That does not remove the line from the file, is streams the file to stdout with the first line removed. It would need to be redirected into a temporary file and moved back to replace the original file.
Not always - it depends on which version of sed you're using.... GNU sed supports the -i option to edit files in place (a backup extension can also be supplied much like perls -i option).
Hi All,
I get a flat file with its last field data splitting onto a new line.I got this program from Vgersh which when run would cancatenate the split data back to the end of the previous records.But this program fails when it encounters a page break between the split data and the previous... (5 Replies)
I have a flat file that contains records similar to the following two lines;
1984/11/08 7 700000 123456789 2
1984/11/08 1941/05/19 7 700000 123456789 2
The 123456789 2 represents an account number, this is how I identify the duplicate record.
The ### signs represent... (4 Replies)
Hi,
I have more than 30,000 records in a flat file. I want to remove footer from the file by searching a string pattern for the footer.
Example.... let the flat file test.dat contains below records.
record1
record2
record3
..
..
..
record31000
Total records 31000
I want to remove the... (6 Replies)
HI,
can any one help me please ..
i have flat file like
qwer123rt ass3242ccf jjk654
kjh838ppp nhdg453ok hdkk34
i want remove numeric characters in the flat file
i want output like this
qwerrt assccf jjk
kjhppp nhdgok hdkk
help me... (4 Replies)
I have to export data from table into flat file with | delimited. In the ksh file, I am adding below to do this activity.
$DBSTRING contains the sqlplus command and $SQL_STRING contains the SQL query. File is created properly with the data as per SQL command. I am getting white spaces in the... (1 Reply)
Hi,
Is there a way to find out the line number from where the data starts?
like if the data contains column header, irrespective of the text in the column header we should get the line number from which contains the column header.
I am sorry if I haven't explained the problem clearly.
... (8 Replies)
Hi all,
I have a issues while loading a flat file to the DB. It is taking much time.
When analyzed i found out that there are duplicates entry in the flat file.
There are 2 type of Duplicate entry.
1) is entire row is duplicate. ( i can use sort | uniq) to remove the duplicated entry.
2) the... (4 Replies)
We have a flat file with below data :
^@^@^@^@00000305^@^@^@^@^@^@430^@430^@^@^@^@^@^@^@^@^@09079989530As we can see ^@ is Null character in this file
I want to remove only the first few null characters before string 00000305
How can we do that, any idea. I want a new file without first few... (5 Replies)
Discussion started by: simpltyansh
5 Replies
LEARN ABOUT DEBIAN
readseq
READSEQ(1) General Commands Manual READSEQ(1)NAME
readseq - Reads and writes nucleic/protein sequences in various formats
SYNOPSIS
readseq [-options] in.seq > out.seq
DESCRIPTION
This manual page documents briefly the readseq command. This manual page was written for the Debian GNU/Linux distribution because the
original program does not have a manual page. Instead, it has documentation in text form, see below.
readseq reads and writes biosequences (nucleic/protein) in various formats. Data files may have multiple sequences. readseq is particu-
larly useful as it automatically detects many sequence formats, and interconverts among them.
FORMATS
Formats which readseq currently understands:
* IG/Stanford, used by Intelligenetics and others
* GenBank/GB, genbank flatfile format
* NBRF format
* EMBL, EMBL flatfile format
* GCG, single sequence format of GCG software
* DNAStrider, for common Mac program
* Fitch format, limited use
* Pearson/Fasta, a common format used by Fasta programs and others
* Zuker format, limited use. Input only.
* Olsen, format printed by Olsen VMS sequence editor. Input only.
* Phylip3.2, sequential format for Phylip programs
* Phylip, interleaved format for Phylip programs (v3.3, v3.4)
* Plain/Raw, sequence data only (no name, document, numbering)
+ MSF multi sequence format used by GCG software
+ PAUP's multiple sequence (NEXUS) format
+ PIR/CODATA format used by PIR
+ ASN.1 format used by NCBI
+ Pretty print with various options for nice looking output. Output only.
+ LinAll format, limited use (LinAll and ConStruct programs)
+ Vienna format used by ViennaRNA programs
See the included "Formats" file for detail on file formats.
OPTIONS -help Show summary of options.
-a[ll] Select All sequences
-c[aselower]
Change to lower case
-C[ASEUPPER]
Change to UPPER CASE
-degap[=-]
Remove gap symbols
-i[tem=2,3,4]
Select Item number(s) from several
-l[ist]
List sequences only
-o[utput=]out.seq
Redirect Output
-p[ipe]
Pipe (command line, <stdin, >stdout)
-r[everse]
Change to Reverse-complement
-v[erbose]
Verbose progress
-f[ormat=]# Format number for output, or
-f[ormat=]Name Format name for output:
1. IG/Stanford 11. Phylip3.2
2. GenBank/GB 12. Phylip
3. NBRF 13. Plain/Raw
4. EMBL 14. PIR/CODATA
5. GCG 15. MSF
6. DNAStrider 16. ASN.1
7. Fitch 17. PAUP/NEXUS
8. Pearson/Fasta 18. Pretty (out-only)
9. Zuker (in-only) 19. LinAll
10. Olsen (in-only) 20. Vienna
Pretty format options:
-wid[th]=#
Sequence line width
-tab=# Left indent
-col[space]=#
Column space within sequence line on output
-gap[count]
Count gap chars in sequence numbers
-nameleft, -nameright[=#]
Name on left/right side [=max width]
-nametop
Name at top/bottom
-numleft, -numright
Seq index on left/right side
-numtop, -numbot
Index on top/bottom
-match[=.]
Use match base for 2..n species
-inter[line=#]
Blank line(s) between sequence blocks
EXAMPLES
readseq
-- for interactive use
readseq my.1st.seq my.2nd.seq -all-format=genbank -output=my.gb
-- convert all of two input files to one genbank format output file
readseq my.seq -all -form=pretty -nameleft=3 -numleft -numright -numtop -match
-- output to standard output a file in a pretty format
readseq my.seq -item=9,8,3,2 -degap -CASE -rev -f=msf -out=my.rev
-- select 4 items from input, degap, reverse, and uppercase them
cat *.seq | readseq -pipe -all -format=asn > bunch-of.asn
-- pipe a bunch of data thru readseq, converting all to asn
SEE ALSO
The programs are documented fully in text form. See the files in /usr/share/doc/readseq
AUTHOR
This manual page was written by Stephane Bortzmeyer <bortzmeyer@debian.org>, for the Debian GNU/Linux system (but may be used by others).
READSEQ(1)