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pkrastevpkrastev
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Added batch-job submission scripts
1 parent 2de1605 commit 33d2d0e

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lines changed

‎Libraries/BLAS/Makefile

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#=======================================================================
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# Make file for blas_test.f90
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#=======================================================================
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CFLAGS = -c -O2
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COMPILER = gfortran
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PRO = blas_test
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OBJECTS = blas_test.o
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LINK_BLAS = -lblas
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${PRO}.x : $(OBJECTS)
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$(COMPILER) -o ${PRO}.x $(OBJECTS) $(LINK_BLAS)
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%.o : %.f90
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$(COMPILER) $(CFLAGS) $(<F)
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clean :
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rm *.o *.x

‎Libraries/BLAS/README.md

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### Purpose:
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Example of using BLAS libraries on the cluster. The specific example creates 100X100 random matrix, a vector of
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dimension 100 and performs matrix-vector multiplication.
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### Contents:
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(1) blas_test.f90: Fortran source code
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(2) Makefile: Makefile to compile the source code
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(3) blas_test.sbatch: Btach-job submission script to send the job to the queue
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### Example Usage:
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source new-modules.sh
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make
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sbatch blas_test.sbatch
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### Example Output:
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```
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Vector Vout:
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1 25.173201914050779
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2 25.542639298693242
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3 25.363085121856649
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4 24.064896892715677
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5 22.765408132534201
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6 25.122410155603571
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7 22.878604915102780
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8 25.790335400142595
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9 25.051709637631145
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10 25.659498202386164
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11 25.792645995680576
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12 25.324391686562979
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13 25.128181835955335
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14 23.380410807295501
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15 22.465517792428468
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16 25.329548771279001
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17 23.729500315138093
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18 23.729904729199802
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19 23.443732562913880
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20 22.144676576853303
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21 26.363404160830544
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22 30.891400005121795
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23 21.473090335608578
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24 23.341880914064461
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25 20.980524141108045
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26 23.338036811032318
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27 23.082925092696552
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28 23.207431558582371
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29 23.954459975689147
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30 26.726096709146432
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31 21.661645491999057
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32 28.611813011640614
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33 26.377413220213981
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34 23.062963865531845
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35 23.676212785674956
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36 25.443473409849432
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37 26.621186299340554
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38 26.731032806244727
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39 26.873982794239275
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40 26.448760586845044
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41 22.768705571967448
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42 25.245064839882048
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43 24.978667733902427
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44 27.127272907661645
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45 24.025439402435175
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46 24.379897264445741
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47 23.610017400944265
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48 24.072214094881840
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49 23.808545223903458
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50 24.981543804868902
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51 24.595239610918117
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52 24.985393274980041
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53 26.701523829539212
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54 22.820784897626979
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55 23.794194047432580
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56 27.385451027223322
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57 25.015627808852496
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58 25.510047252160089
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59 25.666952684381659
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60 25.650104984272403
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61 24.982577027472331
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62 25.068292395782652
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63 24.077905013569293
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64 22.233255044086640
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65 24.553033595930195
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66 26.173609147669122
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67 24.277852446151460
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68 23.422625953907197
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69 28.777163507420472
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70 26.880919270489994
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71 26.273790854681891
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72 28.896919778602030
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73 26.722413059020955
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74 24.715602743051843
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75 24.244503719240029
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76 20.876336780223674
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77 26.164087964346141
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78 26.147945767259948
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79 24.460625205747043
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80 25.963371406119961
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81 26.244556129085549
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82 25.404186830197499
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83 26.056266365416157
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84 24.445184773190974
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85 26.472436345405296
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86 24.599606500854602
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87 25.611454650653197
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88 28.903142039641928
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89 22.477799677888200
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90 25.140171260537791
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91 24.701886549918143
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92 23.228501267726013
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93 22.024866588186953
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94 26.913536990055928
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95 24.811448566331471
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96 25.374300728771910
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97 25.780052726009359
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98 27.001826536045286
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99 21.359693460593437
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100 21.963571993716787
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STOP End of program.
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```

‎Libraries/BLAS/blas_test.sbatch

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#!/bin/bash
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#SBATCH -J blas_test
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#SBATCH -o blas_test.out
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#SBATCH -e blas_test.err
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#SBATCH -p serial_requeue
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#SBATCH -t 30
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#SBATCH -N 1
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#SBATCH -n 1
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#SBATCH --mem=4000
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# Load required modules
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source new-modules.sh
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# Run program
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./blas_test.x

‎Libraries/FFTW/README.txt renamed to ‎Libraries/FFTW/README.md

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Contents:
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### Purpose:
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(1) fftw_test.f90: Perform 1D transform
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(2) Makefile
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Example of using FFTW libraries on the cluster. The specific example performs 1D transform.
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Compile and Run:
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### Contents:
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(1) Load required modules, e.g.,
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(1) fftw_test.f90: Fortran source code
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source new-modules.sh
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module load gcc/4.8.2-fasrc01
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module load openmpi/1.8.3-fasrc02
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module load fftw/3.3.4-fasrc06
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(2) Makefile: Makefile to compile the source code
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(2) Compile
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(3) fftw_test.sbatch: Btach-job submission script to send the job to the queue
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make
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### Example Usage:
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(3) Run
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source new-modules.sh
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module load gcc/4.8.2-fasrc01
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module load openmpi/1.8.3-fasrc02
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module load fftw/3.3.4-fasrc06
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### Example Output:
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./fftw_test.x
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Example output:
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```
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Input array:
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in( 1 ) = ( 1.0000000000000000 , 2.0000000000000000 )
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in( 2 ) = ( 2.0000000000000000 , 3.0000000000000000 )
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4 * in( 2 ) = ( 16.000000000000000 , 20.000000000000000 )
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4 * in( 3 ) = ( 12.000000000000000 , 16.000000000000000 )
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4 * in( 4 ) = ( 8.0000000000000000 , 12.000000000000000 )
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```

‎Libraries/FFTW/fftw_test.sbatch

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#!/bin/bash
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#SBATCH -J fftw_test
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#SBATCH -o fftw_test.out
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#SBATCH -e fftw_test.err
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#SBATCH -p serial_requeue
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#SBATCH -t 30
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#SBATCH -N 1
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#SBATCH -n 1
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#SBATCH --mem=4000
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# Load required modules
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source new-modules.sh
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module load gcc/4.8.2-fasrc01
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module load openmpi/1.8.3-fasrc02
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module load fftw/3.3.4-fasrc06
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# Run program
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./fftw_test.x

‎Libraries/GSL/README.md

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#### Purpose:
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Example of using GSL libraries on the cluster. The specific example solves the integral
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$$\int_0^1 x^{-1/2} log(x) dx = -4$$
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to a relative accuracy bound of 1e-7.
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#### Contents:
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(1) gsl_int_test.c: C source file
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(2) Makefile: Makefile to compile the source code
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(3) gsl_int_test.sbatch: Btach-job submission script to send the job to the queue
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#### Example Usage:
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source new-modules.