From f766ebcc4ae4ec02f756276ad2aba54026b76ac0 Mon Sep 17 00:00:00 2001
From: Samuel Ortion <samuel@ortion.fr>
Date: Sun, 22 Dec 2024 19:15:58 +0100
Subject: [PATCH] Rust program to generate all gene pairs

---
 rust/pairs/Cargo.toml     |  6 ++++++
 rust/pairs/src/main.rs    | 31 +++++++++++++++++++++++++++++++
 rust/tagfinder/.gitignore | 14 ++++++++++++++
 3 files changed, 51 insertions(+)
 create mode 100644 rust/pairs/Cargo.toml
 create mode 100644 rust/pairs/src/main.rs
 create mode 100644 rust/tagfinder/.gitignore

diff --git a/rust/pairs/Cargo.toml b/rust/pairs/Cargo.toml
new file mode 100644
index 0000000..a74e3d3
--- /dev/null
+++ b/rust/pairs/Cargo.toml
@@ -0,0 +1,6 @@
+[package]
+name = "pairs"
+version = "0.1.0"
+edition = "2021"
+
+[dependencies]
diff --git a/rust/pairs/src/main.rs b/rust/pairs/src/main.rs
new file mode 100644
index 0000000..cc2d4ad
--- /dev/null
+++ b/rust/pairs/src/main.rs
@@ -0,0 +1,31 @@
+
+fn print_gene_pairs(genes: &Vec<String>) {
+    for i in 0..(genes.len()-1) {
+        for j in (i+1)..(genes.len()) {
+            println!("{}\t{}", genes[i], genes[j]);
+        }
+    }
+}
+
+fn main() {
+    let mut family_index: String = "".to_string();
+    let mut family_genes: Vec<String> = Vec::new();
+    for line in std::io::stdin().lines() {
+        let line = line.unwrap();
+        let mut parts = line.split("\t");
+        let gene = parts.next().unwrap().to_string();
+        let family = parts.next().unwrap().to_string();
+        println!("{}", family);
+        if family != family_index {
+            family_index = family;
+            if family_genes.len() > 1 {
+                print_gene_pairs(&family_genes);
+            }                    
+            family_genes.clear();
+        }
+        family_genes.push(gene);
+    }
+    if family_genes.len() > 1 {
+        print_gene_pairs(&family_genes);
+    }
+}
diff --git a/rust/tagfinder/.gitignore b/rust/tagfinder/.gitignore
new file mode 100644
index 0000000..6985cf1
--- /dev/null
+++ b/rust/tagfinder/.gitignore
@@ -0,0 +1,14 @@
+# Generated by Cargo
+# will have compiled files and executables
+debug/
+target/
+
+# Remove Cargo.lock from gitignore if creating an executable, leave it for libraries
+# More information here https://doc.rust-lang.org/cargo/guide/cargo-toml-vs-cargo-lock.html
+Cargo.lock
+
+# These are backup files generated by rustfmt
+**/*.rs.bk
+
+# MSVC Windows builds of rustc generate these, which store debugging information
+*.pdb