[BioC] unable to readImage using EBImage package

[Dan Tenenbaum]

On Fri, Mar 9, 2012 at 4:22 AM, Nurdiyanah Jambari <yanadj28 at gmail.com> wrote:
> Hai,
> I still not able to overcome my problem. I have already download the gtk
> from the link that you give.
> I'm still having the same warning/error. Can you help me?
>
>

Did you remove the previous GTK+ installation from your system and your PATH?
Did you add the new GTK+ installation to your PATH as documented in
the EBImage vignette?
Dan


>
> On Wed, Mar 7, 2012 at 2:33 PM, Nurdiyanah Jambari <yanadj28 at gmail.com>
> wrote:
>>
>> Can you please help me explain on how to place/install this GTK file.
>> I hope I didn't wrongly place it. I've been searching in the internet, but
>> there is no specific step for it.
>>
>> thank you.
>>
>>
>>
>> On Wed, Mar 7, 2012 at 12:11 PM, Dan Tenenbaum <dtenenba at fhcrc.org> wrote:
>>>
>>> On Tue, Mar 6, 2012 at 7:25 PM, Nurdiyanah Jambari <yanadj28 at gmail.com>
>>> wrote:
>>> >
>>> >
>>> > ---------- Forwarded message ----------
>>> > From: Nurdiyanah Jambari <yanadj28 at gmail.com>
>>> > Date: Wed, Mar 7, 2012 at 10:50 AM
>>> > Subject: Re: [BioC] unable to readImage using EBImage package
>>> > To: Henrik Bengtsson <hb at biostat.ucsf.edu>
>>> >
>>> >
>>> >> library("EBImage")
>>> >
>>> >> sessionInfo()
>>> > R version 2.14.1 (2011-12-22)
>>> > Platform: i386-pc-mingw32/i386 (32-bit)
>>> >
>>> > locale:
>>> > [1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United
>>> > States.1252    LC_MONETARY=English_United States.1252
>>> > LC_NUMERIC=C
>>> > [5] LC_TIME=English_United States.1252
>>> >
>>> > attached base packages:
>>> > [1] stats     graphics  grDevices utils     datasets  methods   base
>>> >
>>> > other attached packages:
>>> > [1] EBImage_3.10.0 abind_1.4-0
>>> >
>>> > loaded via a namespace (and not attached):
>>> > [1] tools_2.14.1
>>> >
>>> >
>>> >
>>> >
>>>
>>> I have found that for Windows, EBImage does not like the most recent
>>> version of GTK+.
>>> You should install the version specified in the EBImage installation
>>> vignette:
>>>
>>>
>>> http://ftp.gnome.org/pub/gnome/binaries/win32/gtk+/2.16/gtk+-bundle_2.16.6-20100912_win32.zip
>>>
>>> Dan
>>>
>>>
>>> >
>>> >
>>> > On Wed, Mar 7, 2012 at 10:47 AM, Henrik Bengtsson <hb at biostat.ucsf.edu>
>>> > wrote:
>>> >>
>>> >> They're also interested in details about EBImage, so:
>>> >>
>>> >> > library("EBImage");
>>> >> > sessionInfo();
>>> >>
>>> >> Over and out.
>>> >>
>>> >> /Henrik
>>> >>
>>> >> On Tue, Mar 6, 2012 at 6:16 PM, Nurdiyanah Jambari
>>> >> <yanadj28 at gmail.com>
>>> >> wrote:
>>> >> > Sorry, I miss understood your request. This is the output of my
>>> >> > sessionInfo():
>>> >> >
>>> >> >> sessionInfo()
>>> >> > R version 2.14.1 (2011-12-22)
>>> >> > Platform: i386-pc-mingw32/i386 (32-bit)
>>> >> >
>>> >> > locale:
>>> >> > [1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United
>>> >> > States.1252    LC_MONETARY=English_United States.1252
>>> >> > LC_NUMERIC=C
>>> >> > [5] LC_TIME=English_United States.1252
>>> >> >
>>> >> > attached base packages:
>>> >> > [1] stats     graphics  grDevices utils     datasets  methods   base
>>> >> >
>>> >> >
>>> >> >
>>> >> > On Wed, Mar 7, 2012 at 9:42 AM, Dan Tenenbaum <dtenenba at fhcrc.org>
>>> >> > wrote:
>>> >> >
>>> >> >> On Tue, Mar 6, 2012 at 4:35 PM, Nurdiyanah Jambari
>>> >> >> <yanadj28 at gmail.com>
>>> >> >> wrote:
>>> >> >> > Sorry, I forgot to mention that the system will go to not
>>> >> >> > responding
>>> >> >> > and
>>> >> >> > need to be closed after the pop-up message appear.
