- fix tests to accommodate changes in the output.

mazzalab · Oct 15, 2018 · bb484e7 · bb484e7
1 parent 0894531
commit bb484e7
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Showing 58 changed files with 67 additions and 60 deletions.
diff --git a/algorithms/bruteforce_search.py b/algorithms/bruteforce_search.py
@@ -7,7 +7,7 @@
 __author__ = ["Daniele Capocefalo", "Mauro Truglio", "Tommaso Mazza"]
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/algorithms/global_topology.py b/algorithms/global_topology.py
@@ -3,7 +3,7 @@
 __author__ = ["Daniele Capocefalo", "Mauro Truglio", "Tommaso Mazza"]
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/algorithms/greedy_optimization.py b/algorithms/greedy_optimization.py
@@ -7,7 +7,7 @@
 __author__ = ["Daniele Capocefalo", "Mauro Truglio", "Tommaso Mazza"]
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/algorithms/keyplayer.py b/algorithms/keyplayer.py
@@ -4,7 +4,7 @@
 __author__ = ["Daniele Capocefalo", "Mauro Truglio", "Tommaso Mazza"]
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/algorithms/local_topology.py b/algorithms/local_topology.py
@@ -5,7 +5,7 @@
 __author__ = ["Daniele Capocefalo", "Mauro Truglio", "Tommaso Mazza"]
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/algorithms/scalefree_inference.py b/algorithms/scalefree_inference.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/algorithms/shortest_path.py b/algorithms/shortest_path.py
@@ -5,7 +5,7 @@
 __author__ = ["Daniele Capocefalo", "Mauro Truglio", "Tommaso Mazza"]
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Tommaso Mazza"
 __email__ = "bioinformatics@css-mendel.it"
 __status__ = ["Release", "Stable"]

diff --git a/algorithms/shortestpath_gpu.py b/algorithms/shortestpath_gpu.py
@@ -4,7 +4,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Tommaso Mazza"
 __email__ = "t.mazza@css-mendel.it"
 __status__ = "Development"

diff --git a/algorithms/sparseness.py b/algorithms/sparseness.py
@@ -9,7 +9,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/cmds/cmds_utils/kpsearch_wrapper.py b/cmds/cmds_utils/kpsearch_wrapper.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/cmds/cmds_utils/plotter.py b/cmds/cmds_utils/plotter.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/cmds/cmds_utils/reporter.py b/cmds/cmds_utils/reporter.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/cmds/communities.py b/cmds/communities.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/cmds/convert.py b/cmds/convert.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/cmds/generate.py b/cmds/generate.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/cmds/keyplayer.py b/cmds/keyplayer.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/cmds/metrics.py b/cmds/metrics.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/cmds/set.py b/cmds/set.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/config.py b/config.py
@@ -1,7 +1,7 @@
 __author__ = ["Daniele Capocefalo", "Mauro Truglio", "Tommaso Mazza"]
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/exceptions/generic_error.py b/exceptions/generic_error.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/exceptions/illegal_argument_number_error.py b/exceptions/illegal_argument_number_error.py
@@ -5,7 +5,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/exceptions/illegal_graph_size_error.py b/exceptions/illegal_graph_size_error.py
@@ -5,7 +5,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/exceptions/illegal_kppset_size_error.py b/exceptions/illegal_kppset_size_error.py
@@ -5,7 +5,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/exceptions/missing_attribute_error.py b/exceptions/missing_attribute_error.py
@@ -5,7 +5,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/exceptions/multiple_solutions_error.py b/exceptions/multiple_solutions_error.py
@@ -5,7 +5,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/exceptions/notagraph_error.py b/exceptions/notagraph_error.py
@@ -5,7 +5,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/exceptions/unproperly_formatted_file_error.py b/exceptions/unproperly_formatted_file_error.py
@@ -5,7 +5,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/exceptions/unsupported_graph_error.py b/exceptions/unsupported_graph_error.py
@@ -5,7 +5,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/exceptions/wrong_argument_error.py b/exceptions/wrong_argument_error.py
@@ -5,7 +5,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/graph_operations/modules_finder.py b/graph_operations/modules_finder.py
@@ -5,7 +5,7 @@
 __author__ = ["Daniele Capocefalo", "Mauro Truglio", "Tommaso Mazza"]
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/graph_operations/set_operations.py b/graph_operations/set_operations.py
@@ -5,7 +5,7 @@
 __author__ = ["Daniele Capocefalo", "Mauro Truglio", "Tommaso Mazza"]
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/io_stream/converter.py b/io_stream/converter.py
@@ -5,7 +5,7 @@
 __author__ = ["Daniele Capocefalo", "Mauro Truglio", "Tommaso Mazza"]
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/io_stream/export_attributes.py b/io_stream/export_attributes.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/io_stream/exporter.py b/io_stream/exporter.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/io_stream/generator.py b/io_stream/generator.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/io_stream/import_attributes.py b/io_stream/import_attributes.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/io_stream/importer.py b/io_stream/importer.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"

diff --git a/pyntacle.py b/pyntacle.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"
@@ -121,7 +121,7 @@ def __init__(self):
         parser.add_argument('command', help='Subcommand to run', type=lambda s: s.lower())
         parser.add_argument('-v', action="count", help="Verbosity level of the internal Pyntacle logger. "
                                                        "-vvv is the highest level (for debugging)")
-        parser.add_argument('-V', "--version", action="version", version="Pyntacle v0.2.3.3",
+        parser.add_argument('-V', "--version", action="version", version="Pyntacle v0.2.4",
                             help="Shows program version number and quits")
 
         # Detect verbosity

diff --git a/pyntacletests/test_sets/output/keyplayer/figure8_kpfinder_greedy.txt b/pyntacletests/test_sets/output/keyplayer/figure8_kpfinder_greedy.txt
@@ -1,5 +1,5 @@
 Quick Graph Overview	
-graph name	figure_8	
+graph name	figure 8	
 components	1	
 nodes	32	
 edges	56	

diff --git a/pyntacletests/test_widgets_communities.py b/pyntacletests/test_widgets_communities.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"
@@ -60,6 +60,8 @@ def setUp(self):
         self.Args.weights_format = 'standard'
         self.Args.weights_name = None
         self.Args.v = None
+        self.Args.suppress_cursor = True
+
 
     def test_fastgreedy(self):
         sys.stdout.write("Testing fast_greedy community finder\n")

diff --git a/pyntacletests/test_widgets_convert.py b/pyntacletests/test_widgets_convert.py
@@ -1,7 +1,7 @@
 __author__ = "Daniele Capocefalo, Mauro Truglio, Tommaso Mazza"
 __copyright__ = "Copyright 2018, The Pyntacle Project"
 __credits__ = ["Ferenc Jordan"]
-__version__ = "0.2.3.3"
+__version__ = "0.2.4"
 __maintainer__ = "Daniele Capocefalo"
 __email__ = "d.capocefalo@css-mendel.it"
 __status__ = "Development"