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Post code that demonstrates the use of the interact command in Sage here. It should be easy for people to just scroll through and paste examples out of here into their own sage notebooks. This is a collection of pages demonstrating the use of the **interact** command in Sage.
It should be easy to just scroll through and copy/paste examples into Sage notebooks.
If you have suggestions on how to improve interact, add them [[interact/Suggestions|here]]
or email the sage-support mailing list. Of course, your own examples are also welcome!
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We'll likely restructure and reorganize this once we have some nontrivial content and get a sense of how it is laid out. If you have suggestions on how to improve interact, add them [:interactSuggestions: here] or email [email protected]. Documentation links:
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[[TableOfContents]]   * [[http://doc.sagemath.org/html/en/reference/repl/sage/repl/ipython_kernel/interact.html| interacts in the Jupyter notebook]] (see this page and the two following ones)
  * [[https://github.com/sagemath/sagenb/blob/master/sagenb/notebook/interact.py|interacts in the legacy SageNB notebook]] (many helpful examples)
  * [[https://github.com/sagemath/sagecell/blob/master/interact_compatibility.py|Sage Cell Server implementation]]
  * [[https://github.com/sagemathinc/cocalc/blob/master/src/smc_sagews/smc_sagews/sage_salvus.py#L348|CoCalc Sage worksheet implementation]]
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== Miscellaneous == Examples:
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=== Evaluate a bit of code in a given system ===  * [[interact/algebra|Algebra]]
 * [[interact/bio|Bioinformatics]]
 * [[interact/calculus|Calculus]]
 * [[interact/complex|Complex Analysis]]
 * [[interact/cryptography|Cryptography]]
 * [[interact/diffeq|Differential Equations]]
 * [[interact/graphics|Drawing Graphics]]
 * [[interact/dynsys|Dynamical Systems]]
 * [[interact/fractal|Fractals]]
 * [[interact/games|Games and Diversions]]
 * [[interact/geometry|Geometry]]
 * [[interact/graph_theory|Graph Theory]]
 * [[interact/linear_algebra|Linear Algebra]]
 * [[interact/Loop Quantum Gravity|Loop Quantum Gravity]]
 * [[interact/misc|Miscellaneous]]
 * [[interact/number_theory|Number Theory]]
 * [[interact/stats|Statistics/Probability]]
 * [[interact/topology|Topology]]
 * [[interact/web|Web Applications]]
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by William Stein (there is no way yet to make the text box big): == Explanatory example: Taylor Series ==
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{{{
@interact
def _(system=selector([('sage0', 'Sage'), ('gp', 'PARI'), ('magma', 'Magma')]), code='2+2'):
    print globals()[system].eval(code)
}}}
This is the code and a mockup animation of the interact command. It defines a slider, seen on top, that can be dragged. Once dragged, it changes the value of the variable "order" and the whole block of code gets evaluated. This principle can be seen in various examples presented on the pages above!
Line 21: Line 41:
attachment:evalsys.png


== Graph Theory ==

=== Automorphism Groups of some Graphs ===

by William Stein (I spent less than five minutes on this):

{{{
@interact
def _(graph=['CycleGraph', 'CubeGraph', 'RandomGNP'],
      n=selector([1..10],nrows=1), p=selector([10,20,..,100],nrows=1)):
    print graph
    if graph == 'CycleGraph':
       print "n (=%s): number of vertices"%n
       G = graphs.CycleGraph(n)
    elif graph == 'CubeGraph':
       if n > 8:
           print "n reduced to 8"
           n = 8
       print "n (=%s): dimension"%n
       G = graphs.CubeGraph(n)
    elif graph == 'RandomGNP':
       print "n (=%s) vertices"%n
       print "p (=%s%%) probability"%p
       G = graphs.RandomGNP(n, p/100.0)

    print G.automorphism_group()
    show(plot(G))
}}}

attachment:autograph.png

== Calculus ==
=== A contour map and 3d plot of two inverse distance functions ===
by William Stein
{{{
@interact
def _(q1=(-1,(-3,3)), q2=(-2,(-3,3)),
      cmap=['autumn', 'bone', 'cool', 'copper', 'gray', 'hot', 'hsv',
           'jet', 'pink', 'prism', 'spring', 'summer', 'winter']):
     x,y = var('x,y')
     f = q1/sqrt((x+1)^2 + y^2) + q2/sqrt((x-1)^2+(y+0.5)^2)
     C = contour_plot(f, (-2,2), (-2,2), plot_points=30, contours=15, cmap=cmap)
     show(C, figsize=3, aspect_ratio=1)
     show(plot3d(f, (x,-2,2), (y,-2,2)), figsize=5, viewer='tachyon')
}}}
attachment:mountains.png

