Entering edit mode
8.8 years ago
Muhammad Ilyas
•
0
I have install shrimp 2 in my Linux system by command line that is given in read me file, following command are
$ tar xvzf SHRiMP_2_2_3.lx26.x86_64.tar.gz
$ cd SHRiMP_2_2_3
$ file bin/gmapper
bin/gmapper: ELF 64-bit LSB executable, AMD x86-64, version 1 (SYSV), for
GNU/Linux 2.6.9, statically linked, for GNU/Linux 2.6.9, not stripped
$ export SHRIMP_FOLDER=$PWD
than I start mapping genome with reference using following command
$SHRIMP_2_2_3/bin/gmapper-cs DRR0000_2.fasta \
ciona.fa \
-N 4 -o 5 -h 80% >map.test1.out 2>map.test2.log
I got empty .out
file and map.test2.log
file getting following error
bash: /bin/gmapper-cs: No such file or directory
As I am a beginner and recently used this software kindly provide me some guidance which can help me solve this problem.