[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.

[Timo Aaltonen (tjaalton)]

Hello Sudip, or anyone else affected,

Accepted obitools into noble-proposed. The package will build now and be available at https://launchpad.net/ubuntu/+source/obitools/1.2.13+dfsg-7ubuntu0.1 in a few hours, and then in the -proposed repository.

Please help us by testing this new package. See https://wiki.ubuntu.com/Testing/EnableProposed for documentation on how to enable and use -proposed. Your feedback will aid us getting this update out to other Ubuntu users.

If this package fixes the bug for you, please add a comment to this bug, mentioning the version of the package you tested, what testing has been performed on the package and change the tag from verification-needed-noble to verification-done-noble. If it does not fix the bug for you, please add a comment stating that, and change the tag to verification-failed-noble. In either case, without details of your testing we will not be able to proceed.

Further information regarding the verification process can be found at https://wiki.ubuntu.com/QATeam/PerformingSRUVerification . Thank you in advance for helping!

N.B. The updated package will be released to -updates after the bug(s) fixed by this package have been verified and the package has been in -proposed for a minimum of 7 days.

[Timo Aaltonen (tjaalton)]

An upload of obitools to mantic-proposed has been rejected from the upload queue for the following reason: "mantic will be EOL in six days".

[Timo Aaltonen (tjaalton)]

Hello Sudip, or anyone else affected,

Accepted obitools into jammy-proposed. The package will build now and be available at https://launchpad.net/ubuntu/+source/obitools/1.2.13+dfsg-4ubuntu0.1 in a few hours, and then in the -proposed repository.

Please help us by testing this new package. See https://wiki.ubuntu.com/Testing/EnableProposed for documentation on how to enable and use -proposed. Your feedback will aid us getting this update out to other Ubuntu users.

If this package fixes the bug for you, please add a comment to this bug, mentioning the version of the package you tested, what testing has been performed on the package and change the tag from verification-needed-jammy to verification-done-jammy. If it does not fix the bug for you, please add a comment stating that, and change the tag to verification-failed-jammy. In either case, without details of your testing we will not be able to proceed.

Further information regarding the verification process can be found at https://wiki.ubuntu.com/QATeam/PerformingSRUVerification . Thank you in advance for helping!

N.B. The updated package will be released to -updates after the bug(s) fixed by this package have been verified and the package has been in -proposed for a minimum of 7 days.

[Timo Aaltonen (tjaalton)]

Hello Sudip, or anyone else affected,

Accepted obitools into focal-proposed. The package will build now and be available at https://launchpad.net/ubuntu/+source/obitools/1.2.13+dfsg-3ubuntu0.1 in a few hours, and then in the -proposed repository.

Please help us by testing this new package. See https://wiki.ubuntu.com/Testing/EnableProposed for documentation on how to enable and use -proposed. Your feedback will aid us getting this update out to other Ubuntu users.

If this package fixes the bug for you, please add a comment to this bug, mentioning the version of the package you tested, what testing has been performed on the package and change the tag from verification-needed-focal to verification-done-focal. If it does not fix the bug for you, please add a comment stating that, and change the tag to verification-failed-focal. In either case, without details of your testing we will not be able to proceed.

Further information regarding the verification process can be found at https://wiki.ubuntu.com/QATeam/PerformingSRUVerification . Thank you in advance for helping!

N.B. The updated package will be released to -updates after the bug(s) fixed by this package have been verified and the package has been in -proposed for a minimum of 7 days.