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--- peaksearching [2018/06/28 09:42]
estelle created
+++ peaksearching [2019/02/24 10:01] (current)
estelle
@@ Line 1: / Line 1: @@
 ====== Peak Searching ======
+From the simulated/real data set and the median image, we can now search the diffraction peaks.
+For that, use for example:
+<WRAP center box 90%>
+peaksearch.py -n ../Simulation/simu_50grains -f 0 -l 111 -d ../Simulation/simu_50grainsm20000.edf -t 20
+</WRAP>
+ with :
+          * Simulation: the folder where are the .edf files;
+          * simu_50grains: the common part of the name of the .edf files;
+          * 0: the number of the first .edf file;
+          * 111: the number of the last .edf file;
+          * simu_50grainsm20000.edf: the median image
+          * 20: the value of the treshold you want to fix to filter the peaks (you can ask several filter when you add -t options).
+The command create two files (.flt and .spt) for each filter in the current folder.
+**Be careful** : do not remove the median image (-d ...) if you already did it once (for example in the diamond spots removal for cleaning a real dataset)!! Otherwise, Peaksearch will not find the smaller peaks anymore.
+{{ :seb-1345-peaks.jpg?nolink&400 |}}
+In this image, the Peaksearch (in red) should have found much more peaks than it did, cause some seems really intense. I surely did remove two times the median, once during diamond removal and a second during peakshearching.

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