Adding --version to some files

deeptools · Nov 22, 2018 · 3fee43f · 3fee43f
1 parent dcca49a
commit 3fee43f
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Showing 5 changed files with 12 additions and 6 deletions.
diff --git a/hicexplorer/findRestSite.py b/hicexplorer/findRestSite.py
@@ -6,6 +6,7 @@
 from Bio import SeqIO
 from Bio.Seq import Seq
 from Bio.Alphabet import generic_dna
+from hicexplorer._version import __version__
 
 import logging
 log = logging.getLogger(__name__)
@@ -42,7 +43,8 @@ def parse_arguments(args=None):
     parserOpt = parser.add_argument_group('Optional arguments')
 
     parserOpt.add_argument("--help", "-h", action="help", help="show this help message and exit")
-
+    parserOpt.add_argument('--version', action='version',
+                           version='%(prog)s {}'.format(__version__))
     return parser
 
 

diff --git a/hicexplorer/hicAggregateContacts.py b/hicexplorer/hicAggregateContacts.py
@@ -14,6 +14,7 @@
 import hicexplorer.utilities
 from .utilities import toString
 from .utilities import check_chrom_str_bytes
+from hicexplorer._version import __version__
 
 import logging
 log = logging.getLogger(__name__)
@@ -81,7 +82,8 @@ def parse_arguments(args=None):
                            default='median')
 
     parserOpt.add_argument("--help", "-h", action="help", help="show this help message and exit")
-
+    parserOpt.add_argument('--version', action='version',
+                           version='%(prog)s {}'.format(__version__))
     parserOut = parser.add_argument_group('Output options')
 
     parserOut.add_argument('--outFilePrefixMatrix',

diff --git a/hicexplorer/hicMergeTADbins.py b/hicexplorer/hicMergeTADbins.py
@@ -9,6 +9,7 @@
 from builtins import range
 import numpy as np
 from hicexplorer.utilities import toString
+from hicexplorer._version import __version__
 
 import logging
 log = logging.getLogger(__name__)
@@ -37,7 +38,8 @@ def parse_arguments():
     parser.add_argument('--outFile', '-o',
                         help='Name for the resulting matrix file.',
                         required=True)
-
+    parser.add_argument('--version', action='version',
+                           version='%(prog)s {}'.format(__version__))
     return parser
 
 

diff --git a/hicexplorer/hicPlotViewpoint.py b/hicexplorer/hicPlotViewpoint.py
@@ -8,6 +8,7 @@
 matplotlib.use('Agg')
 import matplotlib.pyplot as plt
 import os
+from hicexplorer._version import __version__
 
 import logging
 log = logging.getLogger(__name__)
@@ -50,7 +51,8 @@ def parse_arguments(args=None):
                            'ouput is a raster graphics image (e.g png, jpg)',
                            type=int,
                            default=300)
-
+    parserOpt.add_argument('--version', action='version',
+                           version='%(prog)s {}'.format(__version__))
     parserOpt.add_argument("--help", "-h", action="help", help="show this help message and exit")
 
     return parser

diff --git a/hicexplorer/test/general/test_hicConvertFormat.py b/hicexplorer/test/general/test_hicConvertFormat.py
@@ -23,8 +23,6 @@
 original_matrix_h5 = ROOT + "/small_test_matrix.h5"
 original_matrix_cool = ROOT + "/small_test_matrix.cool"
 
-original_matrix_h5_li = ROOT + "/small_test_matrix.h5"
-original_matrix_cool_li = ROOT + "/small_test_matrix.cool"
 # test cases for:
 #   - h5 to cool
 #   - h5 to homer