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dear wisecracker,

as said, i have awk experience but i have problems in programming logic for my problem.

one very rude solution would probably be (and i will try to program it now):
...

dear Akshay,

to be honest - not too much. as said - i am a littlebit lost...

i don't want that other people think for me, but that people with similar problems share their thoughts and...

hello,

I'm a littlebit lost...

i have a table of single names and combination of two names and i want a table of ALL single names with ALL combinations (also the indirect ones).

- - - in...

Scutinizers work's nearly perfect. only the ">" is missing on all renamed headers.

as i don't understand the solution at all, i can't add it!

what means the 1 at the end - to print it?

...

i have two files,
one looks like this (file1):
novelMiR_892 novelMiR_891,
novelMiR_852
novelMiR_893
novelMiR_1661
novelMiR_854
novelMiR_1210
novelMiR_1251 ...

@alister: works, but not very elegant

@tukuyomi, rdrtx1: n can be >>> 4
i need the first two (1,2) and the last two (n-1,n)...

@rudiC:
elegant, modulo! the order is no problem

@Subbeh:...

hello,

a fast question:

how can i loop over four numbers in awk like in bash:

n ist a number >3

n=4
for i in 1 2 $((n-1)) $n
do .. donei tried:

awk: for (i in 1 2 n-1 n)
with all...

thanks again,

i searched a little bit and found the asorti function from gawk...

i only have to sort the array F and loop over this sorted array:

n = asort(F, G)


gawk '
BEGIN {...

I always forget, you take the input too literally. ;-)

of course is my real table much, much larger and has not only A,B,C,D.

some things i do not understand:
what means print x,h (x is not...

dear awk gurus,

i would need a fast (therefore) awk solution for the reformation of an uncomplete weighted adjacency list to a complete sorted adjacency matrix.

example (FS=OFS=,):
...

@Scrutinizer
OS: Scientific Linux 6.3 (= Red Hat Enterprise Linux 6.3)
shell: GNU bash, version 4.1.2(1)-release (x86_64-redhat-linux-gnu)


@DGPicket
do you mean that htseq knows that - is a...

i have tried process substitution, but run in some problems.

this works:

samtools view -h $SAMdir/$b.bam | htseq-count -m union -s no -q -t exon -i gene_id - $gtf > $b.count &


but this...

thank you jim,

i will use your solution...



that's too complicated for me...

dietmar

given an array of filenames files=(*) how can i loop over these in batches of four, or even better, work always with four files simultaneously.

i want do something with these files, always four...

@Don Cragun and @RudiC

The task is solved, my downstream application works and I have learned a lot about programing awk...

thank you!

dietmar

dear don cragun,

i use the table for another program, therefore i don't need a pretty print. I need tab's.

and there i found another little problem,
after each line there seems to be a tab,...

RudiC,

thank you - now it works perfect.

what newline does in awk is new for me...

names are of any length
output shoul be tab delimited
there are up to millions names
(I should have clarified this)

I think RudiC's script is nearly perfect. Only the space delimite has to be...

hello,

i would need a fast awk script for conversion of network formats (from 'sif' to 'adjacency' format):

sif (pp means only: protein-protein interaction):
A pp B
A pp C
B pp D
D pp E
...

I do not understand you approach completely, but the while loop is run every new value from file2 (?), and as I have hundreds of millions of values, this approach has to be slower than the array...

thank you both, but now i run into some other problems:

firstly one question, user8:
'NR==FNR{p[$1]=$2;next}
eats the first file and proceeds after this with the second one?

my problem: i...

hello,

i have a complex awk problem...

i have two tables, one with a value (0 to 1) and it's corresponding p-value, like this:

1. table:
______________________________
value p-value...