Ubuntu
python-scientific package

python-scientific needs rebuilding

Bug #1041302 reported by Marcin Dulak
24
This bug affects 3 people
Affects Status Importance Assigned to Milestone
python-scientific (Debian)
Fix Released
Unknown
python-scientific (Ubuntu)
Fix Released
Undecided
Unassigned
Precise
Fix Released
Undecided
Unassigned

Bug Description

Impact:
due to a yet unknown incompatibility with its dependencies several functionalities of python-scientific are broken and give unclear error message.
A rebuild fixes the issues.

TEST CASE:
python -c "import numpy as np; import Scientific.IO.NetCDF as nc; ncf = nc.NetCDFFile('t.nc','w'); ncf.createDimension('dim2', 2); ncf.createDimension('n',2); sym = ncf.createVariable('d','c',('n','dim2')); sym[:] = [' C', ' O']; print sym[:]"

Traceback (most recent call last):
  File "<string>", line 1, in <module>
ValueError: could not convert string to float: C

expected:
[[' ' 'C']
 [' ' 'O']]

TEST CASE:
should not crash:

#!/usr/bin/env python
import numpy
import Scientific.IO.NetCDF as netcdf
handle = netcdf.NetCDFFile("test.nc", "w")
handle.test = numpy.array(1.0)
handle.close()

Regression potential:
Only a rebuild no change to the source.

original report:
1.
Description: Ubuntu 12.04.1 LTS
Release: 12.04

2.
python-scientific:
  Installed: 2.8-2build1
  Candidate: 2.8-2build1
  Version table:
 *** 2.8-2build1 0
        500 http://dk.archive.ubuntu.com/ubuntu/ precise/universe amd64 Packages
        100 /var/lib/dpkg/status

3.
python -c "import numpy as np; import Scientific.IO.NetCDF as nc; ncf = nc.NetCDFFile('t.nc','w'); ncf.createDimension('dim2', 2); ncf.createDimension('n',2); sym = ncf.createVariable('d','c',('n','dim2')); sym[:] = [' C', ' O']; print sym[:]"

Traceback (most recent call last):
  File "<string>", line 1, in <module>
ValueError: could not convert string to float: C

4.
This is probably due to python-scientific being built with an older version of python-numpy (or python?).
After rebuilding python-scientific according to http://www.debian-administration.org/articles/20
and installing the resulting python-netcdf the above one-liner works.

See original description
Revision history for this message
Julian Taylor (jtaylor) wrote :

quantal was rebuilt in the meantime and is not affected

Changed in python-scientific (Ubuntu):
status: New → Fix Released
Changed in python-scientific (Ubuntu Precise):
status: New → Confirmed
Julian Taylor (jtaylor)
description: updated
Revision history for this message
Julian Taylor (jtaylor) wrote :

I have uploaded a no change rebuild to precise-proposed. Please test it when it is accepted.

Bug Watch Updater (bug-watch-updater)
Changed in python-scientific (Debian):
status: Unknown → New
Bug Watch Updater (bug-watch-updater)
Changed in python-scientific (Debian):
status: New → Incomplete
Revision history for this message
Scott Kitterman (kitterman) wrote : Please test proposed package

Hello Marcin, or anyone else affected,

Accepted into precise-proposed. The package will build now and be available in a few hours in the -proposed repository.

Please help us by testing this new package. See https://wiki.ubuntu.com/Testing/EnableProposed for documentation 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 change the bug tag from verification-needed to verification-done. If it does not, change the tag to verification-failed. In either case, details of your testing will help us make a better decision.

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

Changed in python-scientific (Ubuntu Precise):
status: Confirmed → Fix Committed
tags: added: verification-needed
Revision history for this message
Marcin Dulak (marcin-dulak) wrote :

The version from -proposed repository fixes the bug for me:
sudo apt-get install python-scientific/precise-proposed
...
python-scientific is already the newest version.
Selected version '2.8-2ubuntu0.12.04.1' (Ubuntu:12.04/precise-proposed [all]) for 'python-scientific'
...

Stefano Rivera (stefanor)
tags: added: verification-done
removed: verification-needed
Revision history for this message
James Maddison (jamesmadd) wrote :

The proposed package fixes issues I've encountered with python-netcdf (bug #1005571).

Revision history for this message
Adam Conrad (adconrad) wrote : Update Released

The verification of this Stable Release Update has completed successfully and the package has now been released to -updates. Subsequently, the Ubuntu Stable Release Updates Team is being unsubscribed and will not receive messages about this bug report. In the event that you encounter a regression using the package from -updates please report a new bug using ubuntu-bug and tag the bug report regression-update so we can easily find any regresssions.

Revision history for this message
Launchpad Janitor (janitor) wrote :

This bug was fixed in the package python-scientific - 2.8-2ubuntu0.12.04.1

---------------
python-scientific (2.8-2ubuntu0.12.04.1) precise-proposed; urgency=low

  * No change rebuild to fix compatibility issues (LP: #1041302)
 -- Julian Taylor <email address hidden> Fri, 24 Aug 2012 21:13:48 +0200

Changed in python-scientific (Ubuntu Precise):
status: Fix Committed → Fix Released
Bug Watch Updater (bug-watch-updater)
Changed in python-scientific (Debian):
status: Incomplete → Confirmed
Bug Watch Updater (bug-watch-updater)
Changed in python-scientific (Debian):
status: Confirmed → Fix Released
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