Can´t create NewInsertionSite.tab file - Die at line 2203

[ToPrinz]

Hi,
the job died at line 2203 and I don´t know why. Can you help me with this problem?
Best,
Tony

[jdaron]

Hi Tony,

Could you be a bit more specific about the error you are getting back. Are you launching epiTEome on the dataset present on the test directory or on your own dataset ?

Best,
Josquin

[ToPrinz]

Hi,
on my own datasets.
It tries to create the NewInsertion.tab file but it can not. Everything else went fine.

[ToPrinz]

The error occurs every time and I don´t know what to do.

INFO epiTEome.pl: Cleaning file: /bin/rm /media/daten/tony/epiteome/bismark-SE150/KOSE150Galaxy451_unmapped_reads.fishReads.list /media/daten/tony/epiteome/bismark-SE150/KOSE150Galaxy451_unmapped_reads.matePairedEnd.bam /media/daten/tony/epiteome/bismark-SE150/KOSE150Galaxy451_unmapped_reads.matePairedEnd.bam.bai /media/daten/tony/epiteome/bismark-SE150/KOSE150Galaxy451_unmapped_reads.mateSplitReads.bam /media/daten/tony/epiteome/bismark-SE150/KOSE150Galaxy451_unmapped_reads.mateSplitReads.bam.bai /media/daten/tony/epiteome/bismark-SE150/KOSE150Galaxy451_unmapped_reads.step1.fastq /media/daten/tony/epiteome/bismark-SE150/KOSE150Galaxy451_unmapped_reads.step1.list /media/daten/tony/epiteome/bismark-SE150/KOSE150Galaxy451_unmapped_reads.step1.sr.fastq /media/daten/tony/epiteome/bismark-SE150/KOSE150Galaxy451_unmapped_reads.step2.sort.bam /media/daten/tony/epiteome/bismark-SE150/KOSE150Galaxy451_unmapped_reads.step2.sort.bam.bai
Can't create /media/daten/tony/epiteome/epiTEome//media/daten/tony/epiteome/bismark-SE150/KOSE150Galaxy451_unmapped_reads.newInsertionSite.tab. at ./epiTEome.pl line 2203.

Thanks for your help.

[jdaron]

Thanks for sharing this error message. I have few question, did you successed to run epiTEome on the test files ? From the error message you're getting it seems that you are working on the media folder may be on an external hard drive. Have you try to run epiTEome on your data (or a subset of the unmapped fastq file) in a folder localized on your computer ?

[ToPrinz]

I never tried running your test files. I will try.
I always run it like this.

[ToPrinz]

I tried and it doesn´t work as with my own datasets.

[ToPrinz]

I usd relative path and it works