Hi Alex,
Thanks for your suggestion! I download Python 2.7 and install it. In my
computer: ~/Library/Python, here are 3 version Python (2.3, 2.5, 2.6 ).
there is no 2.7 ~/Library/Python. It reminds me create a directory in
/Users/Kathy/library/Python/2.7. When I use easy_install -U Pysurfer, the
error is : no Python/2.6 in Users/Kathy/library. It looks like it always
search Python 2.6 even though I installed Python 2.7. Did I install Python
2.7 in wrong place?
Thanks
Kathy
On Fri, May 4, 2012 at 3:48 PM, Alexandre Gramfort <
alexandre.gramf...@inria.fr> wrote:
> Hi Kathy,
>
> subprocess.check_output
>
> was introduced in python 2.7. You use 2.6
>
> I recommend to upgrade if possible.
>
> Otherwise we need to fix this
>
> Alex
>
> On Fri, May 4, 2012 at 3:44 PM, keepmoon <keepmoon1...@googlemail.com>
> wrote:
> > Dear Michael,
> >
> > I try to install Python and Pysurfer following the instructions
> > (using easy_install -U pysurfer and additional packages usingEPD). It
> > didn't show error during the install process. Now I want to test it.
> >
> > In Terminal I typed:
> >
> > Pysurfer fsaverage lh infalted
> > then it shows following:
> >
> > Traceback (most recent call last):
> > File "/usr/local/bin/pysurfer", line 5, in <module>
> > pkg_resources.run_script('pysurfer==0.3', 'pysurfer')
> > File
> >
> "/Library/Python/2.6/site-packages/setuptools-0.6c11-py2.6.egg/pkg_resources.py",
> > line 489, in run_script
> >
> > File
> >
> "/Library/Python/2.6/site-packages/setuptools-0.6c11-py2.6.egg/pkg_resources.py",
> > line 1207, in run_script
> > # we assume here that our metadata may be nested inside a "basket"
> > File
> >
> "/Library/Python/2.6/site-packages/pysurfer-0.3-py2.6.egg/EGG-INFO/scripts/pysurfer",
> > line 9, in <module>
> > from surfer._commandline import parser
> > File
> >
> "/Library/Python/2.6/site-packages/pysurfer-0.3-py2.6.egg/surfer/__init__.py",
> > line 1, in <module>
> > from io import Surface
> > File
> > "/Library/Python/2.6/site-packages/pysurfer-0.3-py2.6.egg/surfer/io.py",
> > line 3, in <module>
> > from subprocess import check_output
> > ImportError: cannot import name check_output
> >
> >
> >
> > This means I didn't install successfully or where is wrong? The computer
> > that I use is MacBook.
> >
> >
> > Thanks for your help!
> >
> > Kathy
> >
> >
> >
> >
> >
> > On Wed, May 2, 2012 at 6:32 PM, Michael Waskom <mwas...@stanford.edu>
> wrote:
> >>
> >> Hi,
> >>
> >> If you're somewhat handy with Python, you can use PySurfer for this.
> >> See this example:
> >> http://pysurfer.github.com/auto_examples/plot_fmri_conjunction.html
> >>
> >> Best,
> >> Michael
> >>
> >> On Wed, May 2, 2012 at 7:51 AM, keepmoon <keepmoon1...@googlemail.com>
> >> wrote:
> >> > Dear all,
> >> >
> >> > I search my question before I post it. I did find similar questions,
> but
> >> > didn't find answer. I want to overlay two files with different colors.
> >> > For
> >> > example, one is sig1.mgh from cortical thickness, the other is
> sig2.mgh
> >> > from
> >> > area. I want to use tksurfer overlaying them with three colors: red is
> >> > significant regions of thickness; blue is significant regions of area;
> >> > green
> >> > is overlap significant regions of thickness and area.
> >> >
> >> > I tried to use the following command:
> >> >
> >> > tksurfer fsaverage lh inflated -annot aparc.annot -fthresh 2 -overlay
> >> > sig1.mgh -overlay sig2.mgh
> >> >
> >> > It just can display sig1.mgh or sig2.mgh, but can't display two
> >> > together. In
> >> > addition, I don't know how to control overlap and other regions color.
> >> >
> >> > Anyone knows how to do this?
> >> >
> >> > Any help will be appreciated!
> >> >
> >> > Thanks in advance!
> >> >
> >> > Kathy
> >> >
> >> > _______________________________________________
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> >> >
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> >> >
> >
> >
> >
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