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WGLab / UROBORUS

UROBORUS: circular RNA identification from RNA-Seq data
http://uroborus.openbioinformatics.org
MIT License
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Problem with "Locating the seeds in the genome" #8

Open Nilad opened 7 years ago

Nilad commented 7 years ago

When i execute the script, i obtain this error.

[Sat Nov 5 12:32:46 2016] Extending the seeds...........readline() on closed filehandle CHR_L at /home/aurelien/Téléchargements/UROBORUS/bin/UROBORUS.pl line 1335. Use of uninitialized value $Lower_exon in substr at /home/aurelien/Téléchargements/UROBORUS/bin/UROBORUS.pl line 618. readline() on closed filehandle CHR_U at /home/aurelien/Téléchargements/UROBORUS/bin/UROBORUS.pl line 1376. Use of uninitialized value $Uper_exon in reverse at /home/aurelien/Téléchargements/UROBORUS/bin/UROBORUS.pl line 648. readline() on closed filehandle CHR_L at /home/aurelien/Téléchargements/UROBORUS/bin/UROBORUS.pl line 1335. Use of uninitialized value $Lower_exon in substr at /home/aurelien/Téléchargements/UROBORUS/bin/UROBORUS.pl line 557. readline() on closed filehandle CHR_L at /home/aurelien/Téléchargements/UROBORUS/bin/UROBORUS.pl line 1335. ...................and more several lines of the same type.

And in my circRNA_list.txt, i have only the first Chromosome of my fasta file.

xiaofengsong commented 7 years ago

Please use the new viersion of UROBORUS, and try again.

Nilad commented 7 years ago

No, still have the same problem.