I am using awk as part of and if then else statement. I am trying to have the user enter a gene name and then a variant or variants and have a specific transcript assigned to the variants depending on the gene. Below is my code but the if then else statement is wrong. Basically, the gene name would be the condition that assigns a particular transcript to a variant.
The desired output would be, if the user enters GJB2 as the gene name and then c.283G>A for the variant there is a statement for that condition that saves a file with NM_004004.5:c.283G>A . However if MECP2 is entered as the gene name and c.48delC,c.255G>T are entered as the variants, the a file is saved:
Hi Friends
How do I do two things from one if statement inside awk? I want to run a script and create a new file from the same condition.
awk '{ if ($2 == ""){print " "|"cd /local/test; ./script.ksh"}{cat > ran_true.txt}}' $IN_FILE
Bolded are the two things I want to be done.
Thanks (1 Reply)
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03/23/2010 12:47:51
ga2828
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