11-02-2009
Thanks a lot, it is worked perfectly
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1. Shell Programming and Scripting
Hi,
I got a long list of contents:
>sequence_1
ASSSSSSSSSSSDDDDDDDDDDDCCCCCCC
ASDSFDFFDFDFFWERERERERFSDFESFSFD
>sequence_2
ASDFDFDFFDDFFDFDSFDSFDFSDFSDFDSFASDSADSADASD
ASDFFDFDFASFASFASFAFSFFSDASFASFASFAFS
>sequence_3
VEDFGSDGSDGSDGSDGSDGSDGSDG
dDFSDFSDFSDFSDFSDFSDFSDFSDF... (2 Replies)
Discussion started by: patrick87
2 Replies
2. Shell Programming and Scripting
My input file:
>sequence_1
ASSSSSSSSSSSDDDDDDDDDDDCCCCCCC
ASDSFDFFDFDFFWERERERERFSDFESFSFD
>sequence_2
ASDFDFDFFDDFFDFDSFDSFDFSDFSDFDSFASDSADSADASD
ASDFFDFDFASFASFASFAFSFFSDASFASFASFAFS
>sequence_3
VEDFGSDGSDGSDGSDGSDGSDGSDG
dDFSDFSDFSDFSDFSDFSDFSDFSDF
SDGFDGSFDGSGSDGSDGSDGSDGSDG
My... (22 Replies)
Discussion started by: patrick87
22 Replies
3. Shell Programming and Scripting
My input:
Data name: ABC001
Data length: 1000
Detail info
Data Direction Start_time End_time Length
1 forward 10 100 90
1 forward 15 200 185
2 reverse 50 500 450
Data name: XFG110
Data length: 100
Detail info
Data Direction Start_time End_time Length
1 forward 50 100 50 ... (11 Replies)
Discussion started by: patrick87
11 Replies
4. Shell Programming and Scripting
Input file:
#abc_1
SAASFASFGGDSGDSGDSGSDGSDGSDGSDGSDGSDGSDGDS
Output file:
FASFGGDSGDS
I just want to print out the read from position 5 until position 15 from the data.
Below is the code that I just try but it is failed to get my desired output:
grep -v '#' input_file | awk... (5 Replies)
Discussion started by: patrick87
5 Replies
5. Shell Programming and Scripting
Input file:
>position_10 sample:68711 coords:5453-8666 number:3 type:complete len:344
MSINQYSSDFHYHSLMWQQQQQQQQHQNDVVEEKEALFEKPLTPSDVGKLNRLVIPKQHA
ERYFPLAAAAADAVEKGLLLCFEDEEGKPWRFRYSYWNSSQSYVLTKGWSRYVKEKHLDA
NRTS*
>position_4 sample:68711 coords:553-866 number:4 type:partial len:483... (7 Replies)
Discussion started by: patrick87
7 Replies
6. Shell Programming and Scripting
Input file 1:
>pattern_5
GAATTCGTTCATGTAGGTTGASDASFGDSGRTYRYGHDGSDFGSDGGDSGSDGSDFGSDF
ATTTAATTATGATTCATACGTCATATGTTATTATTCAATCGTATAAAATTATGTGACCTT
SDFSDGSDFKSDAFLKJASLFJASKLFSJAKJFHASJKFHASJKFHASJKFHSJAKFHAW
>pattern_1
AAGTCTTAAGATATCACCGTCGATTAGGTTTATACAGCTTTTGTGTTATTTAAATTTGAC... (10 Replies)
Discussion started by: patrick87
10 Replies
7. Shell Programming and Scripting
Input:
HS04636 PROGRAM source 836 7001 + ID=g1
HS04636 PROGRAM beginner 836 7001 + ID=g1.t1;Parent=g1
HS04636 PROGRAM position 836 836 + Parent=g1.t1
HS04636 PROGRAM type 836 1017 + Parent=g1.t1
HS04636 ... (2 Replies)
Discussion started by: patrick87
2 Replies
8. Shell Programming and Scripting
Input:
21 templeta parent 35718 36554 . - . ID=parent_cluster_50.21.11; Name=Partial%20parent%20for%20training%20set;
21 templeta kids 35718 36554 . - . ID=_52; Parent=parent_cluster_5085.21.11;
21 templeta ... (7 Replies)
Discussion started by: patrick87
7 Replies
9. Shell Programming and Scripting
Bash scripting beginner here...
I have many folders, each folder representing one subject. Not all subjects have all the required files, so I need to somehow cycle through all the data and then extract the data only from subjects who have no files missing. I tried to output the ls command, but... (4 Replies)
Discussion started by: LeftoverStew
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10. Shell Programming and Scripting
data.txt has several information like the below..
<SERVER>:WEB:MYDOM01:/tmp/cong/MYDOM01,/tmp/app/MYDOM01
<WEBER>:CANES:https-web01,https-web02:/web/apps/https-web01/config
<SERVER>:WEB:MYDOM07:/tmp/cong/MYDOM07,/tmp/app/MYDOM07... (7 Replies)
Discussion started by: mohtashims
7 Replies
cvmkfile(1) cvmkfile(1)
NAME
cvmkfile - Create a pre-allocated file
SYNOPSIS
cvmkfile [-k <key>] [-p] [-s] [-w] [-z] <size>[k|m|g] <filename>
DESCRIPTION
cvmkfile can be used to pre-allocate a file on the Xsan volume. This
is useful and preferable when preparing a file for use in a real-time
or streaming environment as the entire file is represented in only one
file system extent. Additionally, a file can be placed onto a specific
storage pool by specifying the <key> value, which is used as the affin-
ity locator. See cvfs_config(4) for more details about affinities.
USAGE
The -k <key> optionally tells the file system where to place the data
file. If an Affinity Key is specified, the file is placed on storage
pools that are specified to support this key. If there is no storage
pool with the key specified, then the file is placed in non-exclusive
data pools. If there are no non-exclusive data pools, then ENOSPC (no
space) is returned.
The -p option forces the allocation and any subsequent expansions to be
fitted "perfectly" as multiples of the InodeExpandMin configuration
parameter. The allocation extent will always line up on and be a per-
fect multiple of the blocks specified in InodeExpandMin.
The -s option forces the allocation to line up on the beginning block
modulus of the storage pool. This can help performance in situations
where the I/O size perfectly spans the width of the storage pool's
disks.
The -w option sets the file size to be equal to <size>. Without this
option the blocks are allocated but the size is set to zero. NOTE:
Unless the -z option is used, the new file will contain undefined data.
Using the -w option is not recommended unless absolutely needed.
The -z option causes the file to be physically zeroed out. This can
take a significant amount of time.
The <size> argument specifies the number of bytes, kilobytes(k),
megabytes(m) or gigabytes(g) to allocate for the file. There is no
guarantee that all requested space will be allocated. If there is
insufficient contiguous available space to satisfy the requested amount
then a "best effort" will be performed. In this case a success value
is returned even though not all of the requested amount is allocated to
the file. Even though the allocation may not be fully satisfied, if
the -w option is specified then the file size will still reflect the
requested <size> value.
EXAMPLES
Make a file of one gigabyte with zero length. Allocate it on a storage
pool that favors the media type 6100_n8.
rock # cvmkfile -k 6100_n8 1g foobar
SEE ALSO
cvfs_config(4), cvmkdir(1)
Xsan File System December 2005 cvmkfile(1)