=== A simple tangent line grapher ===
by Marshall Hampton
{{{
html('<h2>Tangent line grapher</h2>')
@interact
def tangent_line(f = input_box(default=sin(x)), xbegin = slider(0,10,1/10,0), xend = slider(0,10,1/10,10), x0 = slider(0, 1, 1/100, 1/2)):
    prange = [xbegin, xend]
    x0i = xbegin + x0*(xend-xbegin)
    var('x')
    df = diff(f)
    tanf = f(x0i) + df(x0i)*(x-x0i)
    fplot = plot(f, prange[0], prange[1])
    print 'Tangent line is y = ' + tanf._repr_()
    tanplot = plot(tanf, prange[0], prange[1], rgbcolor = (1,0,0))
    fmax = f.find_maximum_on_interval(prange[0], prange[1])[0]
    fmin = f.find_minimum_on_interval(prange[0], prange[1])[0]
    show(fplot + tanplot, xmin = prange[0], xmax = prange[1], ymax = fmax, ymin = fmin)
}}}
attachment:tangents.png

=== Function tool ===
Enter symbolic functions $f$, $g$, and $a$, a range, then click the appropriate
button to compute and plot some combination of $f$, $g$, and $a$ along with $f$ and $g$.
This is inspired by the Matlab funtool GUI.

{{{
x = var('x')
{{{#!sagecell
x = SR.var('x')
x0 = 0
f = sin(x) * e^(-x)
p = plot(f, -1, 5, thickness=2)
dot = point((x0, f(x=x0)), pointsize=80, rgbcolor=(1, 0, 0))
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def _(f=sin(x), g=cos(x), xrange=input_box((0,1)), yrange='auto', a=1,
      action=selector(['f', 'df/dx', 'int f', 'num f', 'den f', '1/f', 'finv',
                       'f+a', 'f-a', 'f*a', 'f/a', 'f^a', 'f(x+a)', 'f(x*a)',
                       'f+g', 'f-g', 'f*g', 'f/g', 'f(g)'],
             width=15, nrows=5, label="h = "),
      do_plot = ("Draw Plots", True)):

    try:
        f = SR(f); g = SR(g); a = SR(a)
    except TypeError, msg:
        print msg[-200:]
        print "Unable to make sense of f,g, or a as symbolic expressions."
        return
    if not (isinstance(xrange, tuple) and len(xrange) == 2):
          xrange = (0,1)
    h = 0; lbl = ''
    if action == 'f':
        h = f
        lbl = 'f'
    elif action == 'df/dx':
        h = f.derivative(x)
        lbl = '\\frac{df}{dx}'
    elif action == 'int f':
        h = f.integrate(x)
        lbl = '\\int f dx'
    elif action == 'num f':
        h = f.numerator()
        lbl = '\\text{numer(f)}'
    elif action == 'den f':
        h = f.denominator()
        lbl = '\\text{denom(f)}'
    elif action == '1/f':
        h = 1/f
        lbl = '\\frac{1}{f}'
    elif action == 'finv':
        h = solve(f == var('y'), x)[0].rhs()
        lbl = 'f^{-1}(y)'
    elif action == 'f+a':
        h = f+a
        lbl = 'f + a'
    elif action == 'f-a':
        h = f-a
        lbl = 'f - a'
    elif action == 'f*a':
        h = f*a
        lbl = 'f \\times a'
    elif action == 'f/a':
        h = f/a
        lbl = '\\frac{f}{a}'
    elif action == 'f^a':
        h = f^a
        lbl = 'f^a'
    elif action == 'f^a':
        h = f^a
        lbl = 'f^a'
    elif action == 'f(x+a)':
        h = f(x+a)
        lbl = 'f(x+a)'
    elif action == 'f(x*a)':
        h = f(x*a)
        lbl = 'f(xa)'
    elif action == 'f+g':
        h = f+g
        lbl = 'f + g'
    elif action == 'f-g':
        h = f-g
        lbl = 'f - g'
    elif action == 'f*g':
        h = f*g
        lbl = 'f \\times g'
    elif action == 'f/g':
        h = f/g
        lbl = '\\frac{f}{g}'
    elif action == 'f(g)':
        h = f(g)
        lbl = 'f(g)'
      
      
    html('<center><font color="red">$f = %s$</font></center>'%latex(f))
    html('<center><font color="green">$g = %s$</font></center>'%latex(g))
    html('<center><font color="blue"><b>$h = %s = %s$</b></font></center>'%(lbl, latex(h)))
    if do_plot:
        P = plot(f, xrange, color='red', thickness=2) + \
            plot(g, xrange, color='green', thickness=2) + \
            plot(h, xrange, color='blue', thickness=2)
        if yrange == 'auto':
            show(P, xmin=xrange[0], xmax=xrange[1])
        else:
            yrange = sage_eval(yrange)
            show(P, xmin=xrange[0], xmax=xrange[1], ymin=yrange[0], ymax=yrange[1])
def _(order=slider([1 .. 12])):
  ft = f.taylor(x, x0, order)
  pt = plot(ft, -1, 5, color='green', thickness=2)
  pretty_print(html(r'$f(x)\;=\;%s$' % latex(f)))
  pretty_print(html(r'$\hat{f}(x;%s)\;=\;%s+\mathcal{O}(x^{%s})$' % (x0, latex(ft), order+1)))
  show(dot + p + pt, ymin=-.5, ymax=1)
Line 191: Line 56:

