront.ssp
View file @
85054669
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb._)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb.Implicts._)
#import(nl.lumc.sasc.biopet.core.report.ReportPage)
#import(scala.concurrent.Await)
#import(scala.concurrent.duration.Duration)
<%@ var summary: SummaryDb %>
<%@ var runId: Int %>
#{
val run = Await.result(summary.getRuns(runId = Some(runId)), Duration.Inf).head
val samples = Await.result(summary.getSamples(Some(runId)), Duration.Inf)
}#
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Run)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Sample)
<%@ var run: Run %>
<%@ var allSamples: List[Sample] %>
<table class="table">
<tbody>
<tr><th>Pipeline</th><td>Gears</td></tr>
<tr><th>Version</th><td>${run.version}</td></tr>
<tr><th>Last commit hash</th><td>${run.commitHash}</td></tr>
<tr><th>Output directory</th><td>${run.outputDir}</td></tr>
<tr><th>Number of samples</th><td>${
s
amples.size}</td></tr>
<tr><th>Number of samples</th><td>${
allS
amples.size}</td></tr>
</tbody>
</table>
<br/>
...
...
gears/src/main/resources/nl/lumc/sasc/biopet/pipelines/gears/gearsSingleFront.ssp
View file @
85054669
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb._)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb.Implicts._)
#import(nl.lumc.sasc.biopet.core.report.ReportPage)
#import(scala.concurrent.Await)
#import(scala.concurrent.duration.Duration)
<%@ var summary: SummaryDb %>
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Run)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Sample)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Library)
<%@ var runId: Int %>
<%@ var sampleId: Option[
String
] = None %>
<%@ var libId: Option[
String
] = None %>
#{
val run = Await.result(summary.getRuns(runId = Some(runId)), Duration.Inf).head
}#
<%@ var sampleId: Option[
Int
] = None %>
<%@ var libId: Option[
Int
] = None %>
<%@ var run: Run %>
<%@ var allSamples: Seq[Sample] %>
<%@ var allLibraries: Seq[Library] %>
<table class="table">
<tbody>
<tr><th>Pipeline</th><td>GearsSingle</td></tr>
<tr><th>Version</th><td>${run.version}</td></tr>
<tr><th>Last commit hash</th><td>${run.commitHash}</td></tr>
<tr><th>Output directory</th><td>${run.outputDir}</td></tr>
#if(sampleId.isDefined)
<tr><th>Sample</th><td>${
sampleId
}</td></tr>
#end
#if(libId.isDefined)
<tr><th>Library</th><td>${
libId
}</td></tr>
#end
<tr><th>Sample</th><td>${
allSamples.filter(_.id == sampleId.get).headOption.map(_.name)
}</td></tr>
<tr><th>Library</th><td>${
allLibraries.filter(_.id == libId.get).headOption.map(_.name)
}</td></tr>
</tbody>
</table>
<br/>
...
...
gears/src/main/resources/nl/lumc/sasc/biopet/pipelines/gears/gearsSunburst.ssp
deleted
100644 → 0
View file @
af88febc
#import(nl.lumc.sasc.biopet.utils.summary.Summary)
#import(nl.lumc.sasc.biopet.utils.ConfigUtils)
#import(java.io.File)
<%@ var summary: Summary %>
<%@ var sampleId: Option[String] = None %>
<%@ var libId: Option[String] = None %>
<%@ var rootPath: String %>
<%@ var showPlot: Boolean = true %>
<%@ var showIntro: Boolean = true %>
#{
val samples = sampleId match {
case Some(sample) => List(sample.toString)
case _ => summary.samples.toList
}
val librariesCount = summary.samples.foldLeft(0)(_ + summary.libraries(_).size)
}#
#if (showIntro)
<div class="row">
<div class="col-md-1"></div>
<div class="col-md-10">
Here we show a sunburst visualisation of the analysis of the metagenome in sample: ${sampleId}
</div>
<div class="col-md-1"></div>
</div>
#end
#if (showPlot)
<div class="row">
<div class="col-md-12">
<h3 id='currentlevel'>Root</h3>
<div>
<span id="selection_name"></span> -
<span id="selection_size"></span> -
<span id="selection_value"></span>
</div>
<form>
<label><input type="radio" name="mode" value="size"> Size</label>
<label><input type="radio" name="mode" value="count" checked> Count</label>
</form>
<div id="sequence"></div>
<div id="datatable"></div>
<div id="svgholder"></div>
</div>
<script src="${rootPath}ext/js/gears.js"></script>
<script type="application/ecmascript">
#{
val rawreport = Map("kraken" -> summary.getValue(sampleId, libId, "gearskraken", "stats", "krakenreport"))
val jsonReport = ConfigUtils.mapToJson(rawreport)
}#
var krakenresult = ${unescape(jsonReport)};
loadGears(krakenresult.kraken.classified);
</script>
</div>
#end
gears/src/main/resources/nl/lumc/sasc/biopet/pipelines/gears/krakenKrona.ssp
View file @
85054669
...
