Merge branch 'master' of mus.cacr.caltech.edu:htsworkflow

[htsworkflow.git] / htsworkflow / pipelines / test / testdata / demultiplexed_bustard_1.12.4.2.xml

diff --git a/htsworkflow/pipelines/test/testdata/demultiplexed_bustard_1.12.4.2.xml b/htsworkflow/pipelines/test/testdata/demultiplexed_bustard_1.12.4.2.xml
new file mode 100644 (file)
index 0000000..ea6a596
--- /dev/null
+++ b/htsworkflow/pipelines/test/testdata/demultiplexed_bustard_1.12.4.2.xml
@@ -0,0 +1,503 @@
+<?xml version="1.0"?>
+<BaseCallAnalysis xmlns:xsd="http://www.w3.org/2001/XMLSchema" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
+  <Run Name="BaseCalls">
+    <BaseCallParameters>
+      <ChastityThreshold>0.6</ChastityThreshold>
+      <Matrix Path="">
+        <AutoFlag>2</AutoFlag>
+        <AutoLane>0</AutoLane>
+        <Cycle>1</Cycle>
+        <CycleOffset>0</CycleOffset>
+        <FirstCycle>1</FirstCycle>
+        <LastCycle>50</LastCycle>
+        <Read>1</Read>
+      </Matrix>
+      <Matrix Path="">
+        <AutoFlag>2</AutoFlag>
+        <AutoLane>0</AutoLane>
+        <Cycle>51</Cycle>
+        <CycleOffset>0</CycleOffset>
+        <FirstCycle>51</FirstCycle>
+        <LastCycle>57</LastCycle>
+        <Read>2</Read>
+      </Matrix>
+      <Phasing Path="">
+        <AutoFlag>2</AutoFlag>
+        <AutoLane>0</AutoLane>
+        <Cycle>2</Cycle>
+        <CycleOffset>1</CycleOffset>
+        <FirstCycle>1</FirstCycle>
+        <LastCycle>50</LastCycle>
+        <PhasingRate>0</PhasingRate>
+        <PrephasingRate>0</PrephasingRate>
+        <Read>1</Read>
+      </Phasing>
+      <Phasing Path="">
+        <AutoFlag>2</AutoFlag>
+        <AutoLane>0</AutoLane>
+        <Cycle>52</Cycle>
+        <CycleOffset>1</CycleOffset>
+        <FirstCycle>51</FirstCycle>
+        <LastCycle>57</LastCycle>
+        <PhasingRate>0</PhasingRate>
+        <PrephasingRate>0</PrephasingRate>
+        <Read>2</Read>
+      </Phasing>
+      <PureBases>0</PureBases>
+      <SmtFilter>failed-chastity</SmtFilter>
+      <SmtRelation>le</SmtRelation>
+      <SmtThreshold>1.0</SmtThreshold>
+    </BaseCallParameters>
+    <Cycles First="1" Last="57" Number="57"/>
+    <RunParameters>
+      <AutoCycleFlag>0</AutoCycleFlag>
+      <Barcode>
+        <Cycle Use="true">51</Cycle>
+        <Cycle Use="true">52</Cycle>
+        <Cycle Use="true">53</Cycle>
+        <Cycle Use="true">54</Cycle>
+        <Cycle Use="true">55</Cycle>
+        <Cycle Use="true">56</Cycle>
+        <Cycle Use="true">57</Cycle>
+      </Barcode>
+      <BasecallFlag>0</BasecallFlag>
+      <Deblocked>0</Deblocked>
+      <DebugFlag>0</DebugFlag>
+      <FirstRunOnlyFlag>0</FirstRunOnlyFlag>
+      <ImagingReads Index="1">
+        <FirstCycle>1</FirstCycle>
+        <LastCycle>50</LastCycle>
+      </ImagingReads>
+      <ImagingReads Index="2">
+        <FirstCycle>51</FirstCycle>
+        <LastCycle>57</LastCycle>
+        <RunFolder>110815_SN787_0101_AD07K6ACXX</RunFolder>
+      </ImagingReads>
+      <Instrument>HWI-ST0787</Instrument>
+      <IterativeMatrixFlag>0</IterativeMatrixFlag>
+      <MakeFlag>0</MakeFlag>
+      <MaxCycle>0</MaxCycle>
+      <MinCycle>0</MinCycle>
+      <QTableVersion>New6</QTableVersion>
+      <RunFlowcellId>D07K6ACXX</RunFlowcellId>
+      <RunFolder>110815_SN787_0101_AD07K6ACXX</RunFolder>
+      <RunFolderDate>110815</RunFolderDate>
+      <RunFolderId>0101</RunFolderId>
+      <Reads Index="1">
+        <FirstCycle>1</FirstCycle>
+        <LastCycle>50</LastCycle>
+      </Reads>
+    </RunParameters>
+    <Software Name="RTA" Version="1.12.4.2"/>
+    <TileSelection>
+      <Lane Index="1">
+        <Sample>s</Sample>
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+      </Lane>
+      <Lane Index="2">
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+      </Lane>
+      <Lane Index="4">
+        <Sample>s</Sample>
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+      </Lane>
+      <Lane Index="5">
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+      </Lane>
+      <Lane Index="6">
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+    </TileSelection>
+  </Run>
+</BaseCallAnalysis>