[Debian-med-packaging] Bug#854837: Package dicompyler does not work
Vojtech Kulvait
kulvait at gmail.com
Tue Feb 14 13:18:44 UTC 2017
Whoewer will be solving this issue. Quick fix should be to edit
/usr/share/dicompyler/dicompyler/dicomgui.py such that after the line 46
there will be edit adding these two lines
class DicomImporterDialog(wx.Dialog):
"""Import DICOM RT files and return a dictionary of data."""
def __init__(self):
pre = wx.PreDialog()
# the Create step is done by XRC.
self.PostCreate(pre)
* path = "/tmp" import_location_setting = "Remember Last Used"*
def Init(self, res):
After doing that program seems to be able to read RT data and even seem to
be importing them. However the program is unable to show these data,
without warnings or errors in the console.
Vojtech.
2017-02-12 22:51 GMT+01:00 Andreas Tille <andreas at an3as.eu>:
> tags 854837 help
> severity 854837 grave
> thanks
>
> I can confirm Vojtech's observation that "Open patient" button throws
> this exception. I've tagged this bug "help", raised its severity to
> grave and added upstream developer in CC. As I said there are no
> commits on Github for quite some time and there are several open issues
> which report about disfunctionality. I have some slight hope that
> somebody from the Debian team might pick up this issue since it seems to
> be reproducible. If it turns out that it can not be fixed until the
> next release we will not distribute this package inside the next stable
> release.
>
> Thanks for the bug report and sorry for not beeing more helpful
>
> Andreas.
>
> On Sun, Feb 12, 2017 at 10:30:20PM +0100, Vojtech Kulvait wrote:
> > Hi,
> > the package you provided to me does not work either. It shows main
> > application dialog but when I click on Open patient button it does not
> open
> > dialog but in console there is
> >
> >
> >
> >
> >
> >
> >
> >
> >
> >
> >
> >
> > *ERROR: Unhandled exception: Traceback (most recent call last): File
> > "/usr/share/dicompyler/dicompyler/main.py", line 314, in OnOpenPatient
> > dicomgui.ImportDicom(self) File
> > "/usr/share/dicompyler/dicompyler/dicomgui.py", line 31, in ImportDicom
> > dlgDicomImporter.Init(res) File
> > "/usr/share/dicompyler/dicompyler/dicomgui.py", line 129, in Init
> > self.OnDirectorySearch() File
> > "/usr/share/dicompyler/dicompyler/dicomgui.py", line 188, in
> > OnDirectorySearch args=(self, self.path,
> > self.import_search_subfolders,AttributeError: 'DicomImporterDialog'
> object
> > has no attribute 'path'*
> > Which is the same behavior as when I solved that matplotlib problem by
> > editing that file.
> >
> > I was lucky enough to run windows version today. I was able to view ct
> data
> > and radiotherapy data and doses data. It seems in the package you
> provided
> > to me there is even no button for importing these data and import dialog
> is
> > gray.
> > Vojtech.
> >
> >
> > 2017-02-12 15:46 GMT+01:00 Andreas Tille <tille at debian.org>:
> >
> > > Hi Vojtech,
> > >
> > > please make sure you send your mails to 854837 at bugs.debian.org and not
> > > my private e-mail address. Thanks.
> > >
> > > On Sun, Feb 12, 2017 at 08:50:05AM +0000, Vojtech Kulvait wrote:
> > > > Andreas,
> > > > I am using Debian Jessie and you are using some development version.
> > >
> > > I admit that is true and I assumed that the egg-info files would have
> > > been cleaned up also by previous python helper versions. Sorry for
> > > the confusion.
> > >
> > > > In the
> > > > package http://http.debian.net/debian/pool/main/d/dicompyler/
> > > > dicompyler_0.4.2.orig.tar.gz there is file
> > > > dicompyler/dicompyler-0.4.2.egg-info/requires.txt
> > >
> > > To be clear about this: Inside the .orig.tar.gz tarball you will find
> > > the orginal source as the authors of dicompyler. As I said its
> > > unmaintained and orphaned code which will probably never change.
> > > However, at least in *recent* build tools the egg-info files are
> cleaned
> > > up.
> > >
> > > > in the format I have described with those dependencieds. To
> replicate the
> > > > problem I downloaded live CD with debian Jessie (XFCE).
> > > >
> > > > Using vanilla Debian Live CD:
> > > > apt-get install dicompyler
> > > > dicompyler
> > > > The result is:
> > > >
> > > > *Traceback (most recent call last): File "/usr/bin/dicompyler",
> line 5,
> > > in
> > > > <module> from pkg_resources import load_entry_point File
> > > > "/usr/lib/python2.7/dist-packages/pkg_resources.py", line 2876, in
> > > > <module> working_set = WorkingSet._build_master() File
> > > > "/usr/lib/python2.7/dist-packages/pkg_resources.py", line 451, in
> > > > _build_master return cls._build_from_requirements(__requires__)
> File
> > > > "/usr/lib/python2.7/dist-packages/pkg_resources.py", line 464, in
> > > > _build_from_requirements dists = ws.resolve(reqs, Environment())
> File
> > > > "/usr/lib/python2.7/dist-packages/pkg_resources.py", line 639, in
> > > > resolve raise
> > > > DistributionNotFound(req)pkg_resources.DistributionNotFound:
> > > > matplotlib>=0.99,<=1.3.1*
> > > >
> > > >
> > > > So the problem is that in Jessie is packaged software that does crash
> > > after
> > > > it is launched.
> > >
> > > I admit that's bad. I remember that we did quite some effort to port
> it
> > > to wxpython3.0 and at this time it was running. Most probably some
> past
> > > version bump of matplotlib spoiled this effort and the package was not
> > > tested afterwards again since this is a very rarely used program (it
> has
> > > currently a popularity contest vote of 2 users).
