Hi, I'm trying to import MAGE data into R using RMAGEML. I am using R 2.2.1, Java 1.5.0_06 and SJava 0.69 under Linux. I managed to import the MEXP-14 dataset as suggested in the RMAGEML documentation but when I try to import biggest files (E-CAGE-2 for example), the JVM crashs. The problem is that the importMAGEOM function returns a nil pointer. If I use the java sources, I can parse the xml files with no error and I don't have this nil pointer so I don't understand why when I try to do the same under R I have this result. Thanks for your help Vincent -- Vincent Bloch Joint Bioinformatics Laboratory Turku, Finland

Hi Vincent, Which version of RMAGEML are you using. The latest versions (see developmental packages) all work without SJava. When you tried to import E-CAGE-2 did you also put the MAGE-ML document containing the Array design (A-MEXP-10) in the same directory? Best, Steffen Vincent Bloch wrote: >Hi, > >I'm trying to import MAGE data into R using RMAGEML. I am using R 2.2.1, >Java 1.5.0_06 and SJava 0.69 under Linux. >I managed to import the MEXP-14 dataset as suggested in the RMAGEML >documentation but when I try to import biggest files (E-CAGE-2 for >example), the JVM crashs. The problem is that the importMAGEOM function >returns a nil pointer. >If I use the java sources, I can parse the xml files with no error and I >don't have this nil pointer so I don't understand why when I try to do >the same under R I have this result. > >Thanks for your help > >Vincent > > >