I'm running Cuffdiff v2.1.1 and am running into problems:
My script is:
The job refuses to run, with the error messages:
I've run the exact same pipeline before with no problems - does anyone know what's causing this?
My script is:
Code:
cuffdiff -p 12 -o ./diff_out -b /ichec/work/nglif015b/nick/bowtie/bowtie-indexes/Laevis_7/Xl7.fasta -L con,smo /ichec/work/nglif015b/cufflinks/Laevis7/six1.mo/merged_asm/merged.gtf /ichec/work/nglif015b/nick/tophat_out/control/rep1/control.1.bam,/ichec/work/nglif015b/nick/tophat_out/control/rep2/control.2.bam /ichec/work/nglif015b/nick/tophat_out/six1.mo/rep1/six1.mo.1.bam,/ichec/work/nglif015b/nick/tophat_out/six1.mo/rep2/six1.mo.2.bam
The job refuses to run, with the error messages:
Code:
cuffdiff: /lib64/libz.so.1: no version information available (required by cuffdiff) cuffdiff v2.1.1 (4046M) /var/spool/torque/mom_priv/jobs/1417075.stokes-svcs.ice.ichec.ie.SC: line 21: /ichec/work/nglif015b/cufflinks/Laevis7/six1.mo/merged_asm/merged.gtf: Permission denied /var/spool/torque/mom_priv/jobs/1417075.stokes-svcs.ice.ichec.ie.SC: line 23: /ichec/work/nglif015b/nick/tophat_out/control/rep1/control.1.bam,/ichec/work/nglif015b/nick/tophat_out/ control/rep2/control.2.bam: No such file or directory
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