[SRU] extractreads fails to run

[Sudip Mukherjee]

[ Impact ]

extractreads fails to run and crashes immediately with the error:

$ extractreads
Traceback (most recent call last):
  File "/usr/bin/extractreads", line 12, in <module>
    from obitools.word._readindex import ReadIndex,minword
  File "src/obitools/word/_readindex.pyx", line 11, in init obitools.word._readindex
ModuleNotFoundError: No module named 'cPickle'

[ Test Plan ]

install obitools.

Execute "extractreads --help"

If the package is not fixed, it will fail with the above error.

With the fixed package, it will print the help menu.

[ Where problems could occur ]

There should not be any regression due to this change. The code modification from "cPickle" to "pickle" was done during Python2 to Python3 migration.
I guess this reference to cPickle was overlooked and missed at that time.

[ Other Info ]

This has been fixed in Debian and has synced with Oracular, so Oracular is now fixed.

[ Original Bug Description ]

extractreads fails to run on Oracular with the following error:

$ extractreads
Traceback (most recent call last):
  File "/usr/bin/extractreads", line 12, in <module>
    from obitools.word._readindex import ReadIndex,minword
  File "src/obitools/word/_readindex.pyx", line 11, in init obitools.word._readindex
ModuleNotFoundError: No module named 'cPickle'

[Sudip Mukherjee (sudipmuk)]

debdiff attached for Oracular.

[Athos Ribeiro (athos-ribeiro)]

Hi Sudip. Thanks for the patch.

This seems to be a leftover from debian/patches/2to3.patch. Do you think we should move this there instead of introducing a new patch here?

[Sudip Mukherjee (sudipmuk)]

This has been fixed in Debian now. So should get synced by tomorrow.

[Sudip Mukherjee (sudipmuk)]

It has synced and tested to confirm that the issue is resolved.