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Parser - multiple in Perl
Post 302490011 by askari on Sunday 23rd of January 2011 09:08:22 AM
01-23-2011
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Hello.
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}
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HI,
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The perl parser below works as expected assuming the last digit in the NC_ before the . is a single digit.
perl -ne 'next if $. == 1;
if(/.*del(+)ins(+).*NC_0{4}(+).*g\.(+)_(+)/) # indel
{
print join("\t", $3, $4, $5, $1, $2), "\n";
}
' out_position.txt > out1.txt
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I have 4000 files like
$cat clus_grp_seq10_g.phy
18 1002
anig_OJJ65951_1 ATGGTTTCGCAGCGTGATAGAGAATTGTTTAGGGATGATATTCGCTCGCGAGGAACGAAGCTCAATGCTGCCGAGCGCGAGAGTCTGCTAAGGCCATATCTGCCAGATCCGTCTGACCTTCCACGCAGGCCACTTCAGCGGCGCAAGAAGGTTCCTCG
aver_OOF92921_1 ... (1 Reply)
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LEARN ABOUT DEBIAN
sptrfs
sptrfs.f(3) LAPACK sptrfs.f(3) NAME
sptrfs.f - SYNOPSIS
Functions/Subroutines subroutine sptrfs (N, NRHS, D, E, DF, EF, B, LDB, X, LDX, FERR, BERR, WORK, INFO) SPTRFS Function/Subroutine Documentation subroutine sptrfs (integerN, integerNRHS, real, dimension( * )D, real, dimension( * )E, real, dimension( * )DF, real, dimension( * )EF, real, dimension( ldb, * )B, integerLDB, real, dimension( ldx, * )X, integerLDX, real, dimension( * )FERR, real, dimension( * )BERR, real, dimension( * )WORK, integerINFO) SPTRFS Purpose: SPTRFS improves the computed solution to a system of linear equations when the coefficient matrix is symmetric positive definite and tridiagonal, and provides error bounds and backward error estimates for the solution. Parameters: N N is INTEGER The order of the matrix A. N >= 0. NRHS NRHS is INTEGER The number of right hand sides, i.e., the number of columns of the matrix B. NRHS >= 0. D D is REAL array, dimension (N) The n diagonal elements of the tridiagonal matrix A. E E is REAL array, dimension (N-1) The (n-1) subdiagonal elements of the tridiagonal matrix A. DF DF is REAL array, dimension (N) The n diagonal elements of the diagonal matrix D from the factorization computed by SPTTRF. EF EF is REAL array, dimension (N-1) The (n-1) subdiagonal elements of the unit bidiagonal factor L from the factorization computed by SPTTRF. B B is REAL array, dimension (LDB,NRHS) The right hand side matrix B. LDB LDB is INTEGER The leading dimension of the array B. LDB >= max(1,N). X X is REAL array, dimension (LDX,NRHS) On entry, the solution matrix X, as computed by SPTTRS. On exit, the improved solution matrix X. LDX LDX is INTEGER The leading dimension of the array X. LDX >= max(1,N). FERR FERR is REAL array, dimension (NRHS) The forward error bound for each solution vector X(j) (the j-th column of the solution matrix X). If XTRUE is the true solution corresponding to X(j), FERR(j) is an estimated upper bound for the magnitude of the largest element in (X(j) - XTRUE) divided by the magnitude of the largest element in X(j). BERR BERR is REAL array, dimension (NRHS) The componentwise relative backward error of each solution vector X(j) (i.e., the smallest relative change in any element of A or B that makes X(j) an exact solution). WORK WORK is REAL array, dimension (2*N) INFO INFO is INTEGER = 0: successful exit < 0: if INFO = -i, the i-th argument had an illegal value Internal Parameters: ITMAX is the maximum number of steps of iterative refinement. Author: Univ. of Tennessee Univ. of California Berkeley Univ. of Colorado Denver NAG Ltd. Date: November 2011 Definition at line 163 of file sptrfs.f. Author Generated automatically by Doxygen for LAPACK from the source code. Version 3.4.1 Sun May 26 2013 sptrfs.f(3)