science PDB file is not processed correctly after extraction
Affects | Status | Importance | Assigned to | Milestone | |
---|---|---|---|---|---|
file-roller (Ubuntu) |
Fix Released
|
Undecided
|
Georges Khaznadar | ||
jmol (Ubuntu) |
Fix Released
|
Undecided
|
Georges Khaznadar | ||
rasmol (Ubuntu) |
Fix Released
|
Undecided
|
Georges Khaznadar |
Bug Description
The affected archiv will be attached.
When I open the archiv
pdb163d.ent.gz
with file roller, I get the compressed file shown in file-roller GUI,
When I open it within the file-roller GUI with rasmol or jmol all works correct and the protein structure is shown.
So, far so good.
When I extract the compressed file to the filesystem, close file-roller, because it is no longer needed.
When I ttry then to open the file
pdb163d.ent
with rasmol or jmol it is not possible. The file is not anymore a appopriate format for those programs.
Steps to reproduce:
1.Install rasmol and jmol (oneof them may be enough)
2.Donwlaod the file
pdb163d.ent.gz
from here,
3.Extract the file to the filesytem with file-roller
4.Try to open the file with right mouse click - > open with... -> choose rasmol or jmol as your choice
5.See only a black visualisation or in jmol an error message(file not found exception)
ProblemType: Bug
DistroRelease: Ubuntu 12.10
Package: file-roller 3.6.1.1-0ubuntu1.1
ProcVersionSign
Uname: Linux 3.5.0-27-generic x86_64
NonfreeKernelMo
ApportVersion: 2.6.1-0ubuntu10
Architecture: amd64
Date: Sun Mar 24 19:33:18 2013
ExecutablePath: /usr/bin/
InstallationDate: Installed on 2013-01-13 (70 days ago)
InstallationMedia: Ubuntu 12.10 "Quantal Quetzal" - Release amd64 (20121017.5)
MarkForUpload: True
ProcEnviron:
PATH=(custom, no username)
XDG_RUNTIME_
LANG=de_DE.UTF-8
SHELL=/bin/bash
SourcePackage: file-roller
UpgradeStatus: No upgrade log present (probably fresh install)
affects: | file-roller → rasmol (Ubuntu) |
affects: | rasmol → jmol (Ubuntu) |
Changed in file-roller (Ubuntu): | |
assignee: | nobody → Georges Khaznadar (georgesk) |
Changed in jmol (Ubuntu): | |
assignee: | nobody → Georges Khaznadar (georgesk) |
Changed in rasmol (Ubuntu): | |
assignee: | nobody → Georges Khaznadar (georgesk) |
I tried to reproduce this problem in Debian stable, and I cannot reproduce it all.
If I manually gunzip the file and open it with jmol, it displays fine. If I extract it with file-roller and open it in jmol, it displays fine as well.
Are you sure this is not a file-roller issue? Or maybe it is a Ubuntu-specific issue.