[Insight-users] use of std::vector with ITK typedefs

[Arvind Rao]

Hi Matt,

After some investigation I've learned that my error was purely a result of
how I handle the file stream, within the ReadStreamFile(...)
function. And now I'm working on properly parsing the input file.

Thanks so much for taking my question.

Best wishes,
Arvind


On Thu, Apr 5, 2012 at 9:53 AM, Arvind Rao <arvind.sbia at gmail.com> wrote:

> Hi Matt,
>
> My apologizes. For brevity and debugging I removed the portion of code
> which fills points. The full code for *ReadStreamFle* is below.
>
> template< typename TPixelType>
> void ReadStreamFile( std::string filename, std::vector<TPixelType> &points
> )
> {
>    TPixelType dir;
>    int num;
>    std::vector<float> vec;
>
>    std::ifstream indata( filename.c_str() ); // opens the file
>    if(!indata) { // file couldn't be opened
>       cerr << "Error: file could not be opened" << endl;
>       exit(1);
>    }
>
>    indata >> num;
>    while ( !indata.eof() )
>    { // keep reading until end-of-file
>       vec.push_back( num );
>       indata >> num;
>    }
>    indata.close();
>    std::cout << vec.size() << "\n";
>
>    for(int j=0; j < int(vec.size()); j=+3)
>    {
>       dir[0] = vec[j];
>       dir[1] = vec[j+1];
>       dir[2] = vec[j+2];
>       points.push_back( dir );
>    }
> }
>
> Best,
> Arvind
>
> On Thu, Apr 5, 2012 at 12:59 AM, Matt McCormick <
> matt.mccormick at kitware.com> wrote:
>
>> Hi Arvind,
>>
>> That cannot be all of the function because "points" is not used inside.
>>
>> Matt
>>
>> On Thu, Apr 5, 2012 at 12:34 AM, Arvind Rao <arvind.sbia at gmail.com>
>> wrote:
>> > Hi Matt,
>> >
>> > Thanks for replying. ReadStreamFile(...) is defined below.
>> The "bad_alloc>
>> > caught: St9bad_alloc" error seems to originate from this function. For
>> > clarity, TPixelType = itk::Vector<float, 3>
>> >
>> > template< typename TPixelType>
>> > void ReadStreamFile( std::string filename, std::vector<TPixelType>
>> &points )
>> > {
>> >    TPixelType dir;
>> >    int num;
>> >    std::vector<float> vec;
>> >    std::ifstream indata( filename.c_str() ); // opens the file
>> >
>> >    indata >> num;
>> >    while ( !indata.eof() )  { // keep reading until end-of-file
>> >       vec.push_back( num );
>> >       indata >> num;}
>> >    indata.close();
>> > }
>> >
>> > Best,
>> > Arvind
>> >
>> > On Wed, Apr 4, 2012 at 10:53 PM, Matt McCormick <
>> matt.mccormick at kitware.com>
>> > wrote:
>> >>
>> >> Hi Arvind,
>> >>
>> >> It looks like the error is happening inside ReadStreamFile, so please
>> >> post how that is declared and defined.
>> >>
>> >> Thanks,
>> >> Matt
>> >>
>> >> On Wed, Apr 4, 2012 at 8:57 PM, Arvind Rao <arvind.sbia at gmail.com>
>> wrote:
>> >> > Hi all,
>> >> >
>> >> > In order to read-in a variable number of points from a file I want to
>> >> > use a
>> >> > dynamically sized container like STD::VECTOR. The points are stored
>> like
>> >> > so:
>> >> > ( points is the vector I use )
>> >> >
>> >> >       typedef itk::Image< itk::Vector<ComponentType, Dimension>,
>> >> > Dimension>
>> >> >                                 PeakImageType;
>> >> >       typedef PeakImageType::PixelType
>> >> >                                                        DirectionType;
>> >> >       std::vector<DirectionType>
>> >> >                                                                points
>> >> >
>> >> > However, the following try-catch statement gives, at
>> >> > run-time, "bad_alloc
>> >> > caught: St9bad_alloc"
>> >> >
>> >> >       try
>> >> >       {
>> >> >                 std::vector<DirectionType> points;
>> >> >                 ReadStreamFile<DirectionType>( streamArg.getValue(),
>> >> > points
>> >> > );
>> >> >       }
>> >> >      catch (std::bad_alloc& ba)
>> >> >       {
>> >> >                 std::cerr << "bad_alloc caught: " << ba.what() <<
>> >> > std::endl;
>> >> >                 return 0;
>> >> >       }
>> >> >
>> >> > So, what is going on? Its seems like POINTS is not being allocated
>> >> > properly,
>> >> > but I'm sure how to fix this.
>> >> >
>> >> > Thanks for any help you can provide.
>> >> >
>> >> >
>> >> > --
>> >> > Arvind S. Rao, PhD
>> >> > Section of Biomedical Image Analysis
>> >> > Department of Radiology
>> >> > University of Pennsylvania
>> >> > 3600 Market Street, Suite 380
>> >> > Philadelphia, PA 19104
>> >> >
>> >> >
>> >> >
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>> >> >
>> >
>> >
>> >
>> >
>> > --
>> > Arvind S. Rao, PhD
>> > Section of Biomedical Image Analysis
>> > Department of Radiology
>> > University of Pennsylvania
>> > 3600 Market Street, Suite 380
>> > Philadelphia, PA 19104
>> > tel: (267) 283-8959
>> >
>>
>
>
>
> --
> *Arvind S. Rao, PhD*
> Section of Biomedical Image Analysis
> Department of Radiology
> University of Pennsylvania
> 3600 Market Street, Suite 380
> Philadelphia, PA 19104
> tel: (267) 283-8959
>
>


-- 
*Arvind S. Rao, PhD*
Section of Biomedical Image Analysis
Department of Radiology
University of Pennsylvania
3600 Market Street, Suite 380
Philadelphia, PA 19104
tel: (267) 283-8959
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