[BioC] unable to readImage using EBImage package

[Dan Tenenbaum]

Please CC the bioconductor list. Also, please read the posting guide,
and provide the output of the sessionInfo() function.

See below.

On Sat, Mar 3, 2012 at 1:04 AM, Nurdiyanah Jambari <yanadj28 at gmail.com> wrote:
> I've correct the spelling, but I still receive the same warning message. Can
> you help me.
>
>
> On Sat, Mar 3, 2012 at 3:58 PM, Dan Tenenbaum <dtenenba at fhcrc.org> wrote:
>>
>>
>> On Mar 2, 2012 11:25 PM, "diyanah [guest]" <guest at bioconductor.org> wrote:
>> >
>> >
>> > Hi, I'm Diyanah.
>> > Currently I've been working on my final year project (Offline Signature
>> > Verification System). I'm required to use R programming and I've found that
>> > EBImage going well with R in image processing. I've successfully install R
>> > and EBImage package (along with ImageMagick and GTK). The thing is, when I
>> > try the command that I get from the "Introduction to EBImage" manual, I
>> > receive error/warning message. I hope you may help me solving these problem.
>> >
>> >
>> > I have already change the directory to where the image is placed, and I
>> > have confirmed it by calling a .txt file and it is a success, but when I try
>> > for the image, I received these:
>> >
>> >  -- output of sessionInfo():
>> >
>> > > f =system.file("Images","user186g1.tif", pakage="EBImage")
>>
>> You spelled 'package' wrong.

I'm not sure what version of R or EBImage you are using, but in the
current release version of EBImage, there is no file "user186g1.tif"
anywhere in the package. What the above command does is look inside
the installed package for a file. Perhaps you want to manipulate a
file you have created? If so, you don't want to use system.file() but
instead point to the directory where you created the file.
Sounds like you are already in the right directory, so what happens if
you just do this:

 f =system.file("user186g1.tif")
user186g1 = readImage (f)

?

>>
>> > > user186g1 = readImage (f)
>> > Warning message:
>> > In readImage(f) : requested image not found or could not be loaded
>> >
>> >
>> > I try calling the directory by the using the PATH (I'm not sure whether
>> > the command is correct):
>> >
>> >
>> > > f =system.file("D:\\FYP ~\\image","user186g1.tif", pakage="EBImage")
>>

This is now how you set or get the PATH environment variable. In any
case that is not what you want to do, I think; use

getwd()
to find out what directory you are in.
and
setwd()
to change directories.

Dan


>> Misspelled 'package' again.
>> Dan
>>
>> > > user186g1 = readImage(f)
>> > Warning message:
>> > In readImage(f) : requested image not found or could not be loaded
>> >
>> > --
>> > Sent via the guest posting facility at bioconductor.org.
>> >
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>
>
>
>
> --
> Nurdiyanah Bt Hj Jambari
> Student
> Faculty of Engineering
> Bachelor Engineering of Computer & Communication System Engineering
> University Putra Malaysia