Translates nucleotide sequences to Amino Acid sequences. (RNA and DNA, shifts reading frames and reverses)
Requires multirust and nightly-2016-02-01 (For phf_macros)
Requires Vim.
Currently you must use vim to capture stdout.
binary > results.txt will not work if the file you expect to be generating is greater than 20MB.
To use Vim to capture stdout: 1) Open Vim 2) enter command '! multirust run nightly-2016-02-01 cargo run' Vim will appear to do nothing but wait a few minutes and once your binary has finished executing you will see that vim has your output. The first 5 lines will be cargo output so make sure you trim those if you don't need them.
Included in the repo is test/test-nucleo.FASTA, these are test FASTA encoded sequence data than can be used for your testing purposes. To compile your data find where the file is loaded in fn start_parse() and modify the Path to suit your needs, currently only works on linux.
FASTA encodings must decode to utf-8 compliant format.
Whole thing is fragile and relies on print!("{}"); macros for vim to capture output. This works but it's not nice.
The current strategy is to use vim to capture stdout and then rerun re-use the nom FASTA parser to search for sequences.
Remove warnings by fixing camel_casing and other assorted warnings.
Save file the right way.
Remove the FASTA parser from main.rs and move it to it's own folder/repo.
Complete FASTA spec to include support for ';'.
Add support for Amino Acid Sequence -> Nucleotide sequences.
Make encoding parralel if possible.