diff --git a/rtd_yeastx/sourceTest/bash/incoming/ignore-empty-dir/.gitignore b/rtd_yeastx/sourceTest/bash/incoming/ignore-empty-dir/.gitignore
new file mode 100644
index 0000000000000000000000000000000000000000..e69de29bb2d1d6434b8b29ae775ad8c2e48c5391
diff --git a/rtd_yeastx/sourceTest/bash/incoming/ignore-no-index/file1.mzXML b/rtd_yeastx/sourceTest/bash/incoming/ignore-no-index/file1.mzXML
new file mode 100644
index 0000000000000000000000000000000000000000..5258f34bd9a25ae060afc8b4b5284ff88e807fc9
--- /dev/null
+++ b/rtd_yeastx/sourceTest/bash/incoming/ignore-no-index/file1.mzXML
@@ -0,0 +1,86 @@
+<?xml version="1.0" encoding="ISO-8859-1"?>
+<mzXML xmlns="http://sashimi.sourceforge.net/schema_revision/mzXML_3.0"
+ xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
+ xsi:schemaLocation="http://sashimi.sourceforge.net/schema_revision/mzXML_3.0 http://sashimi.sourceforge.net/schema_revision/mzXML_3.0/mzXML_idx_3.0.xsd" >
+ <msRun scanCount="73606" startTime="PT0.355S" endTime="PT1440.39S" >
+  <parentFile fileName="file://IMSB-US-WS02/Y/Boris/09-02-27praktikum/glc1.RAW" fileType="RAWData" fileSha1="5f6d3e83dfc62fd234f6aad9c2bae318f0fd05f7" />
+  <msInstrument>
+   <msManufacturer category="msManufacturer" value="Thermo Scientific" />
+   <msModel category="msModel" value="TSQ Quantum" />
+   <msIonisation category="msIonisation" value="ESI" />
+   <msMassAnalyzer category="msMassAnalyzer" value="ITMS" />
+   <msDetector category="msDetector" value="unknown" />
+   <software type="acquisition" name="Xcalibur" version="1.5" />
+  </msInstrument>
+  <dataProcessing>
+   <software type="conversion" name="ReAdW" version="4.0.2(build Jul  1 2008 14:23:37)" />
+  </dataProcessing>
+  <scan num="1"
+   msLevel="2"
+   peaksCount="10"
+   polarity="-"
+   scanType="SRM"
+   filterLine="- p ESI SRM ms2 88.050 [88.000-88.100]"
+   retentionTime="PT0.355S"
+   lowMz="88.01"
+   highMz="88.1"
+   basePeakMz="88.04"
+   basePeakIntensity="3.67434"
+   totIonCurrent="31.9056" >
+   <precursorMz precursorIntensity="0" activationMethod="CID" >88.05</precursorMz>
+   <peaks precision="32"
+    byteOrder="network"
+    pairOrder="m/z-int" >QrAFH0A0/HhCsAo+QCzoM0KwD1xAWapiQrAUe0BrKFtCsBmaQFwb0UKwHrlARVUKQrAj10Birq1CsCj2QERSqUKwLhVAQnXvQrAzM0BIVkE=</peaks>
+  </scan>
+  <scan num="2"
+   msLevel="2"
+   peaksCount="10"
+   polarity="-"
+   scanType="SRM"
+   filterLine="- p ESI SRM ms2 91.030 [90.980-91.080]"
+   retentionTime="PT0.369S"
+   lowMz="90.99"
+   highMz="91.08"
+   basePeakMz="90.99"
+   basePeakIntensity="3.72983"
+   totIonCurrent="32.8957" >
+   <precursorMz precursorIntensity="0" activationMethod="CID" >91.03</precursorMz>
+   <peaks precision="32"
+    byteOrder="network"
+    pairOrder="m/z-int" >QrX64UButZpCtgAAQG6SHkK2BR5AZAD4QrYKPUBpvbdCtg9cQFRbbEK2FHtAVdFLQrYZmUAzNxdCth64QDLWCEK2I9dANMWOQrYo9UBJTZA=</peaks>
+  </scan>
+  <scan num="3"
+   msLevel="2"
+   peaksCount="10"
+   polarity="-"
+   scanType="SRM"
+   filterLine="- p ESI SRM ms2 118.100 [99.950-100.050]"
+   retentionTime="PT0.383S"
+   lowMz="99.96"
+   highMz="100.05"
+   basePeakMz="100"
+   basePeakIntensity="3.59829"
+   totIonCurrent="31.9226" >
+   <precursorMz precursorIntensity="0" activationMethod="CID" >118.1</precursorMz>
+   <peaks precision="32"
+    byteOrder="network"
+    pairOrder="m/z-int" >QsfrhUA0gyRCx/CkQEtcnELH9cJAUjHMQsf64UBDfINCyAAAQGZKYkLIBR9AT2vKQsgKPUBMHo5CyA9cQEQSiULIFHtAO3dxQsgZmUBkH34=</peaks>
+  </scan>
+  <scan num="4"
+   msLevel="2"
+   peaksCount="10"
+   polarity="-"
+   scanType="SRM"
+   filterLine="- p ESI SRM ms2 122.000 [103.950-104.050]"
+   retentionTime="PT0.397S"
+   lowMz="103.96"
+   highMz="104.05"
+   basePeakMz="104.01"
+   basePeakIntensity="3.5998"
+   totIonCurrent="29.7796" >
+   <precursorMz precursorIntensity="0" activationMethod="CID" >122</precursorMz>
+   <peaks precision="32"
+    byteOrder="network"
+    pairOrder="m/z-int" >Qs/rhUBKxQpCz/CkQCqSfELP9cJAJkUDQs/64UAj3fdC0AAAQEsP/0LQBR9AZmMQQtAKPUAw1q1C0A9cQFyvNULQFHtARZIwQtAZmUAt3o4=</peaks>
+  </scan>
+</msRun>
\ No newline at end of file