PATH=$PATH:~/CTK_toolkit/ctk/ and export PATH.
After these, I downloaded the PUM PAR-CLIP dataset and do the filtering using bash.
srun -c 16 --mem-per-cpu=4096M -n 1 -N 1 -p bigmem2 bash fastq_filter.sh
I got error:
srun: job 5751660 queued and waiting for resources
srun: job 5751660 has been allocated resources
Can't locate Common.pm in @INC (you may need to install the Common module) (@INC contains: /software/perl-5.24.1-el7-x86_64/lib/site_perl/5.24.1/x86_64-linux /software/perl-5.24.1-el7-x86_64/lib/site_perl/5.24.1 /software/perl-5.24.1-el7-x86_64/lib/site_perl/5.24.1/x86_64-linux /software/perl-5.24.1-el7-x86_64/lib/site_perl/5.24.1 /software/perl-5.24.1-el7-x86_64/lib/5.24.1/x86_64-linux /software/perl-5.24.1-el7-x86_64/lib/5.24.1 .) at /home/caiqi/CTK_toolkit/ctk/fastq_filter.pl line 10.
I have no idea where is the problem, can anyone help me out at this step?
Thanks,
cAI
BEGIN failed--compilation aborted at /home/caiqi/CTK_toolkit/ctk/fastq_filter.pl line 10.
Can't locate Common.pm in @INC (you may need to install the Common module) (@INC contains: /software/perl-5.24.1-el7-x86_64/lib/site_perl/5.24.1/x86_64-linux /software/perl-5.24.1-el7-x86_64/lib/site_perl/5.24.1 /software/perl-5.24.1-el7-x86_64/lib/site_perl/5.24.1/x86_64-linux /software/perl-5.24.1-el7-x86_64/lib/site_perl/5.24.1 /software/perl-5.24.1-el7-x86_64/lib/5.24.1/x86_64-linux /software/perl-5.24.1-el7-x86_64/lib/5.24.1 .) at /home/caiqi/CTK_toolkit/ctk/fastq_filter.pl line 10.
BEGIN failed--compilation aborted at /home/caiqi/CTK_toolkit/ctk/fastq_filter.pl line 10.