From 287d599e823390e6e1f22b21f179f326746a2dc8 Mon Sep 17 00:00:00 2001 From: Fizzizist Date: Sat, 22 Feb 2025 16:29:08 -0500 Subject: [PATCH] Set up repo for Rust problems --- .gitignore | 2 + python/REVP.py | 50 -------- rust/Cargo.lock | 244 +++++++++++++++++++++++++++++++++++++ rust/Cargo.toml | 7 ++ rust/src/main.rs | 32 +++++ rust/src/solutions/mod.rs | 2 + rust/src/solutions/revp.rs | 3 + rust/src/utils.rs | 20 +++ 8 files changed, 310 insertions(+), 50 deletions(-) delete mode 100644 python/REVP.py create mode 100644 rust/Cargo.lock create mode 100644 rust/Cargo.toml create mode 100644 rust/src/main.rs create mode 100644 rust/src/solutions/mod.rs create mode 100644 rust/src/solutions/revp.rs create mode 100644 rust/src/utils.rs diff --git a/.gitignore b/.gitignore index da96889..2f06e0f 100644 --- a/.gitignore +++ b/.gitignore @@ -1,2 +1,4 @@ .venv *.txt +rust/*.txt +rust/target/* diff --git a/python/REVP.py b/python/REVP.py deleted file mode 100644 index 31ce764..0000000 --- a/python/REVP.py +++ /dev/null @@ -1,50 +0,0 @@ -#!/usr/bin/python - -#Solution to REVP Rosalind problem - Locating Restriction Sites -#Author: Peter Vlasveld - -#read in file and get contents -f1 = open("rosalind_revp.txt") -content = f1.readlines() -f1.close() - -#get DNA string from content -DNAStr = "" -for i in xrange(1,len(content)): - DNAStr += content[i].strip() - -#function to return the DNA compliment -def DNACompliment(stri): - rev = stri[::-1] - revList = list(rev) - for i in xrange(0, len(revList)): - if revList[i] == "A": - revList[i] = "T" - elif revList[i] == "T": - revList[i] = "A" - elif revList[i] == "G": - revList[i] = "C" - elif revList[i] == "C": - revList[i] = "G" - revCompStr = "".join(revList) - return revCompStr - -#loop through DNA string -indexes = [] -lengths = [] -for j in xrange(0, len(DNAStr)-3): - #evaluating 4 to 12 character sets, taking the reverse compliment and comparing, - #if a match is found record the index and length and then break - for k in xrange(4, 13): - comp = DNACompliment(DNAStr[j:j+k]) - if comp == DNAStr[j:j+k]: - indexes.extend([j+1]) - lengths.extend([k]) - print(DNAStr[j:j+k]) - break - -#output results to a file -f2 = open("output.txt","w") -for i in xrange(0,len(indexes)): - f2.write(str(indexes[i]) + " " + str(lengths[i]) + "\n") -f2.close() \ No newline at end of file diff --git a/rust/Cargo.lock b/rust/Cargo.lock new file mode 100644 index 0000000..de14cce --- /dev/null +++ b/rust/Cargo.lock @@ -0,0 +1,244 @@ +# This file is automatically @generated by Cargo. +# It is not intended for manual editing. +version = 4 + +[[package]] +name = "anstream" +version = "0.6.18" +source = "registry+https://github.com/rust-lang/crates.io-index" +checksum = "8acc5369981196006228e28809f761875c0327210a891e941f4c683b3a99529b" +dependencies = [ + "anstyle", + "anstyle-parse", + "anstyle-query", + "anstyle-wincon", + "colorchoice", + "is_terminal_polyfill", + "utf8parse", +] + +[[package]] +name = "anstyle" +version = 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+mod utils; +use clap::Parser; +use utils::run_solution; + +#[derive(clap::ValueEnum, Clone, Debug)] +enum Problem { + REVP, +} + +#[derive(Parser, Debug)] +#[command( + name = "Rosalind Problems", + version = "v0.0.0", + author = "Peter Vlasveld ", + about = "Solves Problems from rosalind.info" +)] +struct Args { + #[arg(short, long)] + problem: Problem, + + #[arg(short, long)] + input_file: String, + + #[arg(short, long, default_value = "output.txt")] + output_file: String, +} + +fn main() { + let args = Args::parse(); + run_solution(args.problem, &args.input_file, &args.output_file); +} diff --git a/rust/src/solutions/mod.rs b/rust/src/solutions/mod.rs new file mode 100644 index 0000000..40a9382 --- /dev/null +++ b/rust/src/solutions/mod.rs @@ -0,0 +1,2 @@ +mod revp; +pub use revp::revp; diff --git a/rust/src/solutions/revp.rs b/rust/src/solutions/revp.rs new file mode 100644 index 0000000..0db09a0 --- /dev/null +++ b/rust/src/solutions/revp.rs @@ -0,0 +1,3 @@ +pub fn revp(file_content: String) -> String { + "placeholder".to_string() +} diff --git a/rust/src/utils.rs b/rust/src/utils.rs new file mode 100644 index 0000000..c45d7d1 --- /dev/null +++ b/rust/src/utils.rs @@ -0,0 +1,20 @@ +use crate::{solutions, Problem}; +use std::{fs, io}; + +pub fn run_solution(problem: Problem, in_file: &String, out_file: &String) { + // parse the input file into a string + let solution: io::Result = match fs::read_to_string(in_file) { + Ok(content) => match problem { + Problem::REVP => Ok(solutions::revp(content)), + }, + Err(e) => Err(e), + }; + + match solution { + Ok(out_content) => match fs::write(out_file, &out_content) { + Ok(_) => println!("{:?}", out_content), + Err(e) => println!("Error writing to output file: {e}"), + }, + Err(e) => println!("An error occured reading the input file: {e}"), + }; +}