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$ modis_GEO.py A2010283180500.L1A_LAC
$ modis_L1B.py A2010283180500.L1A_LAC A2010283180500.GEO
$ getanc.py A2010283180500.L1B_LAC
$ l2gen ifile=A2010283180500.L1B_LAC ofile=A2010283180500.L2_QKM_OC2 geofile=A2010283180500.GEO l2prod="rhos_859 rhos_869" resolution=250 cloud_wave=859 cloud_thresh=0.027 par=A2010283180500.L1B_LAC.anc
cloud_wave=859 is where you are specifying to use the 250m rhos_859 band. l2prod is a list of your choice of products, keeping in mind that the standard OC products such as chlor_a are 1km. You can also tweak the param "cloud_thresh" default threshold if you really wish to be more or less aggressive in the cloud flagging. "cloud_thresh" is the threshold of the rhos band "cloud_wave" at which the CLDICE flag gets triggered.
The attached images show output results of this scene over Lake Ontario, showing band rhos_859, with mask on and with mask off.