Rename to Scavager

markmipt · Jul 5, 2018 · 2461250 · 2461250
1 parent b0f6bb7
commit 2461250
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Showing 7 changed files with 9 additions and 9 deletions.
diff --git a/LICENSE b/LICENSE
@@ -1,4 +1,4 @@
-mpscore2 is distributed under the conditions of the
+Scavager is distributed under the conditions of the
 Apache License, Version 2.0:
 http://www.opensource.org/licenses/Apache-2.0
 
@@ -170,4 +170,4 @@ agree to indemnify, defend, and hold each Contributor harmless for any liability
 incurred by, or claims asserted against, such Contributor by reason of your
 accepting any such warranty or additional liability.
 
-END OF TERMS AND CONDITIONS
+END OF TERMS AND CONDITIONS
diff --git a/mpscore2/__init__.py → scavager/__init__.py b/mpscore2/__init__.py → scavager/__init__.py
diff --git a/mpscore2/main.py → scavager/main.py b/mpscore2/main.py → scavager/main.py
diff --git a/mpscore2/search.py → scavager/search.py b/mpscore2/search.py → scavager/search.py
@@ -10,7 +10,7 @@ def run():
 
     Example usage
     -------------
-    $ mpscore2 input.pep.xml -prefix DECOY_ -fdr 1.0
+    $ scavager input.pep.xml -prefix DECOY_ -fdr 1.0
     -------------
     ''',
         formatter_class=argparse.ArgumentDefaultsHelpFormatter)
@@ -29,7 +29,7 @@ def run():
     parser.add_argument('-allowed_peptides', help='Path to file with peptides considered in postsearch analysis.\
     Sequences must be separated by new line. For example, it can be variant peptides and its decoys in case \
     of proteogenomics searches for group-specific FDR calculation', default='')
-    parser.add_argument('-version', action='version', version='%s' % (pkg_resources.require("mpscore2")[0], ))
+    parser.add_argument('-version', action='version', version='%s' % (pkg_resources.require("scavager")[0], ))
     args = vars(parser.parse_args())
     main.process_file(args)
     print('The search is finished.')

diff --git a/mpscore2/utils.py → scavager/utils.py b/mpscore2/utils.py → scavager/utils.py
diff --git a/mpscore2/utils_figures.py → scavager/utils_figures.py b/mpscore2/utils_figures.py → scavager/utils_figures.py
diff --git a/setup.py b/setup.py
@@ -1,24 +1,24 @@
 #!/usr/bin/env python
 
 '''
-setup.py file for mpscore2
+setup.py file for Scavager
 '''
 from setuptools import setup, find_packages
 version = open('VERSION').readline().strip()
 
 setup(
-    name             = 'mpscore2',
+    name             = 'Scavager',
     version          = version,
     description      = '''Proteomics post-search algorithm''',
     author           = 'Mark Ivanov & Lev Levitsky & Julia Bubis',
     author_email     = '[email protected]',
-    url              = 'https://bitbucket.org/markmipt/mpscore2',
-    packages         = ['mpscore2', ],
+    url              = 'https://bitbucket.org/markmipt/scavager',
+    packages         = ['scavager', ],
     install_requires = [line.strip() for line in open('requirements.txt')],
     classifiers      = ['Intended Audience :: Science/Research',
                         'Programming Language :: Python :: 2.7',
                         'Programming Language :: Python :: 3',
                         'Topic :: Scientific/Engineering :: Bio-Informatics'],
     license          = 'License :: OSI Approved :: Apache Software License',
-    entry_points     = {'console_scripts': ['mpscore2 = mpscore2.search:run', ]}
+    entry_points     = {'console_scripts': ['scavager = scavager.search:run', ]}
     )