jnarayan81
getting the same message as --help every time
Hello,
I keep getting this message every time I try to run this:
_ _ _ __ _
_ __ __ _ _ __ __ | | | | | / / __ _ | | ____
| ' \ / | '__/ _ | | |/ _ \ |/ / / ` / __| _| /
| |) | (| | | | (| | | | / / /| (| _ \ | / /
| .__/ _,|| _,|||_|_/_,|/_/|v0.1
||
parallelLastz: Run lastz jobs in parallel
Contact: [email protected] for support
parallelLastz 0.1
Usage: /work/GGA_circos/maskedgenome/parallelLastz/parallelLastz.pl --qfile <> --tfile <> --cfile <> --speedup <#>
Options: --qfile|-q query multifasta/fasta file --tfile|-t target genome file --cfile|-c config file --speedup|-s number of core to use --length|-l length below this is ignored --unmask|-u unmask the lowercase in t and q file --wipe|-w wipe out the intermediate files --help|-h brief help message
The command I am using is:
perl /work/GGA_circos/maskedgenome/parallelLastz/parallelLastz.pl -q /work/GGA_circos/maskedgenome/parallelLastz/testDATA/qsample1.fa -t /work/GGA_circos/maskedgenome/parallelLastz/testDATA/tsample.fa -c /work/GGA_circos/maskedgenome/parallelLastz/conf --speedup 36
I am not sure what is wrong.
Any help is greatly appreciated.
Best, Basanta
Hi @bbista Thanks for the update. There appears to be an issue with flags. I will fix it...
Try this:
perl parallelLastz.pl -q testDATA/qsample1.fa -t testDATA/tsample.fa -c conf -s 4 -w -l 10
