I am running STARChip-circles and on ./Step2.sh (and ./Step4.sh when running STAR) I get the following error:
ls: cannot access rawdata/spliced: No such file or directory
paste: rawdata/spliced.grepcircles.temp: No such file or directory
paste: rawdata/*spliced.grepcircles.temp2: No such file or directory
At first it seemed to me that Step2.sh failed to create the spliced.grepcircles.temp files but then I investigated further and discovered that my .fasta file inside of rawdata/ looks like this:
Hi there,
I am running STARChip-circles and on ./Step2.sh (and ./Step4.sh when running STAR) I get the following error: ls: cannot access rawdata/spliced: No such file or directory paste: rawdata/spliced.grepcircles.temp: No such file or directory paste: rawdata/*spliced.grepcircles.temp2: No such file or directory
At first it seemed to me that Step2.sh failed to create the spliced.grepcircles.temp files but then I investigated further and discovered that my .fasta file inside of rawdata/ looks like this:
What could be causing this error? My rawdata/backsplices. file looks totally normal (660 KB file with chromosome and range information).
Thanks, Zach