I had posted this earlier about 3 weeks ago and had recieved a response and I did sort both the files and the comm command is still not working.
Can someone please assist me, I would really appreciate it.
Below is what I am trying to do
I need to compare File A with File B and create FILE C... (2 Replies)
Before i start doing something, I wanted to know whether the approach to compare XML file with UNIX file system structure. I have a pre-configured file(contains a list of paths to executables) and i need to check against the UNIX directory structure. what are the various approches should i use ? I... (6 Replies)
Hi,
I want to compare two | delimited files.Awk is not working in my unix box.So plz give alternate solutions.
Please see the below code:
file1=$1
file2=$2
num_of_records_file1=`awk ' END { print NR } ' $file1`
num_of_records_file2=`awk ' END { print NR } ' $file2`
i=1
while
do... (4 Replies)
Hi,
I have two files
File1 Contents:
abc
dcf
sdc
File2 Contents:
dcf
sdc
erg
Now my program should return the contents existing in File1 but not in File2. In this case output shoud be "abc" as abc is not available in File 2. It should not return "erg" by saying it is... (4 Replies)
I am working on an outage script and I run a command from the command line which tells me the amount of generator failures in my market. The output of this command only gives me three digits to identify the site by. I have a master list of all sites in a separate file, call it list.txt. If my... (7 Replies)
Shell script logic
Hi
I have 2 input files like with file 1 content as (file1)
"BRGTEST-242" a.txt "BRGTEST-240" a.txt "BRGTEST-219" e.txt
File 2 contents as fle(2)
"BRGTEST-244" a.txt "BRGTEST-244" b.txt "BRGTEST-231" c.txt "BRGTEST-231" d.txt "BRGTEST-221" e.txt
I want to get... (22 Replies)
Discussion started by: pottic
22 Replies
LEARN ABOUT DEBIAN
idfetch
IDFETCH(1) NCBI Tools User's Manual IDFETCH(1)NAME
idfetch - retrieve biological data from the NCBI ID1 server
SYNOPSIS
idfetch [-] [-F str] [-G filename] [-Q filename] [-c N] [-d str] [-e N] [-f str] [-g N] [-i N] [-l filename] [-n] [-o filename] [-q str]
[-s str] [-t N]
DESCRIPTION
idfetch is a client for NCBI's ID1 server, which contains a large database of annotated biological sequences.
OPTIONS
A summary of options is included below.
- Print usage message
-F str Add the specified feature types (comma-delimited); allowed values are CDD, SNP, SNP_graph, MGC, HPRD, STS, tRNA, and microRNA.
-G filename
File with list of GIs, (versioned) accessions, FASTA SeqIDs to dump
-Q filename
Generate GI list by Entrez query in filename; requires -dn or -dp.
-c N Max complexity:
0 get the whole blob (default)
1 get the bioseq of interest
2 get the minimal bioseq-set containing the bioseq of interest
3 get the minimal nuc-prot containing the bioseq of interest
4 get the minimal pub-set containing the bioseq of interest
-d str Database to use (with -q, can be either n for nucleotides or p for proteins).
-e N Entity number (retrieval number) to dump
-f str Flattened SeqId. Possible formats:
type([name][,[accession][,[release][,version]]]) as '5(HUMHBB)'
type=accession
type:number
(type is a number indicating the ASN.1 Seq-id subtype.)
-g N GI id for single Entity to dump
-i N Type of lookup:
0 get Seq-entry (default)
1 get GI state (output to stderr)
2 get SeqIds
3 get GI history (sequence change only)
4 get revision history (any change to ASN.1)
-l filename
Log file
-n Output only the list of GIs (with -q and -Q).
-o filename
Filename for output (default = stdout)
-q str Generate gi list by Entrez query. Requires -dn or -dp.
-s str FASTA style SeqId ENCLOSED IN QUOTES. Formats:
lcl|int or str
bbs|int
bbm|int
gb|acc|loc
emb|acc|loc
pir|acc|name
sp|acc|name
pat|country|patent|seq
gi|int
dbj|acc|loc
prf|acc|name
pdb|entry|chain
-t N Output type:
1 text ASN.1 (default)
2 binary ASN.1
3 GenBank (Seq-entry only)
4 GenPept (Seq-entry only)
5 FASTA (table for history)
6 quality scores (Seq-entry only)
7 Entrez DocSums
8 FASTA reverse complement
AUTHOR
The National Center for Biotechnology Information.
NCBI 2011-09-02 IDFETCH(1)