The file was created on Windows and the lines end in CR/LF, the ? represents the CR.
There is a tool dos2unix (or use an `sed` command) to remove these characters from the script file. -- Reuti Am 23.05.2013 um 11:14 schrieb Inbar Plaschke: > attached > > -----Original Message----- > From: Reuti [mailto:[email protected]] > Sent: Thursday, May 23, 2013 12:11 PM > To: Semi > Cc: [email protected]; ענבר פלשקס > Subject: Re: [gridengine users] problem with output format of scripts run by > the queue > > Am 23.05.2013 um 09:31 schrieb Semi: > >> Any idea? >> >> From: Inbar >> Sent: Thursday, May 23, 2013 9:58 AM >> >> Recently I have encountered a problem with output format of scripts >> run by the queue The output files are generated with a ? at the end of >> their names >> >> For instance, submitting the attached csh script using the command : > > There is no script attached. > > -- Reuti > > >> qsub -cwd -q bioinfo.q >> /fastspace/bioinfo_projects/Rivki_Ofir/08.HT_seq/htseq_count.csh >> >> yielded the output with the following name: >> >> htseq_out_T1.txt? >> >> am I doing something wrong? >> >> This is not the only script that it happened with , how can I fix that >> problem? >> >> Best regards >> >> Inbar >> >> >> >> >> >> _______________________________________________ >> users mailing list >> [email protected] >> https://gridengine.org/mailman/listinfo/users > > <htseq_count.csh> _______________________________________________ users mailing list [email protected] https://gridengine.org/mailman/listinfo/users
