INSTALL,v 1.0 2007/12/27 15:51:19

Install Directions

• System requirements




- Tested on all common forms of linux

- perl 5.80 or later version, Spreadsheet module.

- NCBI blast,download from ncbi, ftp://ftp.ncbi.nih.gov/blast

- Phred,Phrap and cross_match, download from http://www.phrap.org/



• Installing



#unpacked OTU_Misess in /usr/local/soft/
[root@soft]$tar zxvf OTU_Misess.tar.gz
[root@soft]$chmod -R 755 OTU_Misess
[root@soft]$export PATH=$PATH:/usr/local/soft/OTU_Misess/bin


• Testing



#In /usr/local/soft/OTU_Misess/test directory, use these commands to test
#the program requirement,phredPhrap and blast program
# need to be correctly set in parameters files
[root@test]$Chromat2FastaA.pl ../lib/Chromat2FastaA.parameter
[root@test]$Fasta2xls.pl ../lib/Fasta2xls.parameter
#or you can use this command to test
[root@test]$OTU_Misess.pl ../lib/ -t A


• Utilizing



#if your project need to assemble reads please set parameters following the
#Chromat2FastaA.parameter file, or you should set Chromat2FastaNA.parameter.
#The Fasta2xls.parameter is used for running Fasta2xls.pl,if you want to
#use OTU_Misess.pl, Project, FastaFileName and Fasta2Lib must be identically
#set ,write 'PATH=$PATH:/usr/local/soft/OTU_Misess/bin' in /etc/profile so
#that all useres can use this program
[user@test]$OTU_Misess.pl ../lib/ -t A