...
@@ -13,7 +13,6 @@
<%@ var centrifugeTag: Option[String] = None %>
<%@ var summaryStatsTag: String = "krakenreport" %>
<%@ var summaryModuleTag: String = "gearskraken" %>
<%
val summaries = if (sampleId.isEmpty) {
summary.getSampleValues(summaryModuleTag, "stats", summaryStatsTag).map(x => x._1 -> x._2.get.asInstanceOf[Map[String, Any]])
...
...
gears/src/main/resources/nl/lumc/sasc/biopet/pipelines/gears/qiimeKrona.ssp
View file @
85054669
...
...
@@ -5,7 +5,6 @@
<%@ var biomFile: File %>
<%@ var args: Map[String, Any] %>
<%@ var outputDir: File %>
<%
val tempFile = File.createTempFile("krona.", ".xml")
tempFile.deleteOnExit()
...
...
@@ -20,5 +19,4 @@
writer.println(output)
writer.close()
%>
<iframe src="kraken_krona.html" style="width:100%;height:80vh;border:none;"></iframe>
gentrap/src/main/resources/nl/lumc/sasc/biopet/pipelines/gentrap/gentrapFront.ssp
View file @
85054669
#import(nl.lumc.sasc.biopet.utils.summary.Summary)
<%@ var summary: Summary %>
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Run)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Sample)
<%@ var run: Run %>
<%@ var allSamples: List[Sample] %>
<table class="table">
<tbody>
<tr><th>Pipeline</th><td>Gentrap</td></tr>
<tr><th>Version</th><td>${summary.getValue("meta", "pipeline_version")}</td></tr>
<tr><th>Last commit hash</th><td>${summary.getValue("meta", "last_commit_hash")}</td></tr>
<tr><th>Output directory</th><td>${summary.getValue("meta", "output_dir")}</td></tr>
<tr><th>Version</th><td>${run.version}</td></tr>
<tr><th>Last commit hash</th><td>${run.commitHash}</td></tr>
<tr><th>Output directory</th><td>${run.outputDir}</td></tr>
<tr><th>Number of samples</th><td>${allSamples.size}</td></tr>
</tbody>
</table>
<br/>
...
...
gentrap/src/main/resources/nl/lumc/sasc/biopet/pipelines/gentrap/measure_plotreport.ssp
View file @
85054669
#import(nl.lumc.sasc.biopet.utils.summary.Summary)
#import(org.apache.commons.io.FileUtils)
#import(java.io.File)
<%@ var summary: Summary %>
<%@ var outputDir: File %>
<%@ var pipelineName: String %>
<%@ var plotPath: Option[Any] %>
...
...
mapping/src/main/resources/nl/lumc/sasc/biopet/pipelines/mapping/mappingFront.ssp
View file @
85054669
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Run)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Sample)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Library)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb._)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb.Implicts._)
#import(nl.lumc.sasc.biopet.core.report.ReportPage)
...
...
@@ -9,8 +12,10 @@
<%@ var runId: Int %>
<%@ var sampleId: Option[Int] %>
<%@ var libId: Option[Int] %>
<%@ var run: Run %>
<%@ var allSamples: Seq[Sample] %>
<%@ var allLibraries: Seq[Library] %>
#{
val run = Await.result(summary.getRuns(runId = Some(runId)), Duration.Inf).head
val settings = summary.getSettingKeys(runId, run.name,
keyValues = Map(
"contigs" -> List("reference", "contigs"),
...
...
@@ -25,8 +30,8 @@
<tr><th>Last commit hash</th><td>${run.commitHash}</td></tr>
<tr><th>Output directory</th><td>${run.outputDir}</td></tr>
<tr><th>Reference</th><td>${settings.get("species")} - ${settings.get("name")}</td></tr>
<tr><th>Sample</th><td>${
Await.result(summary.getSampleName(sampleId.get), Duration.Inf
)}</td></tr>
<tr><th>Library</th><td>${
Await.result(summary.getLibraryName(libId.get), Duration.Inf
)}</td></tr>
<tr><th>Sample</th><td>${
allSamples.filter(_.id == sampleId.get).headOption.map(_.name
)}</td></tr>
<tr><th>Library</th><td>${
allLibraries.filter(_.id == libId.get).headOption.map(_.name
)}</td></tr>
</tbody>
</table>
<br/>
...
...
mapping/src/main/resources/nl/lumc/sasc/biopet/pipelines/mapping/multisampleMappingFront.ssp
View file @
85054669
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Run)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Sample)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb._)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb.Implicts._)
#import(nl.lumc.sasc.biopet.core.report.ReportPage)
...
...
