This is a test version of Biostars. For the public version, visit https://www.biostars.org.
SSR`s identification and primer designing

i am using GMATA software for SSR`s identification and primer designing, i install the programme as per direction given in the manual but while running the software i an getting error. The software works in both ways command line and user interfacae.

cmmnd :

perl gmata.pl  -r 5 -m 2 -x 6 -s 0 -i  /home/crpgws1/GMATA/FINAL_BPdraftgenome_916_Single_line.fa

Error:

ERROR:
Running statement: 
 -r 5 -m 2 -x 6 -s 0 -i /home/crpgws1/GMATA/FINAL_BPdraftgenome_916_Single_line.fa

File path:
/home/crpgws1
Unable to excute SHELL command
ssr primer gmata

Hello moohit21,

this seems to be just the error message. Please also provide the complete command you use.

fin swimmer

Sir i have edited the commands in my question, pls do check

Is perl running properly? Try running perl --version

Please use the formatting bar (especially the code option) to present your post better. I've done it for you this time.
code_formatting

fin swimmer

Thank you. yes my perl is running properly.

What is your operating system? Linux? Which distro and version?

My operating system is Ubuntu 16.04 LTS

Are you copy / pasting the exact error message? Is seems there is a break inside the file name path:

File path:

/home/crpgws1

Whereas it should be:

/home/crpgws1/GMATA/FINAL_BPdraftgenome_916_Single_line.fa

0 answers

No answers yet.

Log in to answer this question.