matplotlib-users Mailing List for matplotlib

On Tue, Oct 20, 2009 at 4:43 PM, Thomas Robitaille
<tho...@gm...> wrote:
> ax.xaxis.set_major_formatter(NullFormatter)

http://matplotlib.sourceforge.net/api/axis_api.html?highlight=set_major_formatter#matplotlib.axis.Axis.set_major_formatter

An instance of NullFormatter is needed, instead of the class itself.

ax.xaxis.set_major_formatter(NullFormatter())

-JJ

On Tue, Oct 20, 2009 at 3:43 PM, Thomas Robitaille
<tho...@gm...> wrote:
> Hi,
>
> I'm not sure what I'm doing wrong here:
>
> import matplotlib.pyplot as mpl
> from matplotlib.ticker import NullFormatter
>
> fig = mpl.figure()
> ax = fig.add_subplot(111)
> ax.xaxis.set_major_formatter(NullFormatter)
>
> This returns the error:
>
> Traceback (most recent call last):
>   File "test.py", line 6, in <module>
>     ax.xaxis.set_major_formatter(NullFormatter)
>   File "/Users/tom/Library/Python/2.6/site-packages/matplotlib/
> axis.py", line 1091, in set_major_formatter
>     formatter.set_axis(self)
> TypeError: unbound method set_axis() must be called with NullFormatter
> instance as first argument (got XAxis instance instead)
>
> Am I using set_major_formatter wrongly?

You need to use an *instance* of NullFormatter, which is the name of a
class. Try:

ax.xaxis.set_major_formatter(NullFormatter())

Ryan

-- 
Ryan May
Graduate Research Assistant
School of Meteorology
University of Oklahoma

http://www.nabble.com/Re%3A-Three-Phase-Diagrams-with-matplotlib-p25122618.html

Maybe this is close to what you want?

-JJ



On Sun, Oct 18, 2009 at 8:23 PM, per freem <per...@gm...> wrote:
> hi all,
>
> i would like to draw points on the 3-d simplex, like that of a
> dirichlet distribution with 3 parameters. in other words, all i want
> to draw are three axes that go from 0 to 1 and make a triangular
> shape, such that each point on the triangular region the three axes
> form uniquely determines a point on the simplex.
>
> is there an easy way to do this in matplotlib? just to be clear, i
> dont want to draw a density/distribution over the simplex, but just
> individual points on it. so really all i want are three ordinary axes
> that happen to intersect and make a triangle.
>
> thanks very much.
>
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Hi,

I'm not sure what I'm doing wrong here:

import matplotlib.pyplot as mpl
from matplotlib.ticker import NullFormatter

fig = mpl.figure()
ax = fig.add_subplot(111)
ax.xaxis.set_major_formatter(NullFormatter)

This returns the error:

Traceback (most recent call last):
   File "test.py", line 6, in <module>
     ax.xaxis.set_major_formatter(NullFormatter)
   File "/Users/tom/Library/Python/2.6/site-packages/matplotlib/ 
axis.py", line 1091, in set_major_formatter
     formatter.set_axis(self)
TypeError: unbound method set_axis() must be called with NullFormatter  
instance as first argument (got XAxis instance instead)

Am I using set_major_formatter wrongly?

Thanks,

Thomas

i got that problem solved but i now have a new memory problem, the
error i get is
invalid command name " *randomnumber*callit"
    while executing
" *randomnumber*callit"
    ("after" script)
searched the internet and found that there is some variable stuck
somewhere, here is the def cousing the error, is designed to read some
files (getting them from the lists self.files and self.workspaces)
make a plot and save the plot