@@ -8,9 +10,10 @@
<%@ var rootPath: String %>
<%@ var pipeline: String %>
<%@ var runId: Int %>
<%@ var run: Run %>
<%@ var allSamples: List[Sample] %>
#{
val run = Await.result(summary.getRuns(runId = Some(runId)), Duration.Inf).head
val samples = Await.result(summary.getSamples(runId = Some(runId)), Duration.Inf)
val samples = allSamples
val settings = summary.getSettingKeys(runId, pipeline,
keyValues = Map(
"contigs" -> List("reference", "contigs"),
...
...
mapping/src/main/scala/nl/lumc/sasc/biopet/pipelines/mapping/MappingReport.scala
View file @
85054669
...
...
@@ -42,9 +42,6 @@ object MappingReport extends ReportBuilder {
override
def
extFiles
=
super
.
extFiles
++
List
(
"js/gears.js"
,
"js/krona-2.0.js"
,
"img/krona/loading.gif"
,
"img/krona/hidden.png"
,
"img/krona/favicon.ico"
)
.
map
(
x
=>
ExtFile
(
"/nl/lumc/sasc/biopet/pipelines/gears/report/ext/"
+
x
,
x
))
def
krakenExecuted
:
Boolean
=
Await
.
result
(
summary
.
getStatsSize
(
runId
,
"gears"
,
"krakenreport"
,
sample
=
sampleId
.
map
(
SampleId
),
library
=
libId
.
map
(
LibraryId
)),
Duration
.
Inf
)
>=
1
/** Root page for single BamMetrcis report */
def
indexPage
:
Future
[
ReportPage
]
=
Future
{
val
mappingSettings
=
summary
.
getSettingKeys
(
runId
,
"mapping"
,
NoModule
,
...
...
@@ -55,11 +52,7 @@ object MappingReport extends ReportBuilder {
Some
(
BammetricsReport
.
bamMetricsPage
(
summary
,
sampleId
,
libId
))
}
else
None
ReportPage
((
if
(
skipFlexiprep
)
Nil
else
List
(
"QC"
->
FlexiprepReport
.
flexiprepPage
))
:::
bamMetricsPage
.
map
(
_
.
subPages
).
getOrElse
(
Nil
)
:::
(
if
(
krakenExecuted
)
List
(
"Gears - Metagenomics"
->
Future
.
successful
(
ReportPage
(
List
(),
List
(
"Sunburst analysis"
->
ReportSection
(
"/nl/lumc/sasc/biopet/pipelines/gears/gearsSunburst.ssp"
)),
Map
())))
else
Nil
),
List
(
bamMetricsPage
.
map
(
_
.
subPages
).
getOrElse
(
Nil
),
List
(
"Report"
->
ReportSection
(
"/nl/lumc/sasc/biopet/pipelines/mapping/mappingFront.ssp"
)
)
:::
bamMetricsPage
.
map
(
_
.
sections
).
getOrElse
(
Nil
),
Map
()
...
...
shiva/src/main/resources/nl/lumc/sasc/biopet/pipelines/shiva/sampleVariants.ssp
View file @
85054669
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Sample)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb._)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb.Implicts._)
#import(nl.lumc.sasc.biopet.core.report.ReportPage)
...
...
@@ -18,10 +19,14 @@
<%@ var target: Option[String] = None %>
<%@ var caller: String = "final" %>
<%@ var runId: Int %>
<%@ var allSamples: List[Sample] %>
#{
val fields = List("Hom", "HomVar", "Het", "HomRef", "NoCall", "Variant", "Total")
val samples = Await.result(summary.getSamples(runId = Some(runId), sampleId = sampleId), Duration.Inf)
val samples = sampleId match {
case Some(id) => allSamples.filter(_.id == id)
case _ => allSamples
}
val vcfstatsKey = target match {
case Some(t) => s"multisample-vcfstats-$caller-$t"
case _ => s"multisample-vcfstats-$caller"
...
...
shiva/src/main/resources/nl/lumc/sasc/biopet/pipelines/shiva/shivaFront.ssp
View file @
85054669
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb)
#import(nl.lumc.sasc.biopet.utils.summary.db.Schema.Run)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb._)
#import(nl.lumc.sasc.biopet.utils.summary.db.SummaryDb.Implicts._)
#import(nl.lumc.sasc.biopet.core.report.ReportPage)
...
...
@@ -6,8 +7,8 @@
#import(scala.concurrent.duration.Duration)
<%@ var summary: SummaryDb %>
<%@ var runId: Int %>
<%@ var run: Run %>
#{
val run = Await.result(summary.getRuns(runId = Some(runId)), Duration.Inf).head
val samples = Await.result(summary.getSamples(Some(runId)), Duration.Inf)
val settings = summary.getSettingKeys(runId, run.name,
keyValues = Map(
...
...
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