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Full Discussion: print lines AFTER lines cointaining a regexp (or print every first and fourth line)
Top Forums Shell Programming and Scripting print lines AFTER lines cointaining a regexp (or print every first and fourth line) Post 302435233 by kmkocot on Tuesday 6th of July 2010 09:34:25 PM
Old 07-06-2010
print lines AFTER lines cointaining a regexp (or print every first and fourth line)
Hi all,

This should be very easy but I can't figure it out...

I have a file that looks like this:
Code:
@SRR057408.1 FW8Y5CK02R652T length=34
AGCAGTGGTATCAACGCAGAGTAAGCAGTGGTAT
+SRR057408.1 FW8Y5CK02R652T length=34
FIIHFF6666?=:88@@@BBD:::?@ABBAAA>8
@SRR057408.2 FW8Y5CK02TBMHV length=52
CGTTGATACCACTGCTTACTCTGCGTTGATACCACTGCTTACTCTGCGTTGA
+SRR057408.2 FW8Y5CK02TBMHV length=52
FIIIIIFEDFCCEF<<<EFFFFGGGFFFFA:::AA@A<0004<889<422=7
@SRR057408.3 FW8Y5CK02R8Z08 length=72
CTCTGCGTTGATACCACTGCTTACTTCTGCGTTGATACCACTGCTTAACTCTGCGTTGGATACACTGCTTAC
+SRR057408.3 FW8Y5CK02R8Z08 length=72
FIIIIIIIIIIFFFFFDDFA:::D998@A??<844432125774----/158::85522443433=::91//
@SRR057408.4 FW8Y5CK02R76ED length=49
ATACCACTGCTTACTCTGCGTTGATACCACTGCTTACTCTGCGTTGATA
+SRR057408.4 FW8Y5CK02R76ED length=49
FIIIIIIIII@@@HIIIHFFFFHHFFFFFFFDDBBBBA=89444484//

I want to print every first and fourth line so that the output looks like this:
Code:
@SRR057408.1 FW8Y5CK02R652T length=34
FIIHFF6666?=:88@@@BBD:::?@ABBAAA>8
@SRR057408.2 FW8Y5CK02TBMHV length=52
FIIIIIFEDFCCEF<<<EFFFFGGGFFFFA:::AA@A<0004<889<422=7
@SRR057408.3 FW8Y5CK02R8Z08 length=72
FIIIIIIIIIIFFFFFDDFA:::D998@A??<844432125774----/158::85522443433=::91//
@SRR057408.4 FW8Y5CK02R76ED length=49
FIIIIIIIII@@@HIIIHFFFFHHFFFFFFFDDBBBBA=89444484//

No matter what I try along the lines of
Code:
sed -n '1,${p;n;n}'

, I can't get it to work. I'm sure there is an easy to specify the printing of every first and fourth line only but for future reference, how would I specify "print lines after lines beginning with a plus sign?"

Thanks,
Kevin

---------- Post updated at 08:34 PM ---------- Previous update was at 08:14 PM ----------

Well I finally figured this much out:
Code:
sed -n '1~4p;4~4p' demo.fastq

 

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LEARN ABOUT DEBIAN

castor_limits

LCG_LIMITS(4)							   File Formats 						     LCG_LIMITS(4)

NAME

       Castor_limits - LCG internal limits

SYNOPSIS

       #include <Castor_limits.h>

DESCRIPTION

       The Castor_limits.h header file contains all the common limits that all LCG subpackages have to respect.
       These are:

       CA_MAXACLENTRIES
	      maximum number of ACL entries for a file/dir
	      Default value: 300

       CA_MAXCLASNAMELEN
	      maximum length for a fileclass name
	      Default value: 15

       CA_MAXCOMMENTLEN
	      maximum length for user comments in metadata
	      Default value: 255

       CA_MAXDENFIELDS
	      maximum number of density values in devinfo
	      Default value: 8

