Hi Andreas,
In revision 2b42439, I have:
(1) added the test data files to the source bundle manifest
(2) added/extended the LICENSE.rst file to explicitly discuss terms of
the test data files (as well as other files)
(3) added a note to the README.rst to refer to LICENSE.rst
(4) updated/added the boilerplate license/copyright statement in all the
Python files to refer to LICENSE.rst.
Before I tag, push and publish a new release, is it possible to verify
that the current changes are up to spec?
Thanks.
-- jeet
On 7/22/15 9:36 AM, Andreas Tille wrote:
Hi Jeet,
unfortunately I did not received any answer from ftpmaster what to do
next. Since I really want to run the test suite when the package is
built I wonder whether you could include the needed data files right
into the download tarball and add the information you gave below about
the license of these data. This would solve the trouble ftpmaster
seems to see in these "extra data files".
Is this an option you would consider as possible?
Sorry for the long delay but I have no influence on this.
Kind regards
Andreas.
On Sun, Jul 12, 2015 at 08:40:58AM +0200, Andreas Tille wrote:
Hi Jeet,
thanks for the clarification.s
Thorsten, would you accept this clasrification regarding the license of
the code as well as the data in d/copyright?
Kind regards
Andreas.
On Sat, Jul 11, 2015 at 08:45:30AM -0400, Jeet Sukumaran wrote:
(1) The original DendroPy package was released under the GPL license. Later,
at the request of some folks who wanted to use the code under a less
restrictive license, we re-licensed it under BSD. The GPL boilerplate
remains in some files. But this is an artifact/detritus. I agree this is
confusing, and should be cleaned up. Will do so, but may not be able to get
to it before next week.
(2) The test data files have all been (a) sourced from public domain data,
(b) obtained as part of example data bundled with other applications, and
typically having been used in published analyses (c) generated using
analysis programs from public domain data.
In the case of (a), the data is from GenBank, and thus in public domain.
Where possible, we have maintained citation information for the original
authors/work that generated the data.
In the case of (b), the original data is also available from the public
domain. Where possible, we have maintained citation information for the
original authors/work that generated the data.
In the case of (c), no program we have used places any restriction on their
output. We maintain the generated text ("File generated by DnaSp ... etc")
to track provenance.
So, in all cases that I am aware of, the test data is public domain. We do
not have any verbage to explicitly state this. Will adding such verbage be
sufficient? I think this is a much simpler solution that splitting the test
data files.
On 7/11/15 7:50 AM, Andreas Tille wrote:
Hi Jeet,
since we had quite productive discussion about DendroPy I think we could
sort out the things quite quickly. As you can see below the Debian
ftpmaster found some files with license statements deriving from the
main BSD-3-clause. Before I mention these explicitly (which would be a
valid solution for the mentioned concerns) I wonder whether these
differences might be simply by accidence and you would rather intend to
change the license at your side.
Regarding the tests I have another suggestion. When I did the upload
that was rejected I introduced a data set I obtained via the following
script:
#!/bin/sh -e
TAR=DendroPy-test-data.tar.xz
rm -rf DendroPy ${TAR}
git clone https://github.com/pranjalv123/DendroPy.git
cd DendroPy
tar --owner=root --group=root --mode=a+rX -caf ../${TAR} dendropy/test/data
cd ..
rm -rf DendroPy
This was needed to run the unit tests which is usually a part of the
Debian package build process. For the moment I droped this data set and
switched of the test. I would like to suggest to provide a workaround
for the case that the test data are missing. Some kind of printing
===================================================================
The unit tests can not be run without the test data tat are missing
cuurently. If you want to obtain these data you could use the
following code:
< script above or something like that >
===================================================================
IMHO this would be an advantage for all DendroPy users in general.
In any case it would make sense to drop some explicit LICENSE file
in the testdata directories to clarify the additional concern of
Debian ftpmaster in case we might decide to add these data at some
later point of time.
Kind regards
Andreas.
On Fri, Jul 10, 2015 at 10:00:15PM +0000, Thorsten Alteholz wrote:
Hi Andreas,
dendropy/test/__main__.py says something about a GPL-3+ license.
applications/sumtrees/sumtrees.py doesn't know what it is, but maybe also
GPL-3+.
dendropy/utility/container.py wants to be partly licensed under Apache-2.
8MB testdata (with comments like: "File generated by DnaSP Ver. 4.00.3, from file:
COII_Apes.nex")
and with no license information do not belong into the debian-directory ..
Thorsten
===
Please feel free to respond to this email if you don't understand why
your files were rejected, or if you upload new files which address our
concerns.
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