attachment:funtool.png


== Differential Equations ==

=== Euler's Method in one variable ===
by Marshall Hampton. This needs some polishing but its usable as is.
{{{
def tab_list(y, headers = None):
    '''
    Converts a list into an html table with borders.
    '''
    s = '<table border = 1>'
    if headers:
        for q in headers:
            s = s + '<th>' + str(q) + '</th>'
    for x in y:
        s = s + '<tr>'
        for q in x:
            s = s + '<td>' + str(q) + '</td>'
        s = s + '</tr>'
    s = s + '</table>'
    return s
var('x y')
@interact
def euler_method(y_exact_in = input_box('-cos(x)+1.0', type = str, label = 'Exact solution = '), y_prime_in = input_box('sin(x)', type = str, label = "y' = "), start = input_box(0.0, label = 'x starting value: '), stop = input_box(6.0, label = 'x stopping value: '), startval = input_box(0.0, label = 'y starting value: '), nsteps = slider([2^m for m in range(0,10)], default = 10, label = 'Number of steps: '), show_steps = slider([2^m for m in range(0,10)], default = 8, label = 'Number of steps shown in table: ')):
    y_exact = lambda x: eval(y_exact_in)
    y_prime = lambda x,y: eval(y_prime_in)
    stepsize = float((stop-start)/nsteps)
    steps_shown = max(nsteps,show_steps)
    sol = [startval]
    xvals = [start]
    for step in range(nsteps):
        sol.append(sol[-1] + stepsize*y_prime(xvals[-1],sol[-1]))
        xvals.append(xvals[-1] + stepsize)
    sol_max = max(sol + [find_maximum_on_interval(y_exact,start,stop)[0]])
    sol_min = min(sol + [find_minimum_on_interval(y_exact,start,stop)[0]])
    show(plot(y_exact(x),start,stop,rgbcolor=(1,0,0))+line([[xvals[index],sol[index]] for index in range(len(sol))]),xmin=start,xmax = stop, ymax = sol_max, ymin = sol_min)
    if nsteps < steps_shown:
        table_range = range(len(sol))
    else:
        table_range = range(0,floor(steps_shown/2)) + range(len(sol)-floor(steps_shown/2),len(sol))
    html(tab_list([[i,xvals[i],sol[i]] for i in table_range], headers = ['step','x','y']))
}}}
attachment:eulermethod.png

== Linear Algebra ==

=== Numerical instability of the classical Gram-Schmidt algorithm ===
by Marshall Hampton (tested by William Stein, who thinks this is really nice!)
{{{
def GS_classic(a_list):
    '''
    Given a list of vectors or a matrix, returns the QR factorization using the classical (and numerically unstable) Gram-Schmidt algorithm.
    '''
    if type(a_list) != list:
        cols = a_list.cols()
        a_list = [x for x in cols]
    indices = range(len(a_list))
    q = []
    r = [[0 for i in indices] for j in indices]
    v = [a_list[i].copy() for i in indices]
    for i in indices:
        for j in range(0,i):
            r[j][i] = q[j].inner_product(a_list[i])
            v[i] = v[i] - r[j][i]*q[j]
        r[i][i] = (v[i]*v[i])^(1/2)
        q.append(v[i]/r[i][i])
    q = matrix([q[i] for i in indices]).transpose()
    return q, matrix(r)
def GS_modern(a_list):
    '''
    Given a list of vectors or a matrix, returns the QR factorization using the 'modern' Gram-Schmidt algorithm.
    '''
    if type(a_list) != list:
        cols = a_list.cols()
        a_list = [x for x in cols]
    indices = range(len(a_list))
    q = []
    r = [[0 for i in indices] for j in indices]
    v = [a_list[i].copy() for i in indices]
    for i in indices:
        r[i][i] = v[i].norm(2)
        q.append(v[i]/r[i][i])
        for j in range(i+1, len(indices)):
            r[i][j] = q[i].inner_product(v[j])
            v[j] = v[j] - r[i][j]*q[i]
    q = matrix([q[i] for i in indices]).transpose()
    return q, matrix(r)
html('<h2>Numerical instability of the classical Gram-Schmidt algorithm</h2>')
@interact
def gstest(precision = slider(range(3,53), default = 10), a1 = input_box([1,1/1000,1/1000]), a2 = input_box([1,1/1000,0]), a3 = input_box([1,0,1/1000])):
    myR = RealField(precision)
    displayR = RealField(5)
    html('precision in bits: ' + str(precision) + '<br>')
    A = matrix([a1,a2,a3])
    A = [vector(myR,x) for x in A]
    qn, rn = GS_classic(A)
    qb, rb = GS_modern(A)
    html('Classical Gram-Schmidt:')
    show(matrix(displayR,qn))
    html('Stable Gram-Schmidt:')
    show(matrix(displayR,qb))
}}}
attachment:GramSchmidt.png


=== Linear transformations ===
by Jason Grout

A square matrix defines a linear transformation which rotates and/or scales vectors. In the interact command below, the red vector represents the original vector (v) and the blue vector represents the image w under the linear transformation. You can change the angle and length of v by changing theta and r.

