find_circ - test data error

Question

[harry]

I use this command -------

/home/aclab/find_circ/unmapped2anchors.py /home/aclab/CircRNA/find_circ/unmapped/unmapped.bam | gzip >/home/aclab/CircRNA/find_circ/unmapped/anchors_unmapped.fastq.gz
I got this error-------
 File "/home/aclab/find_circ/unmapped2anchors.py", line 173
    print "@%s_A__%s" % (read.qname,seq)
                    ^
SyntaxError: invalid syntax

help me how to solve this problem

[harry]

plz tell anyone about this as soon as possible. thanks

[Sej Modha]

Please read: Brief Reminder On How To Ask A Good Question and How To Ask Good Questions On Technical And Scientific Forums

Answer 1

[ATpoint]

Do you have python2.7 running as default or python3? This tools need python2.7, see manual.

[harry]

I convert it into 2.7 version but still same error occur. now i have 2.7.15+

[ATpoint]

I just checked on my machine. Using py3 it exactly produces that error while with py2 it doesn't. You have to remove the header line and put the your py2 executable like:

#!/path/to/your/py27/executable/python

[harry]

I can convert default setting by alias python=python2.7 is it correct or not ,if not then you plz tell me how can i convert the python 3.7 to python2.7 version.

[harry]

If you have find_circ/unmapped2anchors.py script then please send me, if u change anything in that script. thanks

[ATpoint]

Install python2. Please google for that. You can use anaconda to get an environment with python2.7