Cutadapt 1.9.1 error

Question

[vishweshwaransridhar]

Hi,

When I try to use cutadapt without installation I get the following error.

[USER@user cutadapt-1.9.1]$ python2.6 ./bin/cutadapt --help

ERROR: A required extension module could not be imported because it is
incompatible with your system. A quick fix is to recompile the extension
modules with the following command:

    /usr/bin/python2.6 setup.py build_ext -i

See the documentation for alternative ways of installing the program.

The original error message follows.

Traceback (most recent call last):
  File "./bin/cutadapt", line 9, in <module>
    from cutadapt.scripts import cutadapt
  File "/user/cutadapt-1.9.1/cutadapt/scripts/cutadapt.py", line 62, in <module>
    check_importability()
  File "/user/cutadapt-1.9.1/cutadapt/__init__.py", line 9, in check_importability
    import cutadapt._align
ImportError: /user/cutadapt-1.9.1/cutadapt/_align.so: undefined symbol: PyFPE_jbuf

I get the same error even after running

[user@user cutadapt-1.9.1]$ python setup.py build_ext -i

After running the above command as mentioned in the manual I get

[user@user cutadapt-1.9.1]$ python setup.py build_ext -i
running build_ext

The python version is 2.6...

Can some one tell me whats going wrong.

Thanks.

Regards
Vishwesh

[Dan D]

Did you try to install it via a package manager (eg pip install --upgrade cutadapt)?