> > >
> > > > Result of reportbug dicompyler:
> > > >
> > > > Subject: dicompyler: Dicompyler crashes after launch even from
> vanilla
> > > > Debian Jessie installation.
> > > > Package: dicompyler
> > > > Version: 0.4.2-2
> > > > Severity: important
> > >
> > > I admit I do not have a Jessie system currently at hand but you might
> > > like to try
> > >
> > > wget http://ftp.debian.org/debian/pool/main/d/dicompyler/
> > > dicompyler_0.4.2-3_all.deb
> > > sudo dpkg -i dicompyler_0.4.2-3_all.deb
> > >
> > > This package will be part of the next stable release Stretch and you
> > > might be lucky that it also works on Jessie (sorry, I do not have any
> > > Jessie system with GUI at hand but it seems it should be at least
> > > installable.)
> > >
> > > Kind regards
> > >
> > > Andreas.
> > >
> > > > -- System Information:
> > > > Debian Release: 8.7
> > > > APT prefers stable
> > > > APT policy: (500, 'stable')
> > > > Architecture: amd64 (x86_64)
> > > >
> > > > Kernel: Linux 3.16.0-4-amd64 (SMP w/4 CPU cores)
> > > > Locale: LANG=en_US.UTF-8, LC_CTYPE=en_US.UTF-8 (charmap=UTF-8)
> > > > Shell: /bin/sh linked to /bin/dash
> > > > Init: systemd (via /run/systemd/system)
> > > >
> > > > Versions of packages dicompyler depends on:
> > > > ii python-dicom 0.9.8-1
> > > > ii python-imaging 2.6.1-2+deb8u3
> > > > ii python-matplotlib 1.4.2-3.1
> > > > ii python-numpy 1:1.8.2-2
> > > > ii python-pil 2.6.1-2+deb8u3
> > > > ii python-tornado 3.2.2-1.1
> > > > ii python-wxgtk3.0 3.0.1.1+dfsg-2
> > > > pn python:any <none>
> > > >
> > > > Vojtech.
> > > >
> > > >
> > > > 2017-02-11 23:31 GMT+00:00 Andreas Tille <tille at debian.org>:
> > > >
> > > > > Hi again,
> > > > >
> > > > > I need to admit we *really* need full system information to deal
> > > > > with your bug report.
> > > > >
> > > > > On Sat, Feb 11, 2017 at 11:09:59PM +0100, Vojtech Kulvait wrote:
> > > > > > Hi,
> > > > > > well in the file
> > > > > > /usr/share/dicompyler/dicompyler-0.4.2.egg-info/requires.txt
> > > > > > matplotlib>=0.99, <=1.1.0
> > > > > > numpy>=1.2.1
> > > > > > pil>=1.1.7
> > > > > > pydicom>=0.9.5, <0.9.7
> > > > >
> > > > > On my system I get:
> > > > >
> > > > > $ LC_ALL=C apt-cache policy dicompyler
> > > > > dicompyler:
> > > > > Installed: 0.4.2-3
> > > > > Candidate: 0.4.2-3
> > > > > Version table:
> > > > > *** 0.4.2-3 501
> > > > > 501 http://httpredir.debian.org/debian testing/main amd64
> > > Packages
> > > > > 50 http://httpredir.debian.org/debian unstable/main amd64
> > > > > Packages
> > > > > 100 /var/lib/dpkg/status
> > > > >
> > > > > $ cat /usr/share/dicompyler/dicompyler-0.4.2.egg-info/requires.txt
> > > > > $
> > > > >
> > > > > So the file you wrote above is in the Debian package empty (=has
> zero
> > > > > bytes). I'm afraid you are using something else than the Debian
> > > > > packaged version. I can confirm that the original tarball
> contains the
> > > > > data you fixed but you most probably are lacking all the patches
> that
> > > > > are contained in the Debian package.
> > > > >
> > > > > > i had to edit it to be
> > > > > > matplotlib>=0.99, <=1.3.1
> > > > >
> > > > > That's definitely not needed.
> > > > >
> > > > > > because otherwise python warns that the version of matplotlib is
> too
> > > new
> > > > > > and can not run dicompyler
> > > > > >
> > > > > > after this bugfix however dicompiler itself draw its widget but
> you
> > > can
> > > > > not
> > > > > > import data or even open some dialogs, file import is grey. So
> the
> > > > > program
> > > > > > is useless.
> > > > >
> > > > > Whatever you have installed might be useless since upstream seems
> to
> > > > > have orphaned this code and Debian is covering lots of patches to
> fix
> > > > > it. If you really install the Debian package you can report bugs
> about
> > > > > the package but I have not idea how to fix your manual
> installation.
> > > > >
> > > > > > I have to download windows version and then work on it.
> > > > >
> > > > > Alternatively remove your installation and try
> > > > >
> > > > > apt-get install dicompyler
> > > > >
> > > > > If you confirm you did so and there might be any remaining problems
> > > feel
> > > > > free to report these here. If not I probably need to close this
> bug
> > > > > report since it does not concern the Debian package but something
> else
> > > > > we do not control.
> > > > >
> > > > > Hope this helps
> > > > >
> > > > > Andreas.
> > > > >
> > > > > --
> > > > > http://fam-tille.de
> > > > >
> > >
> > > --
> > > http://fam-tille.de
> > >
>
> > _______________________________________________
> > Debian-med-packaging mailing list
> > Debian-med-packaging at lists.alioth.debian.org
> > http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/
> debian-med-packaging
>
>
> --
> http://fam-tille.de
>
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