--- a
+++ b/setup.py
@@ -0,0 +1,120 @@
+#!/usr/bin/env python
+
+# -----------------------------------------------------------------------------
+# Copyright (c) 2013, The Qiita Development Team.
+#
+# Distributed under the terms of the BSD 3-clause License.
+#
+# The full license is in the file LICENSE, distributed with this software.
+# -----------------------------------------------------------------------------
+from setuptools import setup
+from glob import glob
+
+__version__ = "2025.04"
+
+
+classes = """
+    Development Status :: 5 - Production/Stable
+    License :: OSI Approved :: BSD License
+    Topic :: Scientific/Engineering :: Bio-Informatics
+    Topic :: Software Development :: Libraries :: Application Frameworks
+    Topic :: Software Development :: Libraries :: Python Modules
+    Programming Language :: Python
+    Programming Language :: Python :: 3.6
+    Programming Language :: Python :: Implementation :: CPython
+    Operating System :: POSIX :: Linux
+    Operating System :: MacOS :: MacOS X
+"""
+
+with open('README.rst') as f:
+    long_description = f.read()
+
+classifiers = [s.strip() for s in classes.split('\n') if s]
+
+setup(name='qiita-spots',
+      version=__version__,
+      long_description=long_description,
+      license="BSD",
+      description='Qiita: Spot Patterns',
+      author="Qiita development team",
+      author_email="qiita.help@gmail.com",
+      url='https://github.com/biocore/qiita',
+      test_suite='nose.collector',
+      packages=['qiita_core',
+                'qiita_db',
+                'qiita_db/handlers',
+                'qiita_db/metadata_template',
+                'qiita_pet',
+                'qiita_pet/handlers',
+                'qiita_pet/handlers/study_handlers',
+                'qiita_pet/handlers/api_proxy',
+                'qiita_ware'
+                ],
+      include_package_data=True,
+      package_data={
+          'qiita_core': [
+              'support_files/config_test.cfg'
+              'support_files/ci_server.crt',
+              'support_files/ci_server.csr',
+              'support_files/ci_server.key'
+            ],
+          'qiita_db': [
+              'support_files/*.sql',
+              'support_files/patches/*.sql',
+              'support_files/patches/python_patches/*.py',
+              'support_files/test_data/preprocessed_data/*',
+              'support_files/test_data/processed_data/*',
+              'support_files/test_data/raw_data/*',
+              'support_files/test_data/analysis/*',
+              'support_files/test_data/reference/*',
+              'support_files/test_data/job/*.txt',
+              'support_files/test_data/job/2_test_folder/*',
+              'support_files/test_data/uploads/1/a_folder/*.txt',
+              'support_files/test_data/uploads/1/.hidden_file.txt',
+              'support_files/test_data/uploads/1/uploaded_file.txt',
+              'support_files/test_data/templates/*',
+              'support_files/work_data/*'],
+          'qiita_pet': [
+              'static/css/*.css', 'static/img/*.png',
+              'static/img/*.gif', 'static/img/*.ico',
+              'static/js/*.js', 'static/vendor/css/*.css',
+              'static/vendor/css/images/*.png',
+              'static/vendor/css/*.png',
+              'static/vendor/fonts/glyphicons*.*',
+              'static/vendor/images/*.png',
+              'static/vendor/js/*.js',
+              'results/admin/jobname/*.html',
+              'templates/*.html',
+              'support_files/config_portal.cfg',
+              'support_files/doc/Makefile',
+              'support_files/doc/README.md',
+              'support_files/doc/source/conf.py',
+              'support_files/doc/source/*.rst',
+              'support_files/doc/source/tutorials/*.rst',
+              'support_files/doc/source/admin/*.rst',
+              'support_files/doc/source/dev/*.rst',
+              'support_files/doc/source/qiita-philosophy/*.rst',
+              'support_files/doc/source/admin/images/*.png',
+              'support_files/doc/source/tutorials/images/*.png',
+              'support_files/doc/source/qiita-philosophy/images/*.png',
+              'support_files/doc/source/_static/*.png'
+              ]},
+      scripts=glob('scripts/*'),
+      # making sure that numpy is installed before biom
+      setup_requires=['numpy', 'cython'],
+      install_requires=['psycopg2', 'click', 'bcrypt', 'pandas<2.0',
+                        'biom-format', 'tornado<6.0', 'toredis', 'redis',
+                        'scp', 'pyparsing', 'h5py',  'natsort', 'nose', 'pep8',
+                        'networkx', 'humanize==4.11', 'wtforms<3.0.0',
+                        'nltk<=3.8.1',
+                        'openpyxl', 'sphinx-bootstrap-theme', 'Sphinx<3.0',
+                        'gitpython', 'redbiom', 'pyzmq', 'sphinx_rtd_theme',
+                        'paramiko', 'seaborn',  'matplotlib', 'scipy<=1.10.1',
+                        'nose',
+                        'flake8', 'six', 'qiita-files @ https://github.com/'
+                        'qiita-spots/qiita-files/archive/master.zip', 'mock',
+                        'python-jose', 'markdown2', 'iteration_utilities',
+                        'supervisor @ https://github.com/Supervisor/'
+                        'supervisor/archive/master.zip', 'joblib'],
+      classifiers=classifiers
+      )