I just want to use RDP classifier in Galaxy via the python script, assign_taxonomy.py, which was from QIIME in a server. Now the question is that when I ran the python code in Galaxy, there is always a error for rdp classifier:
"assign_taxonomy.py: error: RDP classifier is not installed or not accessible to QIIME. See install instructions here: http://qiime.org/install/install.html#rdp-install"
But I am surely that the variable RDP_JAR_PATH has been verified. Because when I run "
export $RDP_JAR_PATH" in the server, it says that
/galaxy-dist/tools/rdp_classifier_2.5/rdp_classifier-2.5.jar. And if I run the python code in the command line of the server, I will get the right output of rdp classifier and no recorded error.
So what should I do with the Galaxy to make the python code to recognize the variable of RDP_JAR_PATH. Thanks a lot!