| | 1 | = 2011-05-04 = |
| | 2 | |
| | 3 | == Bioinformatics == |
| | 4 | |
| | 5 | * [wiki:biocluster/Velvet Velvet 安裝紀錄(2009-11-11)] |
| | 6 | * 測試 Velvet 1.1.03 (支援 OpenMP） |
| | 7 | * 系統：Debian Squeeze |
| | 8 | {{{ |
| | 9 | ~$ sudo apt-get update; sudo apt-get upgrade; sudo apt-get dist-upgrade |
| | 10 | ~$ sudo apt-get install build-essential |
| | 11 | ~$ wget http://www.ebi.ac.uk/~zerbino/velvet/velvet_1.1.03.tgz |
| | 12 | ~$ tar zxvf velvet_1.1.03.tgz |
| | 13 | ~$ cd velvet_1.1.03 |
| | 14 | ~/velvet_1.1.03$ cat Makefile | sed "s#^CFLAG.*#CFLAGS = -Wall -pg#" > |
| | 15 | ~/velvet_1.1.03$ mv Makefile.new Makefile |
| | 16 | ~/velvet_1.1.03$ make |
| | 17 | ~/velvet_1.1.03$ ./velveth output 17 -fasta -short data/test_long.fa |
| | 18 | ~/velvet_1.1.03$ du -sh gmon.out |
| | 19 | 56K gmon.out |
| | 20 | ~/velvet_1.1.03$ ./velvetg output/ -exp_cov 3 -min_contig_lgth 100 |
| | 21 | ~/velvet_1.1.03$ du -sh gmon.out |
| | 22 | 152K gmon.out |
| | 23 | }}} |
