Adyar-RS

Approximate Common Substring

Dependencies

• Rust compiler version >= 1.36. See install instructions here.
• A modern, C++11 ready compiler such as g++ >= v4.7 or clang >= v3.2 or MSVC >= 14 to compile libdivsufsort.
• The cmake build system (Version >= 2.8.11).
• A 64-bit operating system. Tested in Windows 10 and Linux.

Compiling the code

The program can be compiled as follows:

 cargo build

To create a release build

 cargo build --release

In case of release build, the output executable will be available at target/release/adyar-rs

Running the program

The release version of he program is run one of the following two ways : cargo run --release -- <FASTA_FILE> -o <DIST_MATRIX> -k <K_VALUE>

or

target/release/adyar-rs <FASTA_FILE> -o <DIST_MATRIX> -k <K_VALUE>

Example: target/release/adyar-rs data/input.fa -o input_dist.txt -k 2

Output: Runtime, value of symmetric acs distance