Fixed issue that caused and error for certain types of mapping due to variable not being initialized

Removed a bunch of unused statistical functions from Plot.py and webqtlUtil.py. I figure that if we ever need them again, there's probably some third party library that includes them.

Also removed unused file AJAX_table.py and other unused code from several other files

1 files changed, 1 insertions, 131 deletions

diff --git a/wqflask/utility/webqtlUtil.py b/wqflask/utility/webqtlUtil.py
index 4fc978f5..2336e722 100644
--- a/wqflask/utility/webqtlUtil.py
+++ b/wqflask/utility/webqtlUtil.py
@@ -90,70 +90,6 @@ PROGRESSBAR = HT.Image('/images/waitAnima2.gif', alt='checkblue',align="middle",
 #      Accessory Functions
 #########################################
 
-def inverseCumul(p):
-    #Coefficients in rational approximations.
-    a = [-3.969683028665376e+01,2.209460984245205e+02,-2.759285104469687e+02,1.383577518672690e+02,-3.066479806614716e+01,2.506628277459239e+00]
-
-    b = [-5.447609879822406e+01,1.615858368580409e+02,-1.556989798598866e+02,6.680131188771972e+01,-1.328068155288572e+01]
-
-    c = [-7.784894002430293e-03,-3.223964580411365e-01,-2.400758277161838e+00,-2.549732539343734e+00,4.374664141464968e+00,2.938163982698783e+00]
-
-    d =  [7.784695709041462e-03,3.224671290700398e-01,2.445134137142996e+00,3.754408661907416e+00]
-
-    #Define break-points.
-
-    p_low  = 0.02425
-    p_high = 1 - p_low
-
-    #Rational approximation for lower region.
-
-    if p > 0 and p < p_low:
-        q = sqrt(-2*log(p))
-        x = (((((c[0]*q+c[1])*q+c[2])*q+c[3])*q+c[4])*q+c[5]) / ((((d[0]*q+d[1])*q+d[2])*q+d[3])*q+1)
-
-
-    #Rational approximation for central region.
-
-    elif p>= p_low and p <= p_high:
-        q = p - 0.5
-        r = q*q
-        x = (((((a[0]*r+a[1])*r+a[2])*r+a[3])*r+a[4])*r+a[5])*q /(((((b[0]*r+b[1])*r+b[2])*r+b[3])*r+b[4])*r+1)
-
-    #Rational approximation for upper region.
-
-    elif p>p_high and  p < 1:
-        q = sqrt(-2*log(1-p))
-        x = -(((((c[0]*q+c[1])*q+c[2])*q+c[3])*q+c[4])*q+c[5]) /((((d[0]*q+d[1])*q+d[2])*q+d[3])*q+1)
-
-    else:
-        return None
-
-    if p>0 and p < 1:
-        e = 0.5 * erfcc(-x/sqrt(2)) - p
-        u = e * sqrt(2*pi) * exp(x*x/2)
-        x = x - u/(1 + x*u/2)
-        return x
-    else:
-        return None
-
-def erfcc(x):
-	z=abs(x)
-	t=1.0/(1.0+0.5*z)
-	ans=t*exp(-z*z-1.26551223+t*(1.00002368+t*(0.37409196+t*(0.09678418+t*(-0.18628806+t*(0.27886807+t*(-1.13520398+t*(1.48851587+t*(-0.82215223+t*0.17087277)))))))))
-	if x>=0.0:
-		return ans
-	else:
-		return 2.0-ans
-
-def U(n):
-	x=pow(0.5,1.0/n)
-	m=[1-x]
-	for i in range(2,n):
-		a=(i-0.3175)/(n+0.365)
-		m.append(a)
-	m.append(x)
-	return m
-
 def decodeEscape(str):
     a = str
     pattern = re.compile('(%[0-9A-Fa-f][0-9A-Fa-f])')
@@ -952,72 +888,6 @@ def formatField(name):
     #name = name.replace("Mb Mm6", "Mb");
     return name.replace("Id", "ID")
 
-#XZ, 03/27/2009: This function is very specific.
-#It is used by AJAX_table.py, correlationPage.py and dataPage.py
-
-
-def genTableObj(tblobj=None, file="", sortby = ("", ""), tableID = "sortable", addIndex = "1", hiddenColumns=[]):
-    header = tblobj['header']
-    body = tblobj['body']
-    field, order = sortby
-
-    #ZAS 9/12/2011 - The hiddenColumns array needs to be converted into a string so they can be placed into the javascript of each up/down button
-    hiddenColumnsString = ",".join(hiddenColumns)
-
-    tbl = HT.TableLite(Class="collap b2", cellspacing=1, cellpadding=5)
-
-    hiddenColumnIdx = [] #indices of columns to hide
-    idx = -1
-    last_idx = 0 #ZS: This is the index of the last item in the regular table header (without any extra parameters). It is used to determine the index of each extra parameter.
-    for row in header:
-        hr = HT.TR()
-        for i, item in enumerate(row):
-            if (item.text == '') or (item.text not in hiddenColumns):
-                if item.sort and item.text:
-                    down = HT.Href("javascript:xmlhttpPost('%smain.py?FormID=AJAX_table', '%s', 'sort=%s&order=down&file=%s&tableID=%s&addIndex=%s&hiddenColumns=%s')" % (webqtlConfig.CGIDIR, tableID, item.text, file, tableID, addIndex, hiddenColumnsString),IMGDESC)
-                    up = HT.Href("javascript:xmlhttpPost('%smain.py?FormID=AJAX_table', '%s', 'sort=%s&order=up&file=%s&tableID=%s&addIndex=%s&hiddenColumns=%s')" % (webqtlConfig.CGIDIR, tableID, item.text, file, tableID, addIndex, hiddenColumnsString),IMGASC)
-                    if item.text == field:
-                        idx = item.idx
-                        last_idx = idx
-                        if order == 'up':
-                            up = IMGASCON
-                        elif order == 'down':
-                            down = IMGDESCON
-                    item.html.append(HT.Div(up, down, style="float: bottom;"))
-                hr.append(item.html)
-            else:
-                hiddenColumnIdx.append(i)
-        tbl.append(hr)
-
-    for i, row in enumerate(body):
-        for j, item in enumerate(row):
-            if order == 'down':
-                if (item.val == '' or item.val == 'x' or item.val == 'None'):
-                    item.val = 0
-            if order == 'up':
-                if (item.val == '' or item.val == 'x' or item.val == 'None'):
-                    item.val = 'zzzzz'
-
-    if idx >= 0:
-        if order == 'down':
-            body.sort(lambda A, B: cmp(B[idx].val, A[idx].val), key=natsort_key)
-        elif order == 'up':
-            body.sort(lambda A, B: cmp(A[idx].val, B[idx].val), key=natsort_key)
-        else:
-            pass
-
-    for i, row in enumerate(body):
-        hr = HT.TR(Id = row[0].text)
-        for j, item in enumerate(row):
-            if (j not in hiddenColumnIdx):
-                if j == 0:
-                    if addIndex == "1":
-                        item.html.contents = [i+1] + item.html.contents
-                hr.append(item.html)
-        tbl.append(hr)
-
-    return tbl
-
 def natsort_key(string):
     r = []
     for c in string:
@@ -1027,4 +897,4 @@ def natsort_key(string):
             except: r.append(c)
         except:
             r.append(c)
-    return r
+    return r
\ No newline at end of file