Repository: biopython/biopython

Issue:
BSD dual licensing Bio.motifs.jaspar
Cross reference #898.

The files under ``Bio/motifs/jaspar/`` were contributed by Anthony Mathelier and David Arenillas at UCB:

https://github.com/biopython/biopython/commit/ef95580a888f5a84d3e44eee7fe5b892ddf4f2af

We will need their consent to dual license these files. We can ask if they'd like to be listed in ``CONTRIB.rst`` too.
BSD dual licensing Bio.motifs.jaspar
Cross reference #898.

The files under ``Bio/motifs/jaspar/`` were contributed by Anthony Mathelier and David Arenillas at UCB:

https://github.com/biopython/biopython/commit/ef95580a888f5a84d3e44eee7fe5b892ddf4f2af

We will need their consent to dual license these files. We can ask if they'd like to be listed in ``CONTRIB.rst`` too.


Discussion:
@mdehoon do you have email addresses for Anthony Mathelier and David Arenillas?
See
https://www.med.uio.no/ncmm/english/people/aca/anthoma/index.html
for Anthony Mathelier
I emailed him this week, and he kindly agreed here:

https://github.com/biopython/biopython/issues/898#issuecomment-1876647762
I have emailed David using the address Anthony suggested.
David has agreed too, see https://github.com/biopython/biopython/issues/898#issuecomment-1925898452 - thank you both!
@mdehoon do you have email addresses for Anthony Mathelier and David Arenillas?
See
https://www.med.uio.no/ncmm/english/people/aca/anthoma/index.html
for Anthony Mathelier
I emailed him this week, and he kindly agreed here:

https://github.com/biopython/biopython/issues/898#issuecomment-1876647762
I have emailed David using the address Anthony suggested.
David has agreed too, see https://github.com/biopython/biopython/issues/898#issuecomment-1925898452 - thank you both!

Resolving patch:
diff --git a/Bio/motifs/jaspar/__init__.py b/Bio/motifs/jaspar/__init__.py
--- a/Bio/motifs/jaspar/__init__.py
+++ b/Bio/motifs/jaspar/__init__.py
@@ -1,8 +1,9 @@
 # Copyright 2013 by Anthony Mathelier and David Arenillas. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
+#
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
 """JASPAR2014 module."""
 
 from Bio.Seq import Seq
diff --git a/Bio/motifs/jaspar/db.py b/Bio/motifs/jaspar/db.py
--- a/Bio/motifs/jaspar/db.py
+++ b/Bio/motifs/jaspar/db.py
@@ -1,7 +1,9 @@
 # Copyright 2013 by David Arenillas and Anthony Mathelier. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
+#
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
 """Provides read access to a JASPAR5 formatted database.
 
 This modules requires MySQLdb to be installed.


Test patch: