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NR==FNR trick for joining columns from two files

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# 8  
Old 10-11-2011
Quote:
Originally Posted by genehunter
...from foo.txt into a new output that has the bar.txt intact
What do you mean ?


1) Do you want only the foo entries who has there rs# in bar ?

2) Do you want only the foo entries who has there [0-9]##### in bar ?

3) Do you want the foo entries who has their rs# AND their [0-9]##### in bar ?

4) What if an entry is in bar but not in foo and all the replacement in foo has already been done, should they still be displayed or not ?

5) Are rs# uniq in foo ? in bar ?

6) Are [0-9]##### uniq in foo ? in bar ?

7) Or should only the pair rs# [0-9]##### be considered as primary key (uniq) ?
# 9  
Old 10-11-2011
Quote:
Originally Posted by ctsgnb
What do you mean ?


1) Do you want only the foo entries who has there rs# in bar ?
YES. Yes, this being the prime concern.

2) Do you want only the foo entries who has there [0-9]##### in bar ?
Want foo entries that match the [0-9]#### in bar.

3) Do you want the foo entries who has their rs# AND their [0-9]##### in bar ?
This is the perfect solution.

4) What if an entry is in bar but not in foo and all the replacement in foo has already been done, should they still be displayed or not ?
No entries that are unique to bar need be written to output. foobar should be displayed as only foo original entries with the columns with bar entries being blank.
e.g. :
Code:
1       rs6603791       0       1490804 G       A

5) Are rs# uniq in foo ? in bar ?
rs# are unique in foo and bar

6) Are [0-9]##### uniq in foo ? in bar ?
These are not unique in foo or bar. They are unique in foo when combined with col1.

7) Or should only the pair rs# [0-9]##### be considered as primary key (uniq) ?
yes, that is the preferred way to treat these as primary key.
Please, if you can explain your solution, deeply obliged!
Thanks
~GH
# 10  
Old 10-12-2011
Quote:
Originally Posted by genehunter
The example is a few lines from the real data, so should have worked fine. Can you redo your solution to find the rs### column as the index to find the correspondng rs# from the other file and write the corresponding column?
Code:
awk 'NR==FNR{x=$1;sub($1,y);a[x]=$0;next}a[$2]{$0=$0 a[$2]}1' OFS=\\t  bar.txt foo.txt

# 11  
Old 10-12-2011
Sorry but few adding question :

Which foo entry does NOT need to be displayed :

1. Any foo entry that has his rs# NOT in bar ?
2. Any foo entry that has his [0-9]# NOT in bar ?
3. Any foo entry that has his rs# OR his [0-9]# NOT in bar ?
4. Any foo entry that has his rs# AND his [0-9]# NOT in bar ?

Thanks in advance

If you want the case number 4. here you go :
Code:
nawk 'NR==FNR{i=$1$2;sub($1,z);a[i]=$0;next}(($2$4) in a){print $0 a[$2$4]}' bar.txt foo.txt

Last edited by ctsgnb; 10-12-2011 at 08:35 AM..
This User Gave Thanks to ctsgnb For This Post:
genehunter
# 12  
Old 10-13-2011
Quote:
Originally Posted by ctsgnb
Sorry but few adding question :

Which foo entry does NOT need to be displayed :

1. Any foo entry that has his rs# NOT in bar ?
Unsure, Very unlikely. How to test this?

2. Any foo entry that has his [0-9]# NOT in bar ?
Unsure, Very unlikely. How to test this?

3. Any foo entry that has his rs# OR his [0-9]# NOT in bar ?
Unsure, Very unlikely. How to test this?

4. Any foo entry that has his rs# AND his [0-9]# NOT in bar ?
Unsure, Very unlikely. How to test this?

Thanks in advance

If you want the case number 4. here you go :
Code:
nawk 'NR==FNR{i=$1$2;sub($1,z);a[i]=$0;next}(($2$4) in a){print $0 a[$2$4]}' bar.txt foo.txt

# 13  
Old 10-14-2011
Code:
Unsure, Very unlikely. How to test this?

If you are unsure about what you expect, i am afraid i can't help much.
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