I'm a newbie/rookie in Shell scipting. I've done oracle export of a table using Export utility. When I do export, it generates 2 files.
1> .dmp file
2> .dmp.log file.
In .dmp.log file I have to search for a sentence which goes like '0 records have been inserted' and then I've to check for 'Export terminated succesfully without warnings'.
For a single sentence I can do
Could you please help me how to find multiple sentences. I'm not sure if we could use compound statement here.
hi,
I have few text templates
as a simple ex:
template 1
city Name:
zip code:
state Name:
template2:
employee Name:
Phone number:
I wish to grep on given text file and make sure the text file matches one of these templates. Please give your ideas. (6 Replies)
Hi frnds
i want to desplay file names that should be word1 and word2
ex :
i have 10 *.log files
5 files having word1 and word2
5 files having only word1,
i have used below command
egrep -l 'word1|word2' *.log
its giving all 10 files, but i want to display only 5... (20 Replies)
Hi..
How to search for multiple words in a single line using grep?.
Eg: Jack and Jill went up the hill
Jack and Jill were best friends
Humpty and Dumpty were good friends too
----------
I want to extract the 2nd statement(assuming there are several statements with... (11 Replies)
Hi,
I will use below command for grep single string ("osuser" is search string)
ex: find . -type f | xarg grep -il osuser
but i have one more string "v$session"
here i want to grep in which file these two strings are present.
any help is appreciated,
Thanks in advance.
Gagan (2 Replies)
Hello.
From command line, the command zypper info nxclient
return a bloc of data :
linux local # zypper info nxclient
Loading repository data...
Reading installed packages...
Information for package nxclient:
Repository: zypper_local
Name: nxclient
Version: 3.5.0-7
Arch: x86_64... (7 Replies)
Hi,
I want to grep a file if any one (GH, IJ, KL) is not null. If it is null i dont want to pull anything.
cat file | awk '{print ($1)}'
Parameters are : AB=123;CD=456;EF=6789;
cat file | awk '{print ($2)}'
GH=456;IJ=789;KL=1011
eg:
Contents in file:
Parameters are :... (10 Replies)
Hi guys and gals,
I have many files that contains many lines of data. I am trying to find a needle in a haystack in that I'm looking only for files that contain word1 AND word2.
I'm using ...
...
but this is finding files that contains word1 OR word2. No good for me. How can I grep to... (7 Replies)
I need to grep multiple strings from a particular file.
I found the use of egrep "String1|String2|String3" file.txt | wc-l
Now what I'm really after is that I need to separate word count per each string found. I am trying to keep it to use the grep only 1 time.
Can you guys help ?
... (9 Replies)
I have multiple strings in a file which have special character $, when i search strings by ignoring $ with \ using single quotes it returns empty results.
My search strings are set char_1($lock) and set new_char_clear_3($unlock)
I tried searching with
but it returns empty results.However... (3 Replies)
Discussion started by: g_eashwar
3 Replies
LEARN ABOUT DEBIAN
bp_classify_hits_kingdom
BP_CLASSIFY_HITS_KINGDOM(1p) User Contributed Perl Documentation BP_CLASSIFY_HITS_KINGDOM(1p)NAME
classify_hits_kingdom - classify BLAST hits by taxonomic kingdom
USAGE
classify_hits_kingdom [-i tab_file] [-i second_BLAST_file] [-e evalue_cutoff]
[-t dir_where_TAXONOMY_files_are] [-g gi2taxid]
[-z PATH_TO_zcat] [-v]
DESCRIPTION
Will print out the taxonomic distribution (at the kingdom level) for a set of hits against the NR database. This script assumes you've
done a search against the protein database, you'll have to make minor changes in the gi_taxid part to point to the gi_taxid_nuc.dump file.
This expects BLAST files in tabbed -m9 or -m8 format. Output with -m 8 or use blast2table.pl to convert (or fastam9_to_table.PLS if using
FASTA).
Input values:
-t/--taxonomy directory where the taxonomy .dmp files are (from NCBI)
-g/--gi Location of gi_taxid_prot.dmp (or gi_taxid_nucl.dmp if
the search was against a NT db)
-i/--in The name of the tab delimited -m8/-m9 output files to
process.
-e/--evalue Provide an E-value cutoff for hits to be considered
-z/--zcat Path to the 'zcat' executable, can also be 'gunzip -c'
if no zcat on your system.
Flags
-v/--verbose To turn on verbose messages
-h/--help Display this helpful information
This is intended to be useful starting script, but users may want to customize the output and parameters. Note that I am summarizing the
kingdoms here and Eukaryota not falling into Metazoa, Viridiplantae, or Fungi gets grouped into the general superkingdom Eukaryota. for
simplicity. There are comments in the code directing you to where changes can be made if you wanted to display hits by phylum for example.
Note that you must wipe out the cache file 'gi2class' that is craeed in your directory after making these changes.
AUTHOR
Jason Stajich jason_at_bioperl_dot_org
perl v5.14.2 2012-03-02 BP_CLASSIFY_HITS_KINGDOM(1p)