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this is what i made:

#!/usr/bin/perl -w

#creates a hash and reads in all files in a given directory.
# all files are then read once, inserted into hash and file is closed
#this script will...

how many spaces are you talking about?
you can use any one of the methods above.

I would try this:

sed 's/ / /' filename

in addition, read through sed manual

man sed
they...

as the mouse begin to turn in my head, i'm thinking of using a hash in perl. i'll just dump in the key/value for each row and each file...then just print it out the way i want ;)...

Anni, as much as I respect what you are trying to do for me, I feel like I'm in a hole with a tiny lit match stick just about to burn out ;). But I'll keep at it :P. I can't promise you I'll have...

sed 's/,/\t/g' filename


see if that helps.

I"m not as good as some of the guys here but try this

sed 's/-/\//' filename > newfile

Thanks Anni,

I came across this code
awk -v OFS='\t' 'NR == FNR {
_[$1] = $2
next
}
$1 in _ {
$(NF+1) = _[$1]
}
1' 1.txt 2.txt > 3.txt

But two problems with this.
how can I...

I just tried that, and I forgot to mention that I would like the output to be tab deliminated.

Thank you for the reply but if I do it that way, it would only join 2 files, how can i do it for all 70 files in one directory?

Hi,
I have a list of 70 files in a directory and I need to merge the content of each file into one big matrix file (71 columns x 3060 rows).

Each file has the following format only two columns...

Hi,

I'm working hard on SQL and I came across a hurdle I'm hoping you can help me out with.

I have two tables

table1
headers: chrom start end name score strand

11 9720685 9720721 U0 ...

Hi,

I have a table in my sqlite, here is an example (tab separated)

585 name1 chr1 + 1872 3533 3533 3533 6 1872,2041,2475,2837,3083,3315, ...

Hi,

so I left the C code as is and tested it among one of my two big files. But when I ran it after running the shell, I got no results.

Here are the two files attached.

I hope to know if...

Thanks,

when i ran the 'wc -l' for both files, I got 35 and 4 respectfully.

Then I ran the script.

./overlap filea 35 fileb 4

And I got an unexpected result:


I would think that it...

Hi jim mcnamara,
so i spent some time with the code and i keep getting an error in my results.txt file



I'm using the exact same file i originally posted. Any ideas?

Thanks cfajohnson. it works. can you explain to me how the parameters work here?

Hi gang.

I'm using a unix/mac system and i'm trying to sort a file (more than 1,000,000 lines).


chr1 100000965 100001001 -
chr1 100002155 100002191 +
chr1 ...

ignore my question, i read your statement at the bottom. well looks like i have to learn a new language ;) thank you again for all the help. much appreciate!

wow thank you so much everyone for the help. i'm not very familiar with C and so I don't know how to read through it. does the first shell file you made does the same work?

that was fun, thanks Jean-Pierre!

I was working on the perl by avronius and when using file1 with 4000 lines and file2 with 276,000 lines, it seems to be running on overdrive. the log file is...

thanks for sorting it out for me :).

i'm getting this error


any idea why ?

hehe me too :). but where are you referring to?
while (@fileA) #open the file
{
chomp;
@lineFile1Array = split (/\t/,@_); #split the line into temporary array elements
@tempStart =...

Thank you for this and i've been working on it since you posted it. however, i get compilation errors which i tried to correct but can't seem to get pass this:

yes that makes sense, if I know how many lines I start with and then infer the yes or nos, then I can simply do a subtraction and get the answers for both.

thanks for the tip. i'm still not sure how to organize the script to test it :(.