Hi, Elmo, Thank you for using our Bio.jl package.
I guess that is because you didn't run `using Bio.Seq` before opening a FASTA file. Types and functions related to biological sequences are defined in the`Bio.Seq` module, not `Bio`. And, you don't have to install neither Colm nor Ragel in order to use Bio.jl. Those tools are required only when you need to write your own Ragel-based parser. The FASTA parser generated from Ragel is already bundled in Bio.jl. On Sunday, January 17, 2016 at 2:46:51 PM UTC+9, St Elmo Wilken wrote: > > Hi, > > I am brand new to the Bio package and wanted to play with it a bit. I have > some transcription data in a FASTA file which I want to read. Based on the > docs I tried: > stream = open("somefile.fasta", FASTA) > but all this generates is > ERROR: UndefVarError: FASTA not defined > Am I doing something wrong? > > Also, do I need to have colm and ragel installed for Bio to work? > > Thanks! >