some unix help..... Post: 302129162

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Top Forums UNIX for Dummies Questions & Answers some unix help..... Post 302129162 by cdfd123 on Sunday 29th of July 2007 08:31:00 AM

07-29-2007

Registered User

some unix help.....

thanks for posting..
but if u have one file like that
>gi|62859953|ref|NP_001017322.1| plexin B2 [Xenopus tropicalis]
MKEKERTKAITEIYLTRLLSVKGTLQQFVDNFFQSVLNSNQVVPPAVKYFFDFLDEQAEKYEIKDEDTVHIWKTNSLSLR
FWVNILKNPHFIFDVHVHQVVDASLSVIAQTFMDACSRTEHKLSRESPSNKLLYAKEISTYKKMVEDYYKGIRQMVQVSD
QDMNTHLAEISRAHTESLNTLVALHQLYQYTNKYYDEIINALEEDPAAQRMQLAYRLQQIAAALENKVTDL
>gi|62859377|ref|NP_001016112.1| O-sialoglycoprotein endopeptidase [Xenopus tropicalis]^Agi|111305744|gb|AAI21531.1| O-sialoglycoprotein endopeptidase [Xenopus tropicalis]
MTIVVGFEGSANKIGVGIIQDGKVLSNPRRTYITPPGQGFMPSDTARHHRSCILDVLQEALEEAKIKPQDVDCVAYTKGP
GMGAPLLSVAIVARTVAQLWKKPLLGVNHCIGHIEMGRLITGAENPSVLYVSGGNTQVIAYSERCYRIFGETIDIAVGNC
LDRFARVLKISNDPSPGYNIEQMAKKGKKFVELPYTVKGMDVSFSGILSYIEDMSHKMLSSGECTPEDLCFSLQETLFSM
LVEITERAMAHCGSQEVLIVGGVGCNVRLQEMMGVMCQERGAKLFATDERFCIDNGAMIAQAGWEMFRSGQVTNLQDSWI
TQRYRTDEVEVTWRD
continuing.....
As first file contains full list of all..........

and another 2nd file like that......
>gb|AAI30281.1| ABCA8 protein [Homo sapiens]
>ref|XP_001165971.1| PREDICTED: similar to KIAA0822 protein isoform 5 [Pan troglodytes]
>ref|XP_001082492.1| PREDICTED: similar to ATP-binding cassette, sub-family A member 8[Macaca mulatta]
>ref|XP_001165871.1| PREDICTED: similar to KIAA0822 protein isoform 2 [Pan troglodytes]
>ref|XP_001494133.1| PREDICTED: similar to ABCA8 protein [Equus caballus]
continuing.......

