From febd25dc416d24829d8744bb7be56bbb17b4aac1 Mon Sep 17 00:00:00 2001
From: sureshhewa <sureshhewabi@gmail.com>
Date: Fri, 5 Apr 2024 09:57:58 +0100
Subject: [PATCH 1/3] version release

---
 config/config_parser.py |  2 +-
 pyproject.toml.bak      | 36 ------------------------------------
 setup.py                |  2 +-
 3 files changed, 2 insertions(+), 38 deletions(-)
 delete mode 100644 pyproject.toml.bak

diff --git a/config/config_parser.py b/config/config_parser.py
index 18eaa10..ef98564 100644
--- a/config/config_parser.py
+++ b/config/config_parser.py
@@ -24,7 +24,7 @@ def get_conn_str():
     Get database related configurations
     """
     script_dir = os.path.dirname(os.path.abspath(__file__))
-    config = os.environ.get('DB_CONFIG', os.path.join(script_dir, "../database.ini"))
+    config = os.environ.get('DB_CONFIG', os.path.join(script_dir, "database.ini"))
     db_info = parse_config(config)
     hostname = os.environ.get('DB_HOST') or db_info.get("host")
     database = os.environ.get('DB_DATABASE_NAME') or db_info.get("database")
diff --git a/pyproject.toml.bak b/pyproject.toml.bak
deleted file mode 100644
index e6cc1ea..0000000
--- a/pyproject.toml.bak
+++ /dev/null
@@ -1,36 +0,0 @@
-[project]
-name = "xi-mzidentml-converter"
-version = "0.1.2"
-description = "xi-mzidentml-converter uses pyteomics (https://pyteomics.readthedocs.io/en/latest/index.html) to parse mzIdentML files (v1.2.0) and extract crosslink information. Results are written to a relational database (PostgreSQL or SQLite) using sqlalchemy."
-readme = "README.md"
-dependencies = [
-'python >= 3.10',
-'fastapi>=0.68.0,<0.69.0',
-'uvicorn<=0.16.0,>=0.15.0',
-'lxml>=4.9.1',
-'numpy>=1.14.3',
-'pandas>=0.21.0',
-'pymzml>=0.7.8',
-'pyteomics>=3.4.2',
-'requests>=2.20.1',
-'urllib3>=1.24.2',
-'pytest',
-'psycopg2-binary',
-'sqlalchemy==2.0.21',
-'sqlalchemy-utils',
-'obonet',
-'python-multipart',
-'python-jose',
-'passlib',
-'jose'
-    ]
-
-[build-system]
-requires = ["setuptools>=61.0", "wheel"]
-build-backend = "setuptools.build_meta"
-
-[project.scripts]
-process = "process:main"
-
-[tool.setuptools.packages]
-find = {}
\ No newline at end of file
diff --git a/setup.py b/setup.py
index 78b46b2..146e9aa 100644
--- a/setup.py
+++ b/setup.py
@@ -24,7 +24,7 @@ def get_version(rel_path):
 
 setup(
     name="xi-mzidentml-converter",
-    version="0.1.21",
+    version="0.1.22",
     description="xi-mzidentml-converter uses pyteomics (https://pyteomics.readthedocs.io/en/latest/index.html) to parse mzIdentML files (v1.2.0) and extract crosslink information. Results are written to a relational database (PostgreSQL or SQLite) using sqlalchemy.",
     long_description_content_type="text/markdown",
     long_description=long_description,

From 8310e5edb85d2b8aab57072423382ca7bcc380af Mon Sep 17 00:00:00 2001
From: sureshhewa <sureshhewabi@gmail.com>
Date: Fri, 5 Apr 2024 11:13:18 +0100
Subject: [PATCH 2/3] add redis config

---
 config/database.ini | 5 +++++
 1 file changed, 5 insertions(+)

diff --git a/config/database.ini b/config/database.ini
index 2c7c5f0..1a504cc 100644
--- a/config/database.ini
+++ b/config/database.ini
@@ -11,3 +11,8 @@ api_key_value=${API_KEY_VALUE}
 base_url=${BASE_URL}
 
 
+[redis]
+host=$REDIS_HOST
+port=$REDIS_PORT
+password=$REDIS_PASSWORD
+peptide_per_protein=$PEPTIDE_PER_PROTEIN
\ No newline at end of file

From 10ab85c5afd9158ef3e5acd53b7cc94e5249fcc4 Mon Sep 17 00:00:00 2001
From: sureshhewa <sureshhewabi@gmail.com>
Date: Mon, 8 Apr 2024 13:24:25 +0100
Subject: [PATCH 3/3] release 0.1.23v

---
 setup.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/setup.py b/setup.py
index 146e9aa..9938371 100644
--- a/setup.py
+++ b/setup.py
@@ -24,7 +24,7 @@ def get_version(rel_path):
 
 setup(
     name="xi-mzidentml-converter",
-    version="0.1.22",
+    version="0.1.23",
     description="xi-mzidentml-converter uses pyteomics (https://pyteomics.readthedocs.io/en/latest/index.html) to parse mzIdentML files (v1.2.0) and extract crosslink information. Results are written to a relational database (PostgreSQL or SQLite) using sqlalchemy.",
     long_description_content_type="text/markdown",
     long_description=long_description,