>>> >> >> >
>>> >> >>
>>> >> >> Please post the output of sessionInfo(), run it immediately before
>>> >> >> the
>>> >> >> command that causes the error.
>>> >> >>
>>> >> >> Thanks,
>>> >> >> Dan
>>> >> >>
>>> >> >> >
>>> >> >> >
>>> >> >> >
>>> >> >> > On Wed, Mar 7, 2012 at 8:30 AM, Dan Tenenbaum
>>> >> >> > <dtenenba at fhcrc.org>
>>> >> >> wrote:
>>> >> >> >>
>>> >> >> >> On Tue, Mar 6, 2012 at 4:26 PM, Nurdiyanah Jambari
>>> >> >> >> <yanadj28 at gmail.com>
>>> >> >> >> wrote:
>>> >> >> >> > This error happen while I'm trying to view the example image.
>>> >> >> >> > These is
>>> >> >> >> > because I read from the manual, if I want to make sure that
>>> >> >> >> > the
>>> >> >> package
>>> >> >> >> > is
>>> >> >> >> > install correctly, it should be able to display the "lena.gif"
>>> >> >> >> > image:
>>> >> >> >> >
>>> >> >> >> >
>>> >> >> >> >>library("EBImage")
>>> >> >> >> >>f = system.file("images", "lena.gif", package="EBImage")
>>> >> >> >> >>lena = readImage(f)
>>> >> >> >> >>display(lena)
>>> >> >> >> >
>>> >> >> >> >
>>> >> >> >> >
>>> >> >> >> Please post the output of
>>> >> >> >> sessionInfo()
>>> >> >> >> Thanks
>>> >> >> >> Dan
>>> >> >> >>
>>> >> >> >>
>>> >> >> >> >
>>> >> >> >> > On Wed, Mar 7, 2012 at 3:14 AM, Dan Tenenbaum
>>> >> >> >> > <dtenenba at fhcrc.org>
>>> >> >> >> > wrote:
>>> >> >> >> >>
>>> >> >> >> >> On Tue, Mar 6, 2012 at 12:39 AM, Nurdiyanah Jambari
>>> >> >> >> >> <yanadj28 at gmail.com>
>>> >> >> >> >> wrote:
>>> >> >> >> >> > Hi,
>>> >> >> >> >> >
>>> >> >> >> >> > Please help me with these problem. Every time I'm trying to
>>> >> >> >> >> > display
>>> >> >> >> >> > the
>>> >> >> >> >> > example image, I receive these kind of pop-up warning:
>>> >> >> >> >> >
>>> >> >> >> >> >
>>> >> >> >> >> > ** (<unknown>:2932): WARNING **: No builtin or dynamically
>>> >> >> >> >> > loaded
>>> >> >> >> >> > modules
>>> >> >> >> >> > were found. Pango will not work correctly. This probably
>>> >> >> >> >> > means
>>> >> >> >> >> > there was an error in the creation of:
>>> >> >> >> >> >   'C:\Windows\system32\etc\pango\pango.modules'
>>> >> >> >> >> > You may be able to recreate this file by running
>>> >> >> pango-querymodules.