while taking second file to search for in the first file
u shud have a output like this
>gb|AAI30281.1| ABCA8 protein [Homo sapiens]
MRKRKISVCQQTWALLCKNFLKKWRMKRESLMEWLNSLLLLLCLYIYPHSHQVNDFSSLL
TMDLGRVDTFNESRFSVVYTPVTNTTQQIMNKVASTPFLAGKEVLGLPDEESIKEFTANY
PEEIVRVTFTNTYSYHLKFLLGHGMPAKKEHKDHTAHCYETNEDVYCEVSVFWKEGFVAL
QAAINAAIIEITTNHSVMEELMSVTGKNMKMHSFIGQSGVITDLYLFSCIISFSSFIYYA
SVNVTRERKRMKALMTMMGLRDSAFWLSWGLLYAGFIFIMALFLALVIRSTQFIILSGFM
VVFSLFLLYGLSLVALAFLMSILVKKSFLTGLVVFLLTVFWGCLGFTSLYRHLPASLEWI
LSLLSPFAFMLGMAQLLHLDYDLNSNAFPHPSDGSNLIVATNFMLAFDTCLYLALAIYFE
KILPNEYGHRRPPLFFLKSSFWSQTQKTDHVALEDEMDADPSFHDSFEQAPPEFQGKEAI
RIRNVTKEYKGKPDKIEALKDLVFDIYEGQITAILGHSGAGKSTLLNILSGLSVPTKGSV
TIYNNKLSEMADLENLSKLTGVCPQSNVQFDFLTVRENLRLFAKIKGILPQEVDKEIFLL
DEPTAGLDPFSRHQVWNLLKERKTDRVILFSTQFMDEADILADRKVFLSQGKLKCAGSSL
FLKKKWGIGYHLSLQLNEICVEENITSLVKQHIPDAKLSAKSEGKLIYTLPLERTNKFPE
>gi|114670186|ref|XP_001165971.1| PREDICTED: similar to KIAA0822 protein isoform 5 [Pan troglodytes]
MRKRKISVCQQTWALLCKNFLKKWRMKRESLMEWLNSLLLLLCLYIYPHSHQVNDFSSLLTMDLGRVDTFNESRFSVVYT
PVTNTTQQIMNKVASIPFLAGKEVLGLPDEESIKEFTANYPEEIVRVTFTNTYSYHLKFLLGHGMPAKKEHKDHTAHCYE
TNEDVYCEVSVFWKEGFVALQAAINAAIIEITTNHSVMEELMSVTGKNMKMHSFIGQSGVITDLYLFSCLISFSSFIYYA
SVNVTRERKRMKGLMTMMGLRDSAFWLSWGLLYAGFIFIMALFLALVIKSTQFIILSGFMVVFSLFLLYGLSLVALAFLM
SILVKKSFLTGLVVFLLTVFWGCLGFTSLYRHLPASLEWILSLLSPFAFMLGMAQLVHLDYDLNSNAFPHPSDGSNLIVA
>gi|109117480|ref|XP_001082492.1| PREDICTED: similar to ATP-binding cassette, sub-family A member 8 isoform 2 [Macaca mulatta]
MRKREISVCQQTWALLCKNFLKKWRMKRESLMEWLNSFLLLLCLYIYPHSHQVNDFSSLLTTDLGRVDTFNESRFSVAYT
PVTNTTQQIMNKVASAPFLAGKEVLGLPDEESIKEFTANYPEEIVRVIFTNTYSYQLKFLLGHEMPAKKEHKDHTAHCYE
TNEDVYCEVSVFWKEGFVALQAAINAAIIEITTNHSVMEELMSVTGKNMKMHSFIGQSGVITDLYLFSCIISFSPFIYYA
SVNVTRERKRMKGLMTMMGLRDSAFWLSWGLLYAGFIFIMALFLALVIKSTLFIILSGFMVVFSLFLLYGLSLIALAFLM
SILVKKSFLTGLVVFLLTVFWGSLGFTALYRYLPASLEWILSLLSPFAFMLGMAQLLHLDYDLNSNAFPHPLDGSNIIVA
TNFMLAFDTCLYLALAIYFEKILPNEYGHRRSPLFFLKSSFWSQTQKADHVALEDEMDADPSSHDSFEPVPPEFHGKEAI
RIRNVTKEYKGKPDKIEALKDLVFDIYEGQITAILGHSGAGKSTLLNILSGLSTPTKGSVTIYNNKLSEVADLENLSKLT

continue

Thanks if u understood and reply soon.....
............
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kitpost

KITSEND(1)						      General Commands Manual							KITSEND(1)

NAME

       kitpost - posts distribution kits

SYNOPSIS

       kitpost [ -hrV ] [ -H file ] [ -D desc ] [ -m dest1,dest2 ] [ kits ] [ newsgroups ]

DESCRIPTION

       Kitpost	posts  distribution kits made by makedist to some (source) newsgroups specified on the command line. If you do not specify any kit
       list, then all the kits are sent. Otherwise, only the specified kits will be (re)sent.

       A kit list may include ranges, 1-10 specifying kits 1 through 10, and 5- meaning kits 5 up to the last one. You may also specify  kit  num-
       bers by separating them with commas or spaces, and even mix with ranges, such as: 1 3 5-7 9.

       Kitpost ensures correct References: lines are inserted in your postings so that all parts but the first point to the root article. Threaded
       newsreaders and end-users traditionally appreciate that.

OPTIONS

       The following options are recognized by kitpost:

       -h	 Print help message and exit.

       -m dest1,destn
		 Sends kits by e-mail to the specified recipients. This option may be used in conjunction with newsgroup  posting.  It	is  mainly
		 intended  for	sites  where  direct  posting to a moderated newsgroup is not allowed by inews. You may thus send your kits to the
		 newsgroup moderator in a form that will ease the whole posting process.

       -r	 Signals a repost.

       -D description
		 Specify a description string that will be added to the subject line. Usually a brief sentence (less than, say, 40 characters).

       -H file	 Specify a file to be used as header introduction in the first part of your posting. Usually the root README file.

       -V	 Print version number and exit.

BUGS

       Article cross-referencing is properly set-up only when the whole package is (re)posted in one batch.

       It is not currently possible to set-up the article headers manually or better, interactively.

AUTHOR

       Raphael Manfredi <ram@hptnos02.grenoble.hp.com>

SEE ALSO

       makedist(1), kitsend(1).

									ram								KITSEND(1)