       CA_MAXDENLEN
	      maximum length for a alphanumeric density
	      Default value: 8

       CA_MAXDGNLEN
	      maximum length for a device group name
	      Default value: 6

       CA_MAXDPMTOKENLEN
	      maximum length for a Disk Pool Manager token
	      Default value: 36

       CA_MAXDVNLEN
	      maximum length for a device name
	      Default value: 63

       CA_MAXDVTLEN
	      maximum length for a device type
	      Default value: 8

       CA_MAXFIDLEN
	      maximum length for a fid (DSN)
	      Default value: 17

       CA_MAXFSEQLEN
	      maximum length for a fseq string
	      Default value: 14

       CA_MAXGID
	      maximum value for gid
	      Default value: 0x7FFFFFFF

       CA_MAXGRPNAMELEN
	      maximum length for a group name
	      Default value: 2

       CA_MAXGUIDLEN
	      maximum length for a guid
	      Default value: 36

       CA_MAXHOSTNAMELEN
	      maximum length for a hostname
	      Default value: 63

       CA_MAXLBLTYPLEN
	      maximum length for a label type
	      Default value: 3

       CA_MAXLINELEN
	      maximum length for a line in a log
	      Default value: 1023

       CA_MAXMANUFLEN
	      maximum length for a cartridge manufacturer
	      Default value: 12

       CA_MAXMLLEN
	      maximum length for a cartridge media_letter
	      Default value: 1

       CA_MAXMODELLEN
	      maximum length for a cartridge model
	      Default value: 6

       CA_MAXNAMELEN
	      maximum length for a pathname component
	      Default value: 255

       CA_MAXNBDRIVES
	      maximum number of tape drives per server
	      Default value: 32

       CA_MAXPATHLEN
	      maximum length for a pathname
	      Default value: 1023

       CA_MAXPOLICYLEN
	      maximum length for a policy name
	      Default value: 15

       CA_MAXPOOLNAMELEN
	      maximum length for a pool name
	      Default value: 15

       CA_MAXPROTOLEN
	      maximum length for a protocol name
	      Default value: 7

       CA_MAXRBTNAMELEN
	      maximum length for a robot name
	      Default value: 17

       CA_MAXRECFMLEN
	      maximum length for a record format
	      Default value: 3

       CA_MAXREGEXPLEN
	      maximum length for a regular expression
	      Default value: 63

       CA_MAXSFNLEN
	      maximum length for a replica
	      Default value: 1103

       CA_MAXSHORTHOSTLEN
	      maximum length for a hostname without domain
	      Default value: 10

       CA_MAXSNLEN
	      maximum length for a cartridge serial nb
	      Default value: 24

       CA_MAXSTGRIDLEN
	      maximum length for a stager full request id
	      (must be >= nb digits in
	      CA_MAXSTGREQID + CA_MAXHOSTNAMELEN + 8)
	      Default value: 77

       CA_MAXSTGREQID
	      maximum value for a stager request id
	      Default value: 999999

       CA_MAXUID
	      maximum value for uid
	      Default value: 0x7FFFFFFF

       CA_MAXSYMLINKS
	      maximum number of symbolic links
	      Default value: 5

       CA_MAXTAGLEN
	      maximum length for a volume tag
	      Default value: 255

       CA_MAXTAPELIBLEN
	      maximum length for a tape library name
	      Default value: 8

       CA_MAXUNMLEN
	      maximum length for a drive name
	      Default value: 8

       CA_MAXUSRNAMELEN
	      maximum length for a login name
	      Default value: 14

       CA_MAXVIDLEN
	      maximum length for a VID
	      Default value: 6

       CA_MAXVSNLEN
	      maximum length for a VSN
	      Default value: 6

AUTHOR

       LCG Grid Deployment Team

LCG
							   $Date: 2007/02/03 11:16:45 $ 					     LCG_LIMITS(4)
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