diff --git a/deep_sequencing_unit/source/bash/create_srfs.sh b/deep_sequencing_unit/source/bash/create_srfs.sh
index eb0e64b0f745c55375327768308bb33c92b6b2f9..8a8c2ccc401d7d949c0c5bdff4a65986813daa3d 100644
--- a/deep_sequencing_unit/source/bash/create_srfs.sh
+++ b/deep_sequencing_unit/source/bash/create_srfs.sh
@@ -2,25 +2,29 @@
 # Processing steps needed from the Illumina Output to the SRF files
 
 
-export RUN_BASE=/array0/Runs
+export RUN_BASE=/net/bs-dsu-data/array0/dsu/processing
 export LATEST_FOLDER=`ls -1tr $RUN_BASE | tail -1`
 export INTENSITY_FOLDER=Data/Intensities
 export BUSTARD=/usr/local/dsu/GAPipeline/bin/bustard.py
 export CONFIG_FILE=$RUN_BASE/$LATEST_FOLDER/$INTENSITY_FOLDER/config.txt
 export CIF2TXT=/usr/local/dsu/bin/cif2txt.sh
 export LANES2SRF=/usr/local/dsu/bin/lanes2srf_RTA
-export NUMBER_OF_LANES=8
-export NUMBER_OF_TILES=120
+export NUMBER_OF_LANES=`cat $RUN_BASE/$LATEST_FOLDER/$INTENSITY_FOLDER/RTAConfiguration.xml | grep NumberOfLanes | cut -d \> -f2 | cut -d \< -f1`
+export NUMBER_OF_TILES=`cat $RUN_BASE/$LATEST_FOLDER/$INTENSITY_FOLDER/RTAConfiguration.xml | grep TilesPerLane | cut -d \> -f2 | cut -d \< -f1`
 export NUMBER_OF_CYCLES=`ls -1tr $RUN_BASE/$LATEST_FOLDER/$INTENSITY_FOLDER/L00$NUMBER_OF_LANES/ | tail -1 | cut -d . -f1 | cut -d C -f2`
+export MAILX=/bin/mailx
+export MAIL_LIST="manuel.kohler@bsse.ethz.ch"
+export RM=/bin/rm
+export MAKE=/usr/bin/make
 
 export PRG=`basename $0`
-export USAGE="Usage: ${PRG} <Path_to_Run_Base> <Number_of_Lanes> \n\nEXAMPLE: ${PRG} /array0/Runs/ 8" 
+export USAGE="Usage: ${PRG} <Path_to_Run_Base> <Number_of_Lanes> \n\nEXAMPLE: ${PRG} /array0/Runs/ 8"
 
-#if [ -z "${RUN_BASE}"  -o -z "${NUMBER_OF_LANES}" ]
-#then
-#   echo "${USAGE}"
-#   exit 1
-#fi
+if [ -z "${RUN_BASE}"  -o -z "${NUMBER_OF_LANES}" ]
+then
+   echo "${USAGE}"
+   exit 1
+fi
 
 cd $RUN_BASE/$LATEST_FOLDER/$INTENSITY_FOLDER
 
@@ -29,11 +33,24 @@ echo "5:ANALYSIS eland_extended" >> $CONFIG_FILE
 echo "ELAND_MULTIPLE_INSTANCES 8" >> $CONFIG_FILE
 echo "EMAIL_LIST manuel.kohler@bsse.ethz.ch" >> $CONFIG_FILE
 
-$BUSTARD --CIF . --GERALD=$CONFIG_FILE --control-lane=5 --make
+/usr/local/dsu/GAPipeline/bin/GERALD.pl config.txt --FLOW_CELL v4  --EXPT_DIR BaseCalls/ --make
+cd BaseCalls/GERALD*
+make -j 8 all
 
-cd Bustard*
-make recursive -j 15 2>seq_make.err >seq_make.log
+#$BUSTARD --CIF . --GERALD=$CONFIG_FILE --control-lane=5 --make
+
+#cd Bustard*
+#echo "Starting parallel make..."
+
+#make recursive -j 15 2>seq_make.err >seq_make.log
+cd $RUN_BASE/$LATEST_FOLDER/$INTENSITY_FOLDER/BaseCalls
 
 $CIF2TXT $RUN_BASE/$LATEST_FOLDER/$INTENSITY_FOLDER $NUMBER_OF_CYCLES $NUMBER_OF_TILES
 
-$LANES2SRF . $NUMBER_OF_LANES
+$LANES2SRF $RUN_BASE/$LATEST_FOLDER/$INTENSITY_FOLDER/BaseCalls/ $NUMBER_OF_LANES
+#$LANES2SRF /net/bs-dsu-data/array0/dsu/processing/091208_433DAAXX/Data/Intensities/BaseCalls/ 8
+
+# clean up
+#chmod -R 755 $RUN_BASE/$LATEST_FOLDER
+
+echo -e "SRF creation finished for $LATEST_FOLDER :-)" | $MAILX -s "SRF creation finished for $LATEST_FOLDER :-)" $MAIL_LIST
\ No newline at end of file