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YangLab / CIRCexplorer

A combined strategy to identify circular RNAs (circRNAs and ciRNAs) (Zhang et al., Complementary Sequence-Mediated Exon Circularization, Cell (2014), 159:134-147)
http://yanglab.github.io/CIRCexplorer
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Drop after Start to Annotate fusion juncions.. #8

Closed andreirozanski closed 9 years ago

andreirozanski commented 9 years ago

Hello, Im doing some tests with data set. Followed the command lines suggested with tophat. Fetched ref.txt with fetch_ucsc.py And got:

Start CIRCexplorer 1.1.1 Start to convert fustion reads... Converted 102717 fusion reads! Start to annotate fusion junctions... Traceback (most recent call last): File "CIRCexplorer.py", line 494, in annotate_fusion(ref_f, temp1, temp2) File "CIRCexplorer.py", line 67, in annotate_fusion genes, gene_info = parse_ref1(ref_f) # gene annotations File "CIRCexplorer.py", line 206, in parse_ref1 genes[chrom] = Interval(genes[chrom]) File "build/bdist.linux-x86_64/egg/interval.py", line 279, in init TypeError: lower_bound is not hashable.

Is there anything Im doing wrong?

Thanks in advance!

kepbod commented 9 years ago

I think you installed the wrong interval package. Please carefully read the README of CIRCexplorer.

kepbod commented 9 years ago

Please see issue #4