<html><body><div style="color:#000; background-color:#fff; font-family:times new roman, new york, times, serif;font-size:12pt"><div id="yiv0341291145"><div><div style="background-color: rgb(255, 255, 255); font-family: 'times new roman', 'new york', times, serif;"><div id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4386" style="color: rgb(0, 0, 0); font-family: 'times new roman', 'new york', times, serif; font-size: 12pt;"><span style="color: rgb(34, 34, 34); font-family: Arial, Helvetica, sans-serif; font-size: 13px;">Hi all,</span></div><div style="color: rgb(34, 34, 34); font-family: Arial, Helvetica, sans-serif; font-size: 13px; margin: 0px; padding: 0px; border: 0px; vertical-align: baseline;" id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4475"><br></div><div style="color: rgb(34, 34, 34); font-family: Arial, Helvetica, sans-serif; font-size: 13px; margin: 0px; padding: 0px; border: 0px; vertical-align: baseline;"
id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4476">I have installed "ij_clustering.jar" that contains KMeansClustering plugin. I am trying to call this plugin from java code as the following:</div><div style="color: rgb(34, 34, 34); font-family: Arial, Helvetica, sans-serif; font-size: 13px; margin: 0px; padding: 0px; border: 0px; vertical-align: baseline;" id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4472"><br></div><div style="color: rgb(34, 34, 34); font-family: Arial, Helvetica, sans-serif; font-size: 13px; margin: 0px; padding: 0px; border: 0px; vertical-align: baseline;" id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4464">IJ.runPlugIn(imp,"KMeansClustering","");<br></div><div style="color: rgb(34, 34, 34); font-family: Arial, Helvetica, sans-serif; font-size: 13px; margin: 0px; padding: 0px; border: 0px; vertical-align: baseline;" id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4465"><br></div><div style="color: rgb(34, 34, 34);
font-family: Arial, Helvetica, sans-serif; font-size: 13px; margin: 0px; padding: 0px; border: 0px; vertical-align: baseline;" id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4466" class="yui_3_13_0_ym1_1_1388681062367_2556">or using </div><div style="color: rgb(34, 34, 34); font-family: Arial, Helvetica, sans-serif; font-size: 13px; margin: 0px; padding: 0px; border: 0px; vertical-align: baseline;" id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4466" class="yui_3_13_0_ym1_1_1388681062367_2556"><br></div><div style="margin: 0px; padding: 0px; border: 0px; vertical-align: baseline;" id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4466" class="yui_3_13_0_ym1_1_1388681062367_2556"><font color="#222222" size="2">IJ.run(imp,"k-means Clustering","number=2 cluster=0.00010000 enable randomization=176");</font></div><div style="margin: 0px; padding: 0px; border: 0px; vertical-align: baseline;" id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4466"
class="yui_3_13_0_ym1_1_1388681062367_2556"><font color="#222222" size="2">to run the installed plugin from imageJ menus.</font></div><div style="color: rgb(34, 34, 34); font-family: Arial, Helvetica, sans-serif; font-size: 13px; margin: 0px; padding: 0px; border: 0px; vertical-align: baseline;" id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4466" class="yui_3_13_0_ym1_1_1388681062367_2556"><br></div><div style="color: rgb(34, 34, 34); font-family: Arial, Helvetica, sans-serif; font-size: 13px; margin: 0px; padding: 0px; border: 0px; vertical-align: baseline;" id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4466">The problem is that the resulted image is not clustered at all (i.e. it remains the same). I think the third parameter (arg) should be set in the first command, but I have no idea how to set it.</div><div style="color: rgb(34, 34, 34); font-family: Arial, Helvetica, sans-serif; font-size: 13px; margin: 0px; padding: 0px; border: 0px;
vertical-align: baseline;" id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4467"><br></div><div style="color: rgb(34, 34, 34); font-family: Arial, Helvetica, sans-serif; font-size: 13px; margin: 0px; padding: 0px; border: 0px; vertical-align: baseline;" id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4467">My point is that how to run installed imageJ plugins in my java code?</div><div style="color: rgb(34, 34, 34); font-family: Arial, Helvetica, sans-serif; font-size: 13px; margin: 0px; padding: 0px; border: 0px; vertical-align: baseline;" id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4467"><br></div><div style="color: rgb(34, 34, 34); font-family: Arial, Helvetica, sans-serif; font-size: 13px; margin: 0px; padding: 0px; border: 0px; vertical-align: baseline;" id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4470"><br></div><div style="color: rgb(34, 34, 34); font-family: Arial, Helvetica, sans-serif; font-size: 13px; margin: 0px; padding: 0px; border:
0px; vertical-align: baseline;" id="yiv0341291145yui_3_13_0_ym1_1_1388680106686_4471">Regards,</div><div style="color: rgb(34, 34, 34); font-family: Arial, Helvetica, sans-serif; font-size: 13px; margin: 0px; padding: 0px; border: 0px; vertical-align: baseline;" id="yiv0341291145yui_3_13_0_ym1_7_1388680106686_11">Safaa</div></div></div></div></div></body></html>