{{{
@interact
def linear_transformation(theta=slider(0, 2*pi, .1), r=slider(0.1, 2, .1, default=1)):
    A=matrix([[1,-1],[-1,1/2]])
    v=vector([r*cos(theta), r*sin(theta)])
    w = A*v
    circles = sum([circle((0,0), radius=i, rgbcolor=(0,0,0)) for i in [1..2]])
    print jsmath("v = %s,\; %s v=%s"%(v.n(4),latex(A),w.n(4)))
    show(v.plot(rgbcolor=(1,0,0))+w.plot(rgbcolor=(0,0,1))+circles,aspect_ratio=1)
}}}
attachment:Linear-Transformations.png

=== Singular value decomposition ===
by Marshall Hampton
{{{
import scipy.linalg as lin
var('t')
def rotell(sig,umat,t,offset=0):
    temp = matrix(umat)*matrix(2,1,[sig[0]*cos(t),sig[1]*sin(t)])
    return [offset+temp[0][0],temp[1][0]]
@interact
def svd_vis(a11=slider(-1,1,.05,1),a12=slider(-1,1,.05,1),a21=slider(-1,1,.05,0),a22=slider(-1,1,.05,1),ofs= selector(['Off','On'],label='offset image from domain')):
    rf_low = RealField(12)
    my_mat = matrix(rf_low,2,2,[a11,a12,a21,a22])
    u,s,vh = lin.svd(my_mat.numpy())
    if ofs == 'On':
        offset = 3
        fsize = 6
        colors = [(1,0,0),(0,0,1),(1,0,0),(0,0,1)]
    else:
        offset = 0
        fsize = 5
        colors = [(1,0,0),(0,0,1),(.7,.2,0),(0,.3,.7)]
    vvects = sum([arrow([0,0],matrix(vh).row(i),rgbcolor = colors[i]) for i in (0,1)])
    uvects = Graphics()
    for i in (0,1):
        if s[i] != 0: uvects += arrow([offset,0],vector([offset,0])+matrix(s*u).column(i),rgbcolor = colors[i+2])
    html('<h3>Singular value decomposition: image of the unit circle and the singular vectors</h3>')
    print jsmath("A = %s = %s %s %s"%(latex(my_mat), latex(matrix(rf_low,u.tolist())), latex(matrix(rf_low,2,2,[s[0],0,0,s[1]])), latex(matrix(rf_low,vh.tolist()))))
    image_ell = parametric_plot(rotell(s,u,t, offset),0,2*pi)
    graph_stuff=circle((0,0),1)+image_ell+vvects+uvects
    graph_stuff.set_aspect_ratio(1)
    show(graph_stuff,frame = False,axes=False,figsize=[fsize,fsize])
}}}
attachment:svd1.png
== Number Theory ==

=== Continued Fraction Plotter ===
by William Stein
{{{
@interact
def _(number=e, ymax=selector([None,5,20,..,400],nrows=2), clr=Color('purple'), prec=[500,1000,..,5000]):
    c = list(continued_fraction(RealField(prec)(number))); print c
    show(line([(i,z) for i, z in enumerate(c)],rgbcolor=clr),ymax=ymax,figsize=[10,2])
}}}
attachment:contfracplot.png

=== Illustrating the prime number thoerem ===
by William Stein
{{{
@interact
def _(N=(100,(2..2000))):
    html("<font color='red'>$\pi(x)$</font> and <font color='blue'>$x/(\log(x)-1)$</font> for $x < %s$"%N)
    show(plot(prime_pi, 0, N, rgbcolor='red') + plot(x/(log(x)-1), 5, N, rgbcolor='blue'))
}}}
attachment:primes.png

