def getCommandLineArgs():
if len(sys.argv) < 2:
print(
"Usage: python3 deform.py [/absolute/path/to/input_file.txt (containing paths edge files)] \nExiting..\n"
)
sys.exit()
return util.cleanPaths(realp(sys.argv[1]))
def getCommandLineArgs():
if len(sys.argv) < 2:
myprint(
"Usage: python3 extract_nodes.py [/absolute/path/to/input.txt containing paths to edge files]\nExiting..\n"
)
sys.exit()
assert os.path.isfile(str(sys.argv[1]))
return util.cleanPaths(str(sys.argv[1]))
def getCommandLineArgs():
if len(sys.argv) < 2:
print(
"Usage: python3 max_degree.py [/absolute/path/to/configs/edge_fil.txt]\nExiting..\n"
)
sys.exit()
assert os.path.isfile(str(sys.argv[1]))
return util.cleanPaths(str(sys.argv[1]))
def getCommandLineArgs():
if len(sys.argv) < 2:
print(
"Usage: python3 extract_largest_component.py [/absolute/path/to/input_file.txt]\nEach line in input file should be [True/False] [/path/to/edge/file] where True/False means to randomize edges or not (if the network is undirected, set it to True)\nExiting..\n"
)
sys.exit()
assert os.path.isfile(str(sys.argv[1]))
return util.cleanPaths(str(sys.argv[1]))
def getCommandLineArgs():
if len(sys.argv) < 2:
print(
"Usage: python3 in_pairs_scaling.py [/absolute/path/to/network/file.txt]\nExiting..\n"
)
sys.exit()
clean_lines = util.cleanPaths(sys.argv[1])
TITLES = [L.split()[0].strip() for L in clean_lines]
NETS = [L.split()[1].strip() for L in clean_lines]
return TITLES, NETS
def getCommandLineArgs():
paths = None
try:
assert len(sys.argv) == 2
except:
print(
"Usage: python3 NH_NL_analogs.py [/absolute/path/to/configs/input.txt] (containing paths to edge files)\nExiting..\n"
)
sys.exit(1)
paths = util.cleanPaths(sys.argv[1])
try:
for p in paths:
assert os.path.isfile(p)
return paths
except:
print("Encountered invalid files, check your input \nExiting..\n")
sys.exit(1)
likely_interactors, colors, sizes = get_likely_interactors(M)
ax = fig.add_subplot(rows, cols, pos)
xlabel, ylabel = "Degree of source node", "Degree of target node"
if pos==1:
xlabel =""
ax = scatter_v1(likely_interactors, colors, sizes, ax, "", fig, xlabel, ylabel, log)
pos+=1
save_figure(output_file_name)
print ('Done')
sys.exit(1)
##################################################################
if __name__ == "__main__":
update_rcParams()
output_file_name, clean_titles = [], []
input_lines = util.cleanPaths (getCommandLineArgs())
network_files = []
for line in input_lines:
clean_titles.append( line.split()[:-1][0] )
network_files.append(line.split()[-1])
output_file_name.append(line.split('/')[-1].split('.')[0])
output_file_name = '_'.join(output_file_name)
#v1(network_files, clean_titles, output_file_name) # call this if you wanna plot the old way, using add_plots instead of add_axes
fig_inch_dims = ((10*len(network_files), 10*len(network_files)))
cols = 1
rows = len(network_files)
w2h_ratio=0.7
'Spectral':[(0.88535179460749902, 0.31903114388970766, 0.29042677143040824), (0.98731257284388818, 0.64736641446749377, 0.36424452942960406), (0.99715494057711429, 0.91180315789054422, 0.60107653281267948), (0.92887351442785826, 0.97154940577114335, 0.63806230531019326), (0.6334486913447287, 0.85213380350786094, 0.64367553065804872), (0.28004614044638243, 0.6269896416103139, 0.70242216306574201)],
}
return colors
######################################################
def getCommandLineArgs():
if len(sys.argv) < 2:
print ("Usage: python3 degree.py [/absolute/path/to/input_file.txt]\nExiting..\n")
sys.exit()
return str(sys.argv[1])
######################################################
if __name__ == "__main__":
update_rcParams()
H, i,maxd = [], 0,0
INPUT = getCommandLineArgs()
input_files = util.cleanPaths (INPUT)
colors = ['#fc0000', '#fc8900', '#fcfc00', '#76fc00', '#01911b', '#00d9dc', '#3d4cff', '#b119fd', '#fc099c','black','orange']
#colors = ['#4000ff','#00bfff','#ff0080', '#ffb3d9']
watermark = []
xoffset, yoffset = [],0
for line in input_files:
title = ' '.join(line.split()[:-1]).replace('-',' ').replace('Human ENCODE','ENCODE')
network_file = line.split()[-1]
watermark.append( network_file.split('/')[-1].split('_')[0])
#M = init.load_network ({'network_file':network_file.strip(), 'biased':False}, undirected=False, quite=False)
#M = init.load_network ({'network_file':network_file.strip(), 'biased':False}, undirected=True, quite=False)
#nx.write_gpickle(M,'dumps/'+network_file.split('/')[-1].split('.')[0]+'.dump')
M = nx.read_gpickle(network_file)
#with open (network_file,''
print (title.ljust(20,' ')+"nodes "+str(len(M.nodes())).ljust(6,' ')+" edges "+str(len(M.edges())))
'06BD_criteria': ['source'], #,'both','target'],
'07KP_solver_source':
['$lib/kp_solvers/DPsolver.c'
], #[slash(os.getenv('SOLVERS_DIRECTORY'))+'DPsolver.c'],
#'07KP_solver_source' : [slash(os.getenv('SOLVERS_DIRECTORY'))+'minknap.c'],
'08KP_solver_binary':
['$SCRATCH/DPsolver.so'], #[slash(os.getenv('SCRATCH'))+'DPsolver.so'],
#'08KP_solver_binary' : [slash(os.getenv('SCRATCH'))+'minknap.so'],
'09output_directory': ['$SCRATCH'], #[slash(os.getenv('SCRATCH'))],
'10advice_upon': ['nodes', 'edges'], #['nodes','edges'],
'11biased': [True, False], #[False,True],
'12alpha': [0.2]
}
edge_files = []
try:
edge_files = util.cleanPaths(
sys.argv[1]) #open (sys.argv[1], 'r').readlines()
except:
print(
"Usage: python generator_v4.py [absolute path to input file (containing paths to edge files)]"
)
for f in edge_files:
if f.strip()[0] == '#':
continue
tmp = settings['09output_directory']
settings['13network_file'] = [
f.split('\n')[0].replace(slash(os.getenv('data')), '$data/')
]
settings['14network_name'] = [f.split('/')[-1].split('.')[0]]
settings['09output_directory'] = [
slash(settings['09output_directory'][0]) +