def run_collinearity():
options = base.load_conf(args.improvedcollinearity, 'collinearity')
col = mycollinearity(options)
col.run()
def run_trees():
options = base.load_conf(args.alignmenttrees, 'alignmenttrees')
t = trees(options)
t.run()
def run_cal_ks():
options = base.load_conf(args.calks, 'ks')
calks = ks(options)
calks.run()
def run_polyploidy_classification():
options = base.load_conf(args.polyploidy_classification,
'polyploidy classification')
pc = polyploidy_classification(options)
pc.run()
def run_pindex():
options = base.load_conf(args.pindex, 'pindex')
p = pindex(options)
p.run()
def run_colinearscan():
options = base.load_conf(args.colinearscan, 'colinearscan')
col = colinearscan(options)
col.run()
def run_ksfigure():
options = base.load_conf(args.ksfigure, 'ksfigure')
kf = ksfigure(options)
kf.run()
def run_retain():
options = base.load_conf(args.retain, 'retain')
retained = retain(options)
retained.run()
def run_block_ks():
options = base.load_conf(args.blockks, 'blockks')
blockks = block_ks(options)
blockks.run()
def run_align_dotplot():
options = base.load_conf(args.alignment, 'alignment')
align_dot = align_dotplot(options)
align_dot.run()
def run_align_correspondence():
options = base.load_conf(args.correspondence, 'correspondence')
align_cor = block_correspondence(options)
align_cor.run()
def run_peaksfit():
options = base.load_conf(args.peaksfit, 'peaksfit')
pf = peaksfit(options)
pf.run()
def run_circos():
options = base.load_conf(args.circos, 'circos')
cir = circos(options)
cir.run()
def run_configure():
options = base.load_conf(args.conf, 'total')
def run_dotplot():
options = base.load_conf(args.dotplot, 'dotplot')
dot = dotplot(options)
dot.run()
def run_kspeaks():
options = base.load_conf(args.kspeaks, 'kspeaks')
kp = kspeaks(options)
kp.run()
def run_block_info():
options = base.load_conf(args.blockinfo, 'blockinfo')
blockinfo = block_info(options)
blockinfo.run()
def run_subprogram(program, conf, name):
options = base.load_conf(conf, name)
r = program(options)
r.run()