Hi Brad
I don't you are using R to execute your R script....
How do you call your R script, ie how does the command tag looks in the
tool definition file?
Also, why do you have a "#!/bin/bash" at the beginning of your R script?
Regards, Hans-Rudolf
On 04/27/2014 09:50 PM, Bradley Belfiore wrote:
I am new to galaxy and while trying to convert an R tool to a Galaxy
usable tool I keep getting:
/Users/bmbelfio/galaxy-dist/tools/pathview/pathview.R: line 1: syntax
error near unexpected token `('
/Users/bmbelfio/galaxy-dist/tools/pathview/pathview.R: line 1:
`args=(commandArgs(TRUE))'
any help as to how to remedy this would be greatly appreciated. The
first couple lines of my .R file are
#
#!/bin/bash
args<-(commandArgs(TRUE))
Thanks,
Brad
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