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biopet.biopet
Commits
957aa6c5
Commit
957aa6c5
authored
Feb 04, 2016
by
Wai Yi Leung
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change "download" links to buttons
parent
bb2dac47
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8 changed files
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15 additions
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14 deletions
+15
-14
public/TinyCap/src/main/resources/nl/lumc/sasc/biopet/pipelines/tinycap/tinycapFront.ssp
...es/nl/lumc/sasc/biopet/pipelines/tinycap/tinycapFront.ssp
+0
-0
public/TinyCap/src/main/scala/nl/lumc/sasc/biopet/pipelines/tinycap/TinyCap.scala
...scala/nl/lumc/sasc/biopet/pipelines/tinycap/TinyCap.scala
+1
-1
public/TinyCap/src/main/scala/nl/lumc/sasc/biopet/pipelines/tinycap/TinyCapReport.scala
...nl/lumc/sasc/biopet/pipelines/tinycap/TinyCapReport.scala
+3
-6
public/bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/alignmentSummary.ssp
...umc/sasc/biopet/pipelines/bammetrics/alignmentSummary.ssp
+1
-1
public/bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/rnaHistogram.ssp
...nl/lumc/sasc/biopet/pipelines/bammetrics/rnaHistogram.ssp
+1
-1
public/bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/wgsHistogram.ssp
...nl/lumc/sasc/biopet/pipelines/bammetrics/wgsHistogram.ssp
+1
-1
public/flexiprep/src/main/resources/nl/lumc/sasc/biopet/pipelines/flexiprep/flexiprepBaseSummary.ssp
.../sasc/biopet/pipelines/flexiprep/flexiprepBaseSummary.ssp
+4
-2
public/flexiprep/src/main/resources/nl/lumc/sasc/biopet/pipelines/flexiprep/flexiprepReadSummary.ssp
.../sasc/biopet/pipelines/flexiprep/flexiprepReadSummary.ssp
+4
-2
No files found.
public/TinyCap/src/main/resources/nl/lumc/sasc/biopet/pip
le
ines/tinycap/tinycapFront.ssp
→
public/TinyCap/src/main/resources/nl/lumc/sasc/biopet/pip
el
ines/tinycap/tinycapFront.ssp
View file @
957aa6c5
File moved
public/TinyCap/src/main/scala/nl/lumc/sasc/biopet/pipelines/tinycap/TinyCap.scala
View file @
957aa6c5
package
nl.lumc.sasc.biopet.pipelines.tinycap
import
nl.lumc.sasc.biopet.core.report.ReportBuilderExtension
import
nl.lumc.sasc.biopet.core.
{
PipelineCommand
,
Reference
}
import
nl.lumc.sasc.biopet.core.
{
PipelineCommand
,
Reference
}
import
nl.lumc.sasc.biopet.extensions.HtseqCount
import
nl.lumc.sasc.biopet.pipelines.mapping.MultisampleMappingTrait
import
nl.lumc.sasc.biopet.utils.config.Configurable
...
...
public/TinyCap/src/main/scala/nl/lumc/sasc/biopet/pipelines/tinycap/TinyCapReport.scala
View file @
957aa6c5
package
nl.lumc.sasc.biopet.pipelines.tinycap
import
nl.lumc.sasc.biopet.core.report.
{
ReportPage
,
ReportSection
,
ReportBuilderExtension
}
import
nl.lumc.sasc.biopet.core.report.
{
ReportPage
,
ReportSection
,
ReportBuilderExtension
}
import
nl.lumc.sasc.biopet.pipelines.mapping.MultisampleMappingReportTrait
import
nl.lumc.sasc.biopet.utils.config.Configurable
/**
* Created by wyleung on 4-2-16.
*/
* Created by wyleung on 4-2-16.
*/
class
TinyCapReport
(
val
root
:
Configurable
)
extends
ReportBuilderExtension
{
def
builder
=
TinyCapReport
...
...
@@ -21,7 +21,6 @@ object TinyCapReport extends MultisampleMappingReportTrait {
override
def
pipelineName
=
"tinycap"
/** Root page for the carp report */
override
def
indexPage
=
{
...