 def save2dmulti(self):
        try:
            os.mkdir(self.save+"/graph")
        except:
            pass
        for x in range(0,1):
            #fig = pyplot.figure()
            for file in self.files:
                ax = pyplot.subplot(111)#fig.add_subplot(111)
                pyplot.hold(True)
                for workspace in self.workspaces:
                    f = open(workspace+"/alignment.iuf","r")
                    idlist = pickle.load(f)
                    f.close()
                    self.__newdict = {}
                    for item in idlist:
                        self.__newdict[idlist[item]] = item
                    for x in range(0,1):
                        try:
                            f =
open(workspace+"/letters/letter_"+self.__newdict[file]+".txt", "r")
                        except:
                            print "gene "+file+" not found in
"+workspace+" skipping this workspace"
                            break
                        vals = pickle.load(f)
                        f.close()
                        base = []
                        basecount = []
                        for val in vals:
                            if val[0] == "A":
                                base.append("A")
                                basecount.append(val[1])
                            elif val[0] == "C":
                                base.append("C")
                                basecount.append(val[2])
                            elif val[0] == "T":
                                base.append("T")
                                basecount.append(val[3])
                            elif val[0] == "G":
                                base.append("G")
                                basecount.append(val[4])
                        N = len(base)
                        ind = numpy.arange(N)
                        width = 0.5

                        ax.plot(ind, basecount,'o-', label = workspace)
                        ax.set_xticks(ind)
                ax.set_title(file)
                pyplot.legend()
                #print "one"
                for workspacer in self.workspaces:
                    #print "pretry"
                    try:
                        #print "opening file"
                        f = open(workspacer+"/alignment.iuf","r")
                        idlist = pickle.load(f)
                        f.close()
                        #print "making dict"
                        self.__newdict = {}
                        for item in idlist:
                            self.__newdict[idlist[item]] = item
                        f =
open(workspacer+"/validated/"+self.__newdict[file]+".fa","r")
                        text = f.read()
                        text = text.split("\n")
                        #print text, text[0], text[1]
                        f.close()
                        f = open(self.save+"/temp.fa","w")
                        #print "check OK"+workspacer
                        t = text[0]+"\n"+text[1]+"\n"
                        f.write(t)
                        f.close()
                        output = ""
                        cline = "centroid_fold "+self.save+"/temp.fa"
                        test = subprocess.Popen(str(cline),stdout =
subprocess.PIPE,stderr = open(os.devnull))
                        output = test.communicate()[0]
                        #print output
                        output = output.split(">")
                        out = output[1]
                        out = out.split("\r\n")
                        #print out
                        xax = []
                        counter =0
                        for x in range(0,len(base)):

xax.append(str(vals[counter][0])+"\n"+out[2][counter])
                            counter = counter +1

                        ax.set_xticks(ind)
                        ax.set_xticklabels(xax)

                        sav = file
                        sav =
sav.replace(":","_").replace("\\","_").replace("-","_").replace(">","")
                        #pyplot.show()
                        pyplot.savefig(self.save+"/graph/"+sav+".png")
                        os.remove(self.save+"/temp.fa")
                        pyplot.clf()

                        break
                    except:
                        #print workspacer +" failed"
                        #print "ERROR"
                        pass

the code itself works and does what it needs to do, side effect is
that when i later make and show a graph all the graphs made by this
code are also shown and i get the error

2009/10/14 Ryan May <rm...@gm...>:
> On Mon, Oct 12, 2009 at 8:09 AM, bas pigmans <mrn...@gm...> wrote:
>> hi
>>
>> i am trying to use mathplot in a script that has to produce and store about
>> 3000 graps a time, the problem i have is that something inside mathplot
>> keeps stroring in the memmory, (eigther the graph or the file to write to i
>> guess...) so once it reached 1.5GB of ram it crashes
>>
>> i hope you can help me find a way to flush this memory usage
>>
>> already tryed the .clf and .close options
>
> In order to help you, we'll need to see a complete, minimal script
> that shows the problem you're having.  Memory issues usually depend on
> the specifics of how you're doing something,
>
> Ryan
>
> --
> Ryan May
> Graduate Research Assistant
> School of Meteorology
> University of Oklahoma
>

>    p = PatchCollection(patches, alpha = 1.0,cmap = mpl.cm.Blues,
>        linewidth="0.0",edgecolor="black",linewidth="0.0")


The documentation at http://matplotlib.sourceforge.net
/api/collections_api.html#matplotlib.collections.PatchCollection

has _plurals_ on the kwards (linewidths rather than linewidth) and
as such it works for me:

coll=matplotlib.collections.PatchCollection(
  patches,alpha=.5,linewidths=0.)

using matplotlib 0.99.0.

HTH, Vaclav