=== Computing Generalized Bernoulli Numbers ===
by William Stein (Sage-2.10.3)
{{{
@interact
def _(m=selector([1..15],nrows=2), n=(7,(3..10))):
    G = DirichletGroup(m)
    s = "<h3>First n=%s Bernoulli numbers attached to characters with modulus m=%s</h3>"%(n,m)
    s += '<table border=1>'
    s += '<tr bgcolor="#edcc9c"><td align=center>$\\chi$</td><td>Conductor</td>' + \
           ''.join('<td>$B_{%s,\chi}$</td>'%k for k in [1..n]) + '</tr>'
    for eps in G.list():
        v = ''.join(['<td align=center bgcolor="#efe5cd">$%s$</td>'%latex(eps.bernoulli(k)) for k in [1..n]])
        s += '<tr><td bgcolor="#edcc9c">%s</td><td bgcolor="#efe5cd" align=center>%s</td>%s</tr>\n'%(
             eps, eps.conductor(), v)
    s += '</table>'
    html(s)
}}}

attachment:bernoulli.png


=== Fundamental Domains of SL_2(ZZ) ===
by Robert Miller
{{{
L = [[-0.5, 2.0^(x/100.0) - 1 + sqrt(3.0)/2] for x in xrange(1000, -1, -1)]
R = [[0.5, 2.0^(x/100.0) - 1 + sqrt(3.0)/2] for x in xrange(1000)]
xes = [x/1000.0 for x in xrange(-500,501,1)]
M = [[x,abs(sqrt(x^2-1))] for x in xes]
fundamental_domain = L+M+R
fundamental_domain = [[x-1,y] for x,y in fundamental_domain]
@interact
def _(gen = selector(['t+1', 't-1', '-1/t'], nrows=1)):
    global fundamental_domain
    if gen == 't+1':
        fundamental_domain = [[x+1,y] for x,y in fundamental_domain]
    elif gen == 't-1':
        fundamental_domain = [[x-1,y] for x,y in fundamental_domain]
    elif gen == '-1/t':
        new_dom = []
        for x,y in fundamental_domain:
            sq_mod = x^2 + y^2
            new_dom.append([(-1)*x/sq_mod, y/sq_mod])
        fundamental_domain = new_dom
    P = polygon(fundamental_domain)
    P.ymax(1.2); P.ymin(-0.1)
    P.show()
}}}

attachment:fund_domain.png

=== Computing modular forms ===
by William Stein
{{{
j = 0
@interact
def _(N=[1..100], k=selector([2,4,..,12],nrows=1), prec=(3..40),
      group=[(Gamma0, 'Gamma0'), (Gamma1, 'Gamma1')]):
    M = CuspForms(group(N),k)
    print j; global j; j += 1
    print M; print '\n'*3
    print "Computing basis...\n\n"
    if M.dimension() == 0:
         print "Space has dimension 0"
    else:
        prec = max(prec, M.dimension()+1)
        for f in M.basis():
             view(f.q_expansion(prec))
    print "\n\n\nDone computing basis."
}}}

attachment:modformbasis.png


=== Computing the cuspidal subgroup ===
by William Stein
{{{
html('<h1>Cuspidal Subgroups of Modular Jacobians J0(N)</h1>')
@interact
def _(N=selector([1..8*13], ncols=8, width=10, default=10)):
    A = J0(N)
    print A.cuspidal_subgroup()
}}}

attachment:cuspgroup.png

=== A Charpoly and Hecke Operator Graph ===
by William Stein

{{{
# Note -- in Sage-2.10.3; multiedges are missing in plots; loops are missing in 3d plots
@interact
def f(N = prime_range(11,400),
      p = selector(prime_range(2,12),nrows=1),
      three_d = ("Three Dimensional", False)):
    S = SupersingularModule(N)
    T = S.hecke_matrix(p)
    G = Graph(T, multiedges=True, loops=not three_d)
    html("<h1>Charpoly and Hecke Graph: Level %s, T_%s</h1>"%(N,p))
    show(T.charpoly().factor())
    if three_d:
        show(G.plot3d(), aspect_ratio=[1,1,1])
    else:
        show(G.plot(),figsize=7)
}}}

attachment:heckegraph.png

=== Demonstrating the Diffie-Hellman Key Exchange Protocol ===
by Timothy Clemans (refereed by William Stein)
{{{
@interact
def diffie_hellman(button=selector(["New example"],label='',buttons=True),
    bits=("Number of bits of prime", (8,12,..512))):
    maxp = 2^bits
    p = random_prime(maxp)
    k = GF(p)
    g = k.multiplicative_generator()
    a = ZZ.random_element(10, maxp)
    b = ZZ.random_element(10, maxp)