...
@@ -57,6 +56,4 @@ object TinyCapReport extends MultisampleMappingReportTrait {
)
}
}
public/bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/alignmentSummary.ssp
View file @
957aa6c5
...
...
@@ -52,7 +52,7 @@
<button type="button" class="btn btn-info" data-toggle="collapse" data-target="#alignmentSummaryTable">
<i class="glyphicon glyphicon-eye-open"></i> Show table</button>
#end
<
button type="button" class="btn btn-info"><i class="glyphicon glyphicon-cloud-download"> <a href="alignmentSummary.tsv">TSV file</a></i></button
>
<
a href="alignmentSummary.tsv"><button type="button" class="btn btn-info"><i class="glyphicon glyphicon-cloud-download"></i> TSV file</button></a
>
</div>
#end
<div class="panel-body collapse #if (showTable)in#end" id="alignmentSummaryTable">
...
...
public/bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/rnaHistogram.ssp
View file @
957aa6c5
...
...
@@ -47,7 +47,7 @@
#else
<button type="button" class="btn btn-info" data-toggle="collapse" data-target="#rnaTable">Show table</button>
#end
<
i class="glyphicon glyphicon-file"></i> <a href="rna.tsv">tsv file
</a>
<
a href="rna.tsv"><button type="button" class="btn btn-info"><i class="glyphicon glyphicon-cloud-download"></i> TSV file</button>
</a>
</div>
#end
...
...
public/bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/wgsHistogram.ssp
View file @
957aa6c5
...
...
@@ -47,7 +47,7 @@
#else
<button type="button" class="btn btn-info" data-toggle="collapse" data-target="#wgsTable">Show table</button>
#end
<
i class="glyphicon glyphicon-file"></i> <a href="wgs.tsv">tsv file
</a>
<
a href="wgs.tsv"><button type="button" class="btn btn-info"><i class="glyphicon glyphicon-cloud-download"></i> TSV file</button>
</a>
</div>
#end
...
...
public/flexiprep/src/main/resources/nl/lumc/sasc/biopet/pipelines/flexiprep/flexiprepBaseSummary.ssp
View file @
957aa6c5
...
...
@@ -76,8 +76,10 @@
#else
<button type="button" class="btn btn-info" data-toggle="collapse" data-target="#QC_BasesTable">Show table</button>
#end
<i class="glyphicon glyphicon-file"></i> <a href="QC_Bases_R1.tsv">R1 reads stats</a> -
<i class="glyphicon glyphicon-file"></i> <a href="QC_Bases_R2.tsv">R2 reads stats</a>
<a href="QC_Bases_R1.tsv"><button type="button" class="btn btn-info"><i class="glyphicon glyphicon-cloud-download"></i> R1 base stats</button></a>
<a href="QC_Bases_R2.tsv"><button type="button" class="btn btn-info"><i class="glyphicon glyphicon-cloud-download"></i> R2 base stats</button></a>
</div>
#end
...
...
public/flexiprep/src/main/resources/nl/lumc/sasc/biopet/pipelines/flexiprep/flexiprepReadSummary.ssp
View file @
957aa6c5
...
...
@@ -82,8 +82,10 @@
#else
<button type="button" class="btn btn-info" data-toggle="collapse" data-target="#QC_ReadsTable">Show table</button>
#end
<i class="glyphicon glyphicon-file"></i> <a href="QC_Reads_R1.tsv">R1 reads stats</a> -
<i class="glyphicon glyphicon-file"></i> <a href="QC_Reads_R2.tsv">R2 reads stats</a>
<a href="QC_Reads_R1.tsv"><button type="button" class="btn btn-info"><i class="glyphicon glyphicon-cloud-download"></i> R1 reads stats</button></a>
<a href="QC_Reads_R2.tsv"><button type="button" class="btn btn-info"><i class="glyphicon glyphicon-cloud-download"></i> R2 reads stats</button></a>
</div>
#end
...
...
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