>>> >> >> >> >> >
>>> >> >> >> >> > (<unknown>:2932): GLib-GObject-CRITICAL **: file gobject.c:
>>> >> >> >> >> > line
>>> >> >> 1561
>>> >> >> >> >> > (g_object_
>>> >> >> >> >> > ref): assertion `G_IS_OBJECT (object)' failed
>>> >> >> >> >> >
>>> >> >> >> >> > ** (<unknown>:2932): CRITICAL **: file pango-engine.c: line
>>> >> >> >> >> > 68
>>> >> >> >> >> > (_pango_engine_sh
>>> >> >> >> >> > ape_shape): assertion `PANGO_IS_FONT (font)' failed
>>> >> >> >> >> >
>>> >> >> >> >> >
>>> >> >> >> >> > I have try several method that I found searching from the
>>> >> >> >> >> > internet,
>>> >> >> >> >> > but
>>> >> >> >> >> > still I could not fix these problem.
>>> >> >> >> >>
>>> >> >> >> >> It's difficult for us to help without knowing the exact
>>> >> >> >> >> commands
>>> >> >> >> >> you
>>> >> >> >> >> tried that caused this error, and more information about your
>>> >> >> >> >> system
>>> >> >> >> >> (e.g., the output of the sessionInfo() function).
>>> >> >> >> >>
>>> >> >> >> >> Dan
>>> >> >> >> >>
>>> >> >> >> >>
>>> >> >> >> >> >
>>> >> >> >> >> >
>>> >> >> >> >> > Nurdiyanah Bt Hj Jambari
>>> >> >> >> >> > Student
>>> >> >> >> >> > Faculty of Engineering
>>> >> >> >> >> > Bachelor Engineering of Computer & Communication System
>>> >> >> >> >> > Engineering
>>> >> >> >> >> > University Putra Malaysia
>>> >> >> >> >
>>> >> >> >> >
>>> >> >> >> >
>>> >> >> >> >
>>> >> >> >> > --
>>> >> >> >> > Nurdiyanah Bt Hj Jambari
>>> >> >> >> > Student
>>> >> >> >> > Faculty of Engineering
>>> >> >> >> > Bachelor Engineering of Computer & Communication System
>>> >> >> >> > Engineering
>>> >> >> >> > University Putra Malaysia
>>> >> >> >
>>> >> >> >
>>> >> >> >
>>> >> >> >
>>> >> >> > --
>>> >> >> > Nurdiyanah Bt Hj Jambari
>>> >> >> > Student
>>> >> >> > Faculty of Engineering
>>> >> >> > Bachelor Engineering of Computer & Communication System
>>> >> >> > Engineering
>>> >> >> > University Putra Malaysia
>>> >> >>
>>> >> >
>>> >> >
>>> >> >
>>> >> > --
>>> >> > Nurdiyanah Bt Hj Jambari
>>> >> > Student
>>> >> > Faculty of Engineering
>>> >> > Bachelor Engineering of Computer & Communication System Engineering
>>> >> > University Putra Malaysia
>>> >> >
>>> >> >        [[alternative HTML version deleted]]
>>> >>
>>> >> >
>>> >> > _______________________________________________
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>>> >> > Bioconductor at r-project.org
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>>> >> > Search the archives:
>>> >> > http://news.gmane.org/gmane.science.biology.informatics.conductor
>>> >
>>> >
>>> >
>>> >
>>> > --
>>> > Nurdiyanah Bt Hj Jambari
>>> > Student
>>> > Faculty of Engineering
>>> > Bachelor Engineering of Computer & Communication System Engineering
>>> > University Putra Malaysia
>>> >
>>> >
>>> >
>>> > --
>>> > Nurdiyanah Bt Hj Jambari
>>> > Student
>>> > Faculty of Engineering
>>> > Bachelor Engineering of Computer & Communication System Engineering
>>> > University Putra Malaysia
>>
>>
>>
>>
>> --
>> Nurdiyanah Bt Hj Jambari
>> Student
>> Faculty of Engineering
>> Bachelor Engineering of Computer & Communication System Engineering
>> University Putra Malaysia
>
>
>
>
> --
> Nurdiyanah Bt Hj Jambari
> Student
> Faculty of Engineering
> Bachelor Engineering of Computer & Communication System Engineering
> University Putra Malaysia