    print """
<html>
<style>
.gamodp {
background:yellow
}
.gbmodp {
background:orange
}
.dhsame {
color:green;
font-weight:bold
}
</style>
<h2>%s-Bit Diffie-Hellman Key Exchange</h2>
<ol style="color:#000;font:12px Arial, Helvetica, sans-serif">
<li>Alice and Bob agree to use the prime number p=%s and base g=%s.</li>
<li>Alice chooses the secret integer a=%s, then sends Bob (<span class="gamodp">g<sup>a</sup> mod p</span>):<br/>%s<sup>%s</sup> mod %s = <span class="gamodp">%s</span>.</li>
<li>Bob chooses the secret integer b=%s, then sends Alice (<span class="gbmodp">g<sup>b</sup> mod p</span>):<br/>%s<sup>%s</sup> mod %s = <span class="gbmodp">%s</span>.</li>
<li>Alice computes (<span class="gbmodp">g<sup>b</sup> mod p</span>)<sup>a</sup> mod p:<br/>%s<sup>%s</sup> mod %s = <span class="dhsame">%s</span>.</li>
<li>Bob computes (<span class="gamodp">g<sup>a</sup> mod p</span>)<sup>b</sup> mod p:<br/>%s<sup>%s</sup> mod %s = <span class="dhsame">%s</span>.</li>
</ol></html>
    """ % (bits, p, g, a, g, a, p, (g^a), b, g, b, p, (g^b), (g^b), a, p,
       (g^ b)^a, g^a, b, p, (g^a)^b)
}}}

attachment:dh.png

=== Plotting an elliptic curve over a finite field ===
{{{
E = EllipticCurve('37a')
@interact
def _(p=slider(prime_range(1000), default=389)):
    show(E)
    print "p = %s"%p
    show(E.change_ring(GF(p)).plot(),xmin=0,ymin=0)
}}}

attachment:ellffplot.png

== Bioinformatics ==

=== Web app: protein browser ===
by Marshall Hampton (tested by William Stein)
{{{
import urllib2 as U
@interact
def protein_browser(GenBank_ID = input_box('165940577', type = str), file_type = selector([(1,'fasta'),(2,'GenPept')])):
    if file_type == 2:
        gen_str = 'http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=protein&sendto=t&id='
    else:
        gen_str = 'http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=protein&sendto=t&dopt=fasta&id='
    f = U.urlopen(gen_str + GenBank_ID)
    g = f.read()
    f.close()
    html(g)
}}}
attachment:biobrowse.png

=== Coalescent simulator ===
by Marshall Hampton
{{{
def next_gen(x, selection=1.0):
    '''Creates the next generation from the previous; also returns parent-child indexing list'''
    next_x = []
    for ind in range(len(x)):
        if random() < (1 + selection)/len(x):
            rind = 0
        else:
            rind = int(round(random()*(len(x)-1)+1/2))
        next_x.append((x[rind],rind))
    next_x.sort()
    return [[x[0] for x in next_x],[x[1] for x in next_x]]
def coal_plot(some_data):
    '''Creates a graphics object from coalescent data'''
    gens = some_data[0]
    inds = some_data[1]
    gen_lines = line([[0,0]])
    pts = Graphics()
    ngens = len(gens)
    gen_size = len(gens[0])
    for x in range(gen_size):
        pts += point((x,ngens-1), hue = gens[0][x]/float(gen_size*1.1))
    p_frame = line([[-.5,-.5],[-.5,ngens-.5], [gen_size-.5,ngens-.5], [gen_size-.5,-.5], [-.5,-.5]])
    for g in range(1,ngens):
        for x in range(gen_size):
            old_x = inds[g-1][x]
            gen_lines += line([[x,ngens-g-1],[old_x,ngens-g]], hue = gens[g-1][old_x]/float(gen_size*1.1))
            pts += point((x,ngens-g-1), hue = gens[g][x]/float(gen_size*1.1))
    return pts+gen_lines+p_frame
d_field = RealField(10)
@interact
def coalescents(pop_size = slider(2,100,1,15,'Population size'), selection = slider(-1,1,.1,0, 'Selection for first taxon'), s = selector(['Again!'], label='Refresh', buttons=True)):
    print 'Population size: ' + str(pop_size)
    print 'Selection coefficient for first taxon: ' + str(d_field(selection))
    start = [i for i in range(pop_size)]
    gens = [start]
    inds = []
    while gens[-1][0] != gens[-1][-1]:
        g_index = len(gens) - 1
        n_gen = next_gen(gens[g_index], selection = selection)
        gens.append(n_gen[0])
        inds.append(n_gen[1])
        coal_data1 = [gens,inds]
    print 'Generations until coalescence: ' + str(len(gens))
    show(coal_plot(coal_data1), axes = False, figsize = [8,4.0*len(gens)/pop_size], ymax = len(gens)-1)
}}}
attachment:coalescent.png

== Miscellaneous Graphics ==

=== Catalog of 3D Parametric Plots ===
{{{
var('u,v')
plots = ['Two Interlinked Tori', 'Star of David', 'Double Heart',
         'Heart', 'Green bowtie', "Boy's Surface", "Maeder's Owl",
         'Cross cap']
plots.sort()

