change "download" links to buttons

public/TinyCap/src/main/scala/nl/lumc/sasc/biopet/pipelines/tinycap/TinyCap.scala

 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

 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

@@ -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

@@ -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

@@ -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

@@ -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

@@ -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