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From: Emil on 27 Jul 2010 06:51
A beautiful solution, thanks
From: Priyanka Choudhary on 27 Jul 2010 12:36
Walter Roberson <roberson(a)hushmail.com> wrote in message <i2ktsd$ij6$2(a)canopus.cc.umanitoba.ca>...
> Priyanka Choudhary wrote:
> > Hello,
> > I'm using MAT-LAB programming for my project work, and for the same I
> > have to read columns of the various sequences simultaneously in a single
> > array. For that I used the 'fastaread' function and I got my sequences
> > in a matrix as cell array like this
> >
> > Seq=[4x1 char]
> >
> > And when I'm reading this using 'for' loop I'm getting values like this,
> >
> > S=[1x439 char]
> > [1x404 char]
> > [1x404 char]
> > [1x343 char]
> >
> > But instead I want the columns of the sequences used, as like
> > s1=M
> > P
> > I
> > L
> >
> > As, I want to use only the columns for my further calculations.
> > So, Please if anyone can look into my problem.
>
>
> What should happen past 343 when data does not exist for all 4 rows ?
>
> The following uses blanks where the row data does not exist:
>
> newS = char(S);
>
> after which newS(:,K) would be the K'th column

Thanks a lot... I did'nt new I was doing such a silly mistake. It worked very easily.

After that I had a new problem with another syntax used with 'for' loop, which is

for i=1:1:num
if i==1
A_initial=[ones(1,num_act) zeros(1,num_act*(num-i))]

elseif i>1 & i~=num
A_initial=[A_initial;zeros(1,num_act*(i-1)) ones(1,num_act) zeros(1,num_act*(num-i))]

elseif i==num
A_initial=[zeros(1,num_act*(i-1)) ones(1,num_act)]
end
end

In this loop everything is running fine except the first 'elseif' statement.
Need a help...!
Thanks...
From: Jan Simon on 27 Jul 2010 18:01
Dear Priyanka,

> elseif i>1 & i~=num

> In this loop everything is running fine except the first 'elseif' statement.
> Need a help...!

Then do us the favor and specify the problems with this line. Any error messages? Unexpected results? An MLint warning about using &&?

Kind regards, Jan
From: Priyanka Choudhary on 28 Jul 2010 01:13
"Jan Simon" <matlab.THIS_YEAR(a)nMINUSsimon.de> wrote in message <i2nkv0$94g$1(a)fred.mathworks.com>...
> Dear Priyanka,
>
> > elseif i>1 & i~=num
>
> > In this loop everything is running fine except the first 'elseif' statement.
> > Need a help...!
>
> Then do us the favor and specify the problems with this line. Any error messages? Unexpected results? An MLint warning about using &&?
>
> Kind regards, Jan

Hello Jan

Thanks for looking into my problem.

For that statement first the error generated was "not a proper CAT argument"and "dimensions mismatch" but now the loop is not ending, going for infinite iterations and one more thing is that in the statement

A_initial=[A_initial;zeros(1,num_act*(i-1)) ones(1,num_act) zeros(1,num_act*(num-i))]

First "A_initial" is shown as an error by having a zigzag underline.

And when I'm running the same loop for a smaller value then the A_initial matrix for that 'elseif' statement is giving results of only the last iteration, not the whole loop.

Please see, if U can help...!

Thanks a lot again...!
From: Jan Simon on 28 Jul 2010 16:08
Dear Priyanka,

> For that statement first the error generated was "not a proper CAT argument"and "dimensions mismatch" but now the loop is not ending, going for infinite iterations and one more thing is that in the statement
> A_initial=[A_initial;zeros(1,num_act*(i-1)) ones(1,num_act) zeros(1,num_act*(num-i))]

The loop is going through infinite, although it is control by "for i = 1:num" ?! No, i is not going to infinite. It stops regularly at num. It is just really slow, because you let the variable A_initial grow in each loop. This *must* be slow. Please search the docs and this newsgroup for the term "preallocation".

> First "A_initial" is shown as an error by having a zigzag underline.

Even Matlab tries to tell you, that this is slow: please move the mouse to the underlined term and read the tooltip.

> And when I'm running the same loop for a smaller value then the A_initial matrix for that 'elseif' statement is giving results of only the last iteration, not the whole loop.

Not surprising, because you overwrite A_initial in the last iteration.
So at first take a look on how to solve this with y loop:
A_initial = zeros(num, num_act * num); % Allocate at once!!!
for i = 1:num
a = num_act * (i -1) + 1;
b = a + num_act - 1;
A_initial(i, a:b) = 1;
end
There is no need check for the first or last iteration at all. Even your original code runs find without it. "zeros(1,num_act*(i-1))" replies an empty matrix for i==1, so there is no need to catch this explicitely.

Jan
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