@interact
def _(example=selector(plots, buttons=True, nrows=2),
      tachyon=("Raytrace", False), frame = ('Frame', False),
      opacity=(1,(0.1,1))):
    url = ''
    if example == 'Two Interlinked Tori':
        f1 = (4+(3+cos(v))*sin(u), 4+(3+cos(v))*cos(u), 4+sin(v))
        f2 = (8+(3+cos(v))*cos(u), 3+sin(v), 4+(3+cos(v))*sin(u))
        p1 = parametric_plot3d(f1, (u,0,2*pi), (v,0,2*pi), color="red", opacity=opacity)
        p2 = parametric_plot3d(f2, (u,0,2*pi), (v,0,2*pi), color="blue",opacity=opacity)
        P = p1 + p2
    elif example == 'Star of David':
        f_x = cos(u)*cos(v)*(abs(cos(3*v/4))^500 + abs(sin(3*v/4))^500)^(-1/260)*(abs(cos(4*u/4))^200 + abs(sin(4*u/4))^200)^(-1/200)
        f_y = cos(u)*sin(v)*(abs(cos(3*v/4))^500 + abs(sin(3*v/4))^500)^(-1/260)*(abs(cos(4*u/4))^200 + abs(sin(4*u/4))^200)^(-1/200)
        f_z = sin(u)*(abs(cos(4*u/4))^200 + abs(sin(4*u/4))^200)^(-1/200)
        P = parametric_plot3d([f_x, f_y, f_z], (u, -pi, pi), (v, 0, 2*pi),opacity=opacity)
    elif example == 'Double Heart':
        f_x = ( abs(v) - abs(u) - abs(tanh((1/sqrt(2))*u)/(1/sqrt(2))) + abs(tanh((1/sqrt(2))*v)/(1/sqrt(2))) )*sin(v)
        f_y = ( abs(v) - abs(u) - abs(tanh((1/sqrt(2))*u)/(1/sqrt(2))) - abs(tanh((1/sqrt(2))*v)/(1/sqrt(2))) )*cos(v)
        f_z = sin(u)*(abs(cos(4*u/4))^1 + abs(sin(4*u/4))^1)^(-1/1)
        P = parametric_plot3d([f_x, f_y, f_z], (u, 0, pi), (v, -pi, pi),opacity=opacity)
    elif example == 'Heart':
        f_x = cos(u)*(4*sqrt(1-v^2)*sin(abs(u))^abs(u))
        f_y = sin(u) *(4*sqrt(1-v^2)*sin(abs(u))^abs(u))
        f_z = v
        P = parametric_plot3d([f_x, f_y, f_z], (u, -pi, pi), (v, -1, 1), frame=False, color="red",opacity=opacity)
    elif example == 'Green bowtie':
        f_x = sin(u) / (sqrt(2) + sin(v))
        f_y = sin(u) / (sqrt(2) + cos(v))
        f_z = cos(u) / (1 + sqrt(2))
        P = parametric_plot3d([f_x, f_y, f_z], (u, -pi, pi), (v, -pi, pi), frame=False, color="green",opacity=opacity)
    elif example == "Boy's Surface":
        url = "http://en.wikipedia.org/wiki/Boy's_surface"
        fx = 2/3* (cos(u)* cos(2*v) + sqrt(2)* sin(u)* cos(v))* cos(u) / (sqrt(2) - sin(2*u)* sin(3*v))
        fy = 2/3* (cos(u)* sin(2*v) - sqrt(2)* sin(u)* sin(v))* cos(u) / (sqrt(2) - sin(2*u)* sin(3*v))
        fz = sqrt(2)* cos(u)* cos(u) / (sqrt(2) - sin(2*u)* sin(3*v))
        P = parametric_plot3d([fx, fy, fz], (u, -2*pi, 2*pi), (v, 0, pi), plot_points = [90,90], frame=False, color="orange",opacity=opacity)
    elif example == "Maeder's Owl":
        fx = v *cos(u) - 0.5* v^2 * cos(2* u)
        fy = -v *sin(u) - 0.5* v^2 * sin(2* u)
        fz = 4 *v^1.5 * cos(3 *u / 2) / 3
        P = parametric_plot3d([fx, fy, fz], (u, -2*pi, 2*pi), (v, 0, 1),plot_points = [90,90], frame=False, color="purple",opacity=opacity)
    elif example =='Cross cap':
        url = 'http://en.wikipedia.org/wiki/Cross-cap'
        fx = (1+cos(v))*cos(u)
        fy = (1+cos(v))*sin(u)
        fz = -tanh((2/3)*(u-pi))*sin(v)
        P = parametric_plot3d([fx, fy, fz], (u, 0, 2*pi), (v, 0, 2*pi), frame=False, color="red",opacity=opacity)
    else:
        print "Bug selecting plot?"
        return


    html('<h2>%s</h2>'%example)
    if url:
        html('<h3><a target="_new" href="%s">%s</a></h3>'%(url,url))
    show(P, viewer='tachyon' if tachyon else 'jmol', frame=frame)
}}}

