Running and Verifying Minimap2

Procedure

1. Use PuTTY to log in to the server as the root user.
2. Go to the working directory.

   cd /path/to/MINIMAP2/minimap2-master

3. Execute the test case.

   ./minimap2 -a test/MT-human.fa test/MT-orang.fa > test.sam

   If the following information is displayed, the execution is successful:

   [M::mm_idx_gen::0.002*2.34] collected minimizers
   [M::mm_idx_gen::0.006*2.70] sorted minimizers
   [M::main::0.006*2.69] loaded/built the index for 1 target sequence(s)
   [M::mm_mapopt_update::0.007*2.51] mid_occ = 2
   [M::mm_idx_stat] kmer size: 15; skip: 10; is_hpc: 0; #seq: 1
   [M::mm_idx_stat::0.007*2.40] distinct minimizers: 3111 (100.00% are singletons); average occurrences: 1.000; average spacing: 5.326; total length: 16569
   [M::worker_pipeline::0.032*1.32] mapped 1 sequences
   [M::main] Version: 2.17-r974-dirty
   [M::main] CMD: ./minimap2 -a test/MT-human.fa test/MT-orang.fa
   [M::main] Real time: 0.035 sec; CPU: 0.045 sec; Peak RSS: 0.005 GB