Hi Gauthier,
I noticed that when R_HOME is not set, MZmine reports a meaningless error:
[cid:7EC9BC5A-442B-44FF-AB0B-82C3597A2200@oist.jp]
because a NullPointerException is thrown in RUtilities.java:
java.lang.NullPointerException
at java.io.File.<init>(File.java:277)
at net.sf.mzmine.util.RUtilities.getREngine(RUtilities.java:67)
at
net.sf.mzmine.modules.rawdatamethods.filtering.baselinecorrection.RSession.getRengineInstance(RSession.java:84)
at
net.sf.mzmine.modules.rawdatamethods.filtering.baselinecorrection.RSession.open(RSession.java:204)
at
net.sf.mzmine.modules.rawdatamethods.filtering.baselinecorrection.BaselineCorrectionTask.run(BaselineCorrectionTask.java:124)
at net.sf.mzmine.taskcontrol.impl.WorkerThread.run(WorkerThread.java:61)
Conclusion: you should not assume that System.getenv().get("R_HOME") or other
getenv() calls return a non-null value.
Best regards,
Tomas
===============================================
Tomas Pluskal
G0 Cell Unit, Okinawa Institute of Science and Technology Graduate University
1919-1 Tancha, Onna-son, Okinawa 904-0495, Japan
WWW: https://groups.oist.jp/g0
TEL: +81-98-966-8684
Fax: +81-98-966-2890
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