attachment:parametricplot3d.png

=== Interactive rotatable raytracing with Tachyon3d ===

{{{
C = cube(color=['red', 'green', 'blue'], aspect_ratio=[1,1,1],
         viewer='tachyon') + sphere((1,0,0),0.2)
@interact
def example(theta=(0,2*pi), phi=(0,2*pi), zoom=(1,(1,4))):
    show(C.rotate((0,0,1), theta).rotate((0,1,0),phi), zoom=zoom)
}}}


attachment:tachyonrotate.png


=== Interactive 3d plotting ===
{{{
var('x,y')
@interact
def example(clr=Color('orange'), f=4*x*exp(-x^2-y^2), xrange='(-2, 2)', yrange='(-2,2)',
    zrot=(0,pi), xrot=(0,pi), zoom=(1,(1/2,3)), square_aspect=('Square Frame', False),
    tachyon=('Ray Tracer', True)):
    xmin, xmax = sage_eval(xrange); ymin, ymax = sage_eval(yrange)
    P = plot3d(f, (x, xmin, xmax), (y, ymin, ymax), color=clr)
    html('<h1>Plot of $f(x,y) = %s$</h1>'%latex(f))
    aspect_ratio = [1,1,1] if square_aspect else [1,1,1/2]
    show(P.rotate((0,0,1), -zrot).rotate((1,0,0),xrot),

---- /!\ '''Edit conflict - other version:''' ----
         viewer='tachyon' if tachyon else 'jmol',
         figsize=6, zoom=zoom, frame=False,
         frame_aspect_ratio=aspect_ratio)

---- /!\ '''Edit conflict - your version:''' ----

---- /!\ '''End of edit conflict''' ----

---- /!\ '''Edit conflict - other version:''' ----

---- /!\ '''Edit conflict - your version:''' ----

== Miscellaneous Graphics ==

=== Interactive rotatable raytracing with Tachyon3d ===

{{{
C = cube(color=['red', 'green', 'blue'], aspect_ratio=[1,1,1],
         viewer='tachyon') + sphere((1,0,0),0.2)
@interact
def example(theta=(0,2*pi), phi=(0,2*pi), zoom=(1,(1,4))):
    show(C.rotate((0,0,1), theta).rotate((0,1,0),phi), zoom=zoom)
}}}


attachment:tachyonrotate.png


=== Interactive Tachyon-based 3d plotting ===
{{{
var('x,y')
@interact
def example(clr=Color('orange'), f=4*x*exp(-x^2-y^2), xrange='(-2, 2)', yrange='(-2,2)',
    zrot=(0,pi), xrot=(0,pi), zoom=(1,(1/2,3)), square_aspect=('Square Frame', False)):
    xmin, xmax = sage_eval(xrange); ymin, ymax = sage_eval(yrange)
    P = plot3d(f, (x, xmin, xmax), (y, ymin, ymax), color=clr)
    html('<h1>Plot of $f(x,y) = %s$</h1>'%latex(f))
    aspect_ratio = [1,1,1] if square_aspect else [1,1,1/2]
    show(P.rotate((0,0,1), -zrot).rotate((1,0,0),xrot),
         viewer='tachyon', figsize=6, zoom=zoom, frame_aspect_ratio=aspect_ratio)

---- /!\ '''End of edit conflict''' ----
}}}

attachment:tachyonplot3d.png

[[Anchor(eggpaint)]]

=== Somewhat Silly Egg Painter ===
by Marshall Hampton (refereed by William Stein)
{{{
var('s,t')
g(s) = ((0.57496*sqrt(121 - 16.0*s^2))/sqrt(10.+ s))
def P(color, rng):
    return parametric_plot3d((cos(t)*g(s), sin(t)*g(s), s), (s,rng[0],rng[1]), (t,0,2*pi), plot_points = [150,150], rgbcolor=color, frame = False, opacity = 1)
colorlist = ['red','blue','red','blue']
@interact
def _(band_number = selector(range(1,5)), current_color = Color('red')):
    html('<h1 align=center>Egg Painter</h1>')
    colorlist[band_number-1] = current_color
    egg = sum([P(colorlist[i],[-2.75+5.5*(i/4),-2.75+5.5*(i+1)/4]) for i in range(4)])
    show(egg)
}}}
attachment:eggpaint.png
{{attachment:taylor_series_animated.gif}}

Sage Interactions

This is a collection of pages demonstrating the use of the **interact** command in Sage. It should be easy to just scroll through and copy/paste examples into Sage notebooks. If you have suggestions on how to improve interact, add them here or email the sage-support mailing list. Of course, your own examples are also welcome!

Documentation links:

Examples:

Explanatory example: Taylor Series

This is the code and a mockup animation of the interact command. It defines a slider, seen on top, that can be dragged. Once dragged, it changes the value of the variable "order" and the whole block of code gets evaluated. This principle can be seen in various examples presented on the pages above!

taylor_series_animated.gif

interact (last edited 2021-08-23 15:58:42 by anewton)