03-16-2010
Hi rdcwayx,
Thanks for your previous suggestion
Can I ask your advice about the question this time?
I got change a bit about the header format.
Thanks again for your advice.
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Hi,
I got a long list of contents:
>sequence_1
ASSSSSSSSSSSDDDDDDDDDDDCCCCCCC
ASDSFDFFDFDFFWERERERERFSDFESFSFD
>sequence_2
ASDFDFDFFDDFFDFDSFDSFDFSDFSDFDSFASDSADSADASD
ASDFFDFDFASFASFASFAFSFFSDASFASFASFAFS
>sequence_3
VEDFGSDGSDGSDGSDGSDGSDGSDG
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2. Shell Programming and Scripting
My input file:
>sequence_1
ASSSSSSSSSSSDDDDDDDDDDDCCCCCCC
ASDSFDFFDFDFFWERERERERFSDFESFSFD
>sequence_2
ASDFDFDFFDDFFDFDSFDSFDFSDFSDFDSFASDSADSADASD
ASDFFDFDFASFASFASFAFSFFSDASFASFASFAFS
>sequence_3
VEDFGSDGSDGSDGSDGSDGSDGSDG
dDFSDFSDFSDFSDFSDFSDFSDFSDF
SDGFDGSFDGSGSDGSDGSDGSDGSDG
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3. Shell Programming and Scripting
My input:
>seq_1
DSASSTRRARRRRTPRTPSLRSRRSDVTCS
>seq_3
RMRLRRWRKSCSERS*RRSN
>seq_8
RTTGLSERPRLPTTASRSISSRWTR
>seq_10
NELPLEKGSLDSISIE
>seq_9
PNQGDAREPQAHLPRRQGPRDRPLQAYA+
QVQHRRHDHSRTQH*LCRRRQREDCDRLHR
>seq_4
DRGKGQAGCRRPQEGEALVRRCS>seq_6
FA*GLAAQDGEA*SGRG
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4. 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
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5. Shell Programming and Scripting
Input
Participant number: HAC
Position type Location Distance_start Distance_end Range Mark
1 1 + Front 808 1083 276
2 1 + Front 1373 1636 264
3 1 - Back 1837 2047 211
Participant number: BCD
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6. Shell Programming and Scripting
Input file:
>TRACK: Position: 1 TYPE: 1 Pos:
SVAVPQRHHPGGTVFREPIIIPAIPRLVPGWNKPIIIGRHAFGDQYRATDRVIPGPGKLE
LVYTPVNGEPETVKVYDFQGGGIAQTQYNTDESIRGFAHASFQMALLKGLPLYMSTKNTI
LKRYDGRFKDIFQEIYESTYQKDFEAKNLWYEHRLIDDMVAQMIKSEGGFVMALKNYDGD
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7. Shell Programming and Scripting
Input file 1:
>pattern_5
GAATTCGTTCATGTAGGTTGASDASFGDSGRTYRYGHDGSDFGSDGGDSGSDGSDFGSDF
ATTTAATTATGATTCATACGTCATATGTTATTATTCAATCGTATAAAATTATGTGACCTT
SDFSDGSDFKSDAFLKJASLFJASKLFSJAKJFHASJKFHASJKFHASJKFHSJAKFHAW
>pattern_1
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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;
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Input
data_10 SSA
data_2 TYUE
data_3 PEOCV
data_6 SSAT
data_21 SSA
data_19 TYUEC
data_14 TYUE
data_15 SSA
data_32 PEOCV
.
.
Desired Output
data_10 SSA
data_2 TYUE
data_3 PEOCV
data_6 SSAT
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10. Shell Programming and Scripting
Hi
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LEARN ABOUT OPENSOLARIS
posix_madvise
posix_madvise(3C) Standard C Library Functions posix_madvise(3C)
NAME
posix_madvise - memory advisory information
SYNOPSIS
#include <sys/mman.h>
int posix_madvise(void *addr, size_t len, int advice);
DESCRIPTION
The posix_madvise() function advises the system on the expected behavior of the application with respect to the data in the memory starting
at address addr, and continuing for len bytes. The system may use this information to optimize handling of the specified data. The
posix_madvise() function has no effect on the semantics of access to memory in the specified range, although it may affect the performance
of access.
The advice to be applied to the memory range is specified by the advice parameter and may be one of the following values:
POSIX_MADV_NORMAL Specifies that the application has no advice to give on its behavior with respect to the specified range. It is
the default characteristic if no advice is given for a range of memory.
POSIX_MADV_SEQUENTIAL Specifies that the application expects to access the specified range sequentially from lower addresses to higher
addresses.
POSIX_MADV_RANDOM Specifies that the application expects to access the specified range in a random order.
POSIX_MADV_WILLNEED Specifies that the application expects to access the specified range in the near future.
POSIX_MADV_DONTNEED Specifies that the application expects that it will not access the specified range in the near future.
These values are defined in <sys/mman.h>
RETURN VALUES
Upon successful completion, posix_madvise() returns zero. Otherwise, an error number is returned to indicate the error.
ERRORS
The posix_madvise() function will fail if:
EINVAL The value of advice is invalid.
ENOMEM Addresses in the range starting at addr and continuing for len bytes are partly or completely outside the range allowed for the
address space of the calling process.
The posix_madvise() function may fail if:
EINVAL The value of len is zero.
ATTRIBUTES
See attributes(5) for descriptions of the following attributes:
+-----------------------------+-----------------------------+
| ATTRIBUTE TYPE | ATTRIBUTE VALUE |
+-----------------------------+-----------------------------+
|Interface Stability |Committed |
+-----------------------------+-----------------------------+
|MT-Level |MT-Safe |
+-----------------------------+-----------------------------+
|Standard |See standards(5). |
+-----------------------------+-----------------------------+
SEE ALSO
mmap(2), madvise(3C), posix_madvise(3C), attributes(5), standards(5)
SunOS 5.11 14 Jul 2008 posix_madvise(3C)