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Using key words or symbols to determine parser
03-18-2015
awk 'FNR==1 {next} match($1,/\.[0-9]+del[ACGT]+/) {print "del: ", FILENAME, substr($1, RSTART+RLENGTH-1)} /\.[0-9]+[ACGT]+>[ACGT]+/ {print ">: ",FILENAME}' DEL_position.txt[34]>: file3 del: file4 G
03-18-2015
awk 'FNR==1 {next} match($1,/\.[0-9]+del[ACGT]+/) {print "del: ", "DEL_position.txt", substr($1, RSTART+RLENGTH-1)} /\.[0-9]+[ACGT]+>[ACGT]+/ {print ">: ","DEL_position.txt"}' "DEL_position.txt">: "DEL_position.txt" del: "DEL_parse.txt" G
awk: cmd. line:1: fatal: cannot open file `del:' for reading (No such file or directory).
03-18-2015
awk 'FNR==1 {next} match($1,/\.[0-9]+del[ACGT]+/) {print "del: ", "DEL_position.txt", substr($1, RSTART+RLENGTH-1)} /\.[0-9]+[ACGT]+>[ACGT]+/ {print ">: ","DEL_position.txt"}' "DEL_position.txt">: "DEL_position.txt" del: "DEL_parse.txt" G
awk: cmd. line:1: fatal: cannot open file `del:' for reading (No such file or directory).
03-19-2015
awk 'FNR==1 {next} # skip header
match($1,/\.[0-9]+del[ACGT]+/) {print "del: ", # find the "del" substring in the last part of $1
FILENAME, substr($1, RSTART+RLENGTH-1)}# correct: use FILENAME here to show which file "del" was in.
/\.[0-9]+[ACGT]+>[ACGT]+/ {print ">: ",FILENAME} # correct: use FILENAME here to show which file ">" was in.
' DEL_position.txt[34]>: file3 del: file4 G # supply ONLY filenames and variable definitions in the form OFS="|"
# ^ wrong! On top: Does file4 exist?
# ^^^^ wrong! On top: Does file3 exist?
# ^^ wrong! On top: Do DEL_position3 and ...4 exist?|
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