Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

BSD dual license Bio.Pathway and most of Bio.KEGG #2248

Merged
merged 14 commits into from Nov 4, 2019
Merged

BSD dual license Bio.Pathway and most of Bio.KEGG #2248

merged 14 commits into from Nov 4, 2019

Conversation

peterjc
Copy link
Member

@peterjc peterjc commented Sep 2, 2019

This pull request addresses issue #2243, bar Bio/KEGG/Enzyme/__init__.py

  • I hereby agree to dual licence this and any previous contributions under both
    the Biopython License Agreement AND the BSD 3-Clause License.

  • I have read the CONTRIBUTING.rst file, have run flake8 locally, and
    understand that AppVeyor and TravisCI will be used to confirm the Biopython unit
    tests and style checks pass with these changes.

  • I have added my name to the alphabetical contributors listings in the files
    NEWS.rst and CONTRIB.rst as part of this pull request, am listed
    already, or do not wish to be listed. (This acknowledgement is optional.)

@peterjc
Dual license Bio/KEGG/__init__.py
e001987 
Original author Tarjei Mikkelsen (CVS username tarjei, @tmikkelsen
on GitHub) and the contributors since tracked with version control
have agreed:

 - Brad Chapman (@chapmanb)
   http://mailman.open-bio.org/pipermail/biopython-dev/2013-July/019903.html
 - Brian Osborne (@bosborne)
   biopython#898 (comment)
 - Carlos Pena (@carlosp420)
   biopython#898 (comment)
 - Christian Brueffer (@cbrueffer)
   biopython#898 (comment)
 - Francesco Gastaldello (@Gasta88)
   biopython#1063
 - jchang (@jefftc)
   biopython#898 (comment)
 - Markus Piotrowski (@MarkusPiotrowski)
   biopython#898 (comment)
 - @morrme
   biopython#1172 (comment)
 - Peter Cock (@peterjc)
   biopython#898 (comment)
 - Suresh Panneerselvam (@Amrithasuresh)
   biopython#1575
 - Tarjei Mikkelsen (@tmikkelsen)
   biopython#2243 (comment)
@peterjc
Dual license Bio/KEGG/REST.py
4ea24d5 
Original author Kevin Wu and contributors since as tracked with
version control have agreed:

 - Brian Osborne (@bosborne)
   biopython#898 (comment)
 - Kevin Wu (@kevinwuhoo)
   biopython#898 (comment)
 - @morrme
   biopython#1172 (comment)
 - Peter Cock (@peterjc)
   biopython#898 (comment)
@peterjc
Update Leighton's contact information
d0bdd1f 
The SCRI days are long long gone now.
@peterjc
Dual license Bio/KEGG/Map/__init__.py
b959eef 
Original author Tarjei Mikkelsen (CVS username tarjei, @tmikkelsen
on GitHub) and the contributors since tracked with version control
have agreed:

 - Brad Chapman (@chapmanb)
   http://mailman.open-bio.org/pipermail/biopython-dev/2013-July/019903.html
 - Brian Osborne (@bosborne)
   biopython#898 (comment)
 - Christian Brueffer (@cbrueffer)
   biopython#898 (comment)
 - Markus Piotrowski (@MarkusPiotrowski)
   biopython#898 (comment)
 - Michiel de Hoon (@mdehoon)
   biopython#898 (comment)
 - Peter Cock (@peterjc)
   biopython#898 (comment)
 - Tarjei Mikkelsen (@tmikkelsen)
   biopython#2243 (comment)
@peterjc
Update Tarjei's contact details in CONTRIB.rst
9b8d5ca
@peterjc
Dual license Bio/KEGG/KGML/__init__.py
b12fafa 
Original author Leighton Pritchard and the contributors since as tracked
by version control have agreed:

 - Brian Osborne (@bosborne)
   biopython#898 (comment)
 - Leighton Pritchard (@widdowquinn)
   biopython#898 (comment)
 - @morrme
   biopython#1172 (comment)
 - Peter Cock (@peterjc)
   biopython#898 (comment)
@peterjc
Dual license Bio/KEGG/KGML/KGML_pathway.py
031f28f 
Original author Leighton Pritchard and the contributors since as tracked
by version control have agreed:

 - Adhemar Zerlotini (@azneto)
   biopython#1412 (comment)
 - Carlos Pena (@carlosp420)
   biopython#898 (comment)
 - Christian Brueffer (@cbrueffer)
   biopython#898 (comment)
 - Francesco Gastaldello (@Gasta88)
   biopython#1063
 - Leighton Pritchard (@widdowquinn)
   biopython#898 (comment)
 - @morrme
   biopython#1172 (comment)
 - Nick Negretti (@nimne)
   biopython#1768 (comment)
 - Peter Cock (@peterjc)
   biopython#898 (comment)
 - Travis Wrightsman (@twrightsman)
   biopython#898 (comment)
@peterjc
Dual license Bio/KEGG/KGML/KGML_parser.py
dff41c2 
Original author Leighton Pritchard and the contributors since as tracked
by version control have agreed:

 - Adhemar Zerlotini (@azneto)
   biopython#1412 (comment)
 - Carlos Pena (@carlosp420)
   biopython#898 (comment)
 - Christian Brueffer (@cbrueffer)
   biopython#898 (comment)
 - Leighton Pritchard (@widdowquinn)
   biopython#898 (comment)
 - Peter Cock (@peterjc)
   biopython#898 (comment)
 - Travis Wrightsman (@twrightsman)
   biopython#898 (comment)
 - Vincent Davis (@vincentdavis)
   biopython#898 (comment)
@peterjc
Dual license Bio/KEGG/Gene/__init__.py
366bbe1 
Original author Kozo Nishida and all the contributors since as tracked
by version control have agreed:

 - Kozo Nishida (@kozo2)
   biopython#898 (comment)
 - Markus Piotrowski (@MarkusPiotrowski)
   biopython#898 (comment)
 - Peter Cock (@peterjc)
   biopython#898 (comment)
@peterjc
Dual license Bio/KEGG/Compound/__init__.py
5645349 
Original author Tarjei Mikkelsen agreed, as have all the contributors
since as tracked with version control:

 - Brad Chapman (@chapmanb)
   http://mailman.open-bio.org/pipermail/biopython-dev/2013-July/019903.html
 - Brian Osborne (@bosborne)
   biopython#898 (comment)
 - Carlos Pena (@carlosp420)
   biopython#898 (comment)
 - Christian Brueffer (@cbrueffer)
   biopython#898 (comment)
 - Connor McCoy (@cmccoy)
   biopython#898 (comment)
 - jchang (@jefftc)
   biopython#898 (comment)
 - Kozo Nishida (@kozo2)
   biopython#898 (comment)
 - Lenna Peterson (@lennax)
   biopython#898 (comment)
 - Markus Piotrowski (@MarkusPiotrowski)
   biopython#898 (comment)
 - Michiel de Hoon (@mdehoon)
   biopython#898 (comment)
 - @morrme
   biopython#1172 (comment)
 - Peter Cock (@peterjc)
   biopython#898 (comment)
 - Tarjei Mikkelsen (@tmikkelsen)
   biopython#2243 (comment)
 - Wibowo Arindrarto (@bow)
   biopython#898 (comment)
@peterjc
Dual license Bio/Pathway/__init__.py
c340d18 
Original author Tarjei Mikkelsen and all the contributors since as tracked
with version control have agreed:

 - Brad Chapman (@chapmanb)
   http://mailman.open-bio.org/pipermail/biopython-dev/2013-July/019903.html
 - Carlos Pena (@carlosp420)
   biopython#898 (comment)
 - Christian Brueffer (@cbrueffer)
   biopython#898 (comment)
 - Connor McCoy (@cmccoy)
   biopython#898 (comment)
 - Francesco Gastaldello (@Gasta88)
   biopython#1063
 - @morrme
   biopython#1172 (comment)
 - Nick Negretti (@nimne)
   biopython#1768 (comment)
 - Peter Cock (@peterjc)
   biopython#898 (comment)
 - Tarjei Mikkelsen (@tmikkelsen)
   biopython#2243 (comment)
 - Travis Wrightsman (@twrightsman)
   biopython#898 (comment)
@peterjc
Dual license Bio/Pathway/Rep/__init__.py
06ac9c9 
Original author Tarjei Mikkelsen and all the contributors since as tracked
by version control have agreed:

 - Brad Chapman (@chapmanb)
   http://mailman.open-bio.org/pipermail/biopython-dev/2013-July/019903.html
 - Brian Osborne (@bosborne)
   biopython#898 (comment)
 - Peter Cock (@peterjc)
   biopython#898 (comment)
 - Sergio Valqui (@svalqui)
   biopython#1749
 - Tarjei Mikkelsen (@tmikkelsen)
   biopython#2243 (comment)
@peterjc
Dual license Bio/Pathway/Rep/MultiGraph.py
0b8670d 
Original author Tarjei Mikkelsen and all the contributors since as tracked
by version control have agreed:

 - Brian Osborne (@bosborne)
   biopython#898 (comment)
 - Carlos Pena (@carlosp420)
   biopython#898 (comment)
 - Chris Rands (@chris-rands)
   biopython#1301
 - Christian Brueffer (@cbrueffer)
   biopython#898 (comment)
 - Connor McCoy (@cmccoy)
   biopython#898 (comment)
 - Francesco Gastaldello (@Gasta88)
   biopython#1063
 - Maximilian Greil (@MaxGreil)
   biopython#1110
 - Peter Cock (@peterjc)
   biopython#898 (comment)
 - Tarjei Mikkelsen (@tmikkelsen)
   biopython#2243 (comment)
@peterjc
Dual license Bio/Pathway/Rep/Graph.py
78839a0 
Original author Tarjei Mikkelsen and all the contributors since as tracked
by version control have agreed:

 - Brian Osborne (@bosborne)
   biopython#898 (comment)
 - Carlos Pena (@carlosp420)
   biopython#898 (comment)
 - Chris Rands (@chris-rands)
   biopython#1301
 - Christian Brueffer (@cbrueffer)
   biopython#898 (comment)
 - Connor McCoy (@cmccoy)
   biopython#898 (comment)
 - Francesco Gastaldello (@Gasta88)
   biopython#1063
 - Maximilian Greil (@MaxGreil)
   biopython#1110
 - Nick Negretti (@nimne)
   biopython#1768 (comment)
 - Peter Cock (@peterjc)
   biopython#898 (comment)
 - Tarjei Mikkelsen (@tmikkelsen)
   biopython#2243 (comment)
@peterjc peterjc mentioned this pull request Sep 2, 2019
Open
@peterjc
Copy link
Member Author

peterjc commented Sep 5, 2019

@tmikkelsen, @widdowquinn or @kevinwuhoo - as the original authors of these files would any of you like to review the dual licensing changes to ensure I've not overlooked anyone? Thanks!

@peterjc peterjc merged commit 2ac4ffb into biopython:master Nov 4, 2019
@peterjc peterjc deleted the dual_kegg branch November 4, 2019 17:22
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Reviewers
No reviews
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

Successfully merging this pull request may close these issues.

None yet
1 participant
@peterjc