From a0acbb5878bdd369a2f065e8cad01c45bd724c46 Mon Sep 17 00:00:00 2001
From: gcroci2 <crocioni.giulia@gmail.com>
Date: Thu, 21 Mar 2024 10:29:13 +0100
Subject: [PATCH 1/6] add manifest file

---
 MANIFEST.in | 6 ++++++
 1 file changed, 6 insertions(+)
 create mode 100644 MANIFEST.in

diff --git a/MANIFEST.in b/MANIFEST.in
new file mode 100644
index 00000000..042c07dd
--- /dev/null
+++ b/MANIFEST.in
@@ -0,0 +1,6 @@
+include README.md
+include env/deeprank2.yml
+include CITATION.cff
+include LICENSE
+include NOTICE
+prune tests
\ No newline at end of file

From ac379221064b425c351c68e3ba3ea71cf93c6c06 Mon Sep 17 00:00:00 2001
From: gcroci2 <crocioni.giulia@gmail.com>
Date: Thu, 21 Mar 2024 10:29:43 +0100
Subject: [PATCH 2/6] add notice file

---
 NOTICE | 1 +
 1 file changed, 1 insertion(+)
 create mode 100644 NOTICE

diff --git a/NOTICE b/NOTICE
new file mode 100644
index 00000000..1a1f1ad7
--- /dev/null
+++ b/NOTICE
@@ -0,0 +1 @@
+Copyright 2022, Giulia Crocioni, Dani L. Bodor, The Netherlands eScience Center, Li C. Xue, RadboudUMC
\ No newline at end of file

From 9920e38b7edbb95e7ba33d6ab50411f25ee49598 Mon Sep 17 00:00:00 2001
From: gcroci2 <crocioni.giulia@gmail.com>
Date: Thu, 21 Mar 2024 10:30:10 +0100
Subject: [PATCH 3/6] remove exclude list

---
 pyproject.toml | 1 -
 1 file changed, 1 deletion(-)

diff --git a/pyproject.toml b/pyproject.toml
index 5ecc23d9..a62cef14 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -60,7 +60,6 @@ source = ["deeprank2"]
 
 [tool.setuptools.packages.find]
 include = ["deeprank2*"]
-exclude = ["tests", "tests*", "*tests.*", "*tests"]
 
 [tool.setuptools.package-data]
 "*" = ["*.xlsx", "*.param", "*.top", "*residue-classes"]

From 8540a22dec67d9d1a16c6edcf816248dbcf90859 Mon Sep 17 00:00:00 2001
From: gcroci2 <crocioni.giulia@gmail.com>
Date: Fri, 14 Jun 2024 11:14:04 +0200
Subject: [PATCH 4/6] fix path for docker requirements

---
 .bumpversion.cfg | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.bumpversion.cfg b/.bumpversion.cfg
index 11e9a491..1cf06684 100644
--- a/.bumpversion.cfg
+++ b/.bumpversion.cfg
@@ -16,6 +16,6 @@ replace = version = "{new_version}"
 search = version: "{current_version}"
 replace = version: "{new_version}"
 
-[bumpversion:file:requirements-docker.txt]
+[bumpversion:file:env/requirements-docker.txt]
 search = deeprank2==current_version
 replace = deeprank2==new_version

From f3a6b5afd4104c9eb6476a6609277335d5d4a7c6 Mon Sep 17 00:00:00 2001
From: gcroci2 <crocioni.giulia@gmail.com>
Date: Fri, 14 Jun 2024 11:15:50 +0200
Subject: [PATCH 5/6] fix var ref

---
 .bumpversion.cfg | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/.bumpversion.cfg b/.bumpversion.cfg
index 1cf06684..e8c089da 100644
--- a/.bumpversion.cfg
+++ b/.bumpversion.cfg
@@ -17,5 +17,5 @@ search = version: "{current_version}"
 replace = version: "{new_version}"
 
 [bumpversion:file:env/requirements-docker.txt]
-search = deeprank2==current_version
-replace = deeprank2==new_version
+search = deeprank2=={current_version}
+replace = deeprank2=={new_version}

From 872a7c4769bfd32195471a107ab1b68ef4d3b363 Mon Sep 17 00:00:00 2001
From: gcroci2 <crocioni.giulia@gmail.com>
Date: Fri, 14 Jun 2024 11:16:20 +0200
Subject: [PATCH 6/6] bump patch version

---
 .bumpversion.cfg            | 2 +-
 CITATION.cff                | 2 +-
 deeprank2/__init__.py       | 2 +-
 env/requirements-docker.txt | 2 +-
 pyproject.toml              | 2 +-
 5 files changed, 5 insertions(+), 5 deletions(-)

diff --git a/.bumpversion.cfg b/.bumpversion.cfg
index e8c089da..3105c38c 100644
--- a/.bumpversion.cfg
+++ b/.bumpversion.cfg
@@ -1,5 +1,5 @@
 [bumpversion]
-current_version = 3.0.2
+current_version = 3.0.3
 
 [comment]
 comment = The contents of this file cannot be merged with that of setup.cfg until https://github.com/c4urself/bump2version/issues/185 is resolved
diff --git a/CITATION.cff b/CITATION.cff
index 981a89d1..db6ac7d3 100644
--- a/CITATION.cff
+++ b/CITATION.cff
@@ -86,4 +86,4 @@ preferred-citation:
   volume: 9
 title: "DeepRank2: Mining 3D Protein Structures with Geometric Deep
   Learning"
-version: "3.0.2"
+version: "3.0.3"
diff --git a/deeprank2/__init__.py b/deeprank2/__init__.py
index 131942e7..8d1c8625 100644
--- a/deeprank2/__init__.py
+++ b/deeprank2/__init__.py
@@ -1 +1 @@
-__version__ = "3.0.2"
+__version__ = "3.0.3"
diff --git a/env/requirements-docker.txt b/env/requirements-docker.txt
index 43d6682d..538781ce 100644
--- a/env/requirements-docker.txt
+++ b/env/requirements-docker.txt
@@ -1 +1 @@
-deeprank2==3.0.2
\ No newline at end of file
+deeprank2==3.0.3
\ No newline at end of file
diff --git a/pyproject.toml b/pyproject.toml
index a62cef14..a918fd33 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
 
 [project]
 name = "deeprank2"
-version = "3.0.2"
+version = "3.0.3"
 description = "DeepRank2 is an open-source deep learning framework for data mining of protein-protein interfaces or single-residue missense variants."
 readme = "README.md"
 requires-python = ">=3.10"