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Got error running get_circ_seq.py. A bug? #1

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bishwaG opened this issue Nov 29, 2019 · 0 comments
Open

Got error running get_circ_seq.py. A bug? #1

bishwaG opened this issue Nov 29, 2019 · 0 comments

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@bishwaG
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bishwaG commented Nov 29, 2019

Hi,

The following command throws error.

cat group1/temp/combLib.genic.exon.bed.seq|get_circ_seq.py > group1/temp/combLib.genic.fa

Error:

Traceback (most recent call last):
  File "../../circRNAFinder/src/get_circ_seq.py", line 19, in <module>
    num = int(ID_list[-1]) + 1
ValueError: invalid literal for int() with base 10: '0(+)'

My group1/temp/combLib.genic.exon.bed.seq file looks like this (first line).

chr10|103281396|103298128|+|8|0(+)	ACAAAACTTGCCAATGGCACTTCCAGTATGATTGTGCCCAAGCAACGGAAACTCTCAGCAAGCTATGAAAAGGAAAAGGAACTGTGTGTCAAATACTTTGAGCAGTGGTCAGAGTCAGATCAAGTGGAATTTGTGGAACATCTTATATCCCAAATGTGTCATTACCAACATGGGCACATAAACTCGTATCTTAAACCTATGTTGCAGAGAGATTTCATAACTGCTCTGCCAG

Is it a bug or am I doing something wrong?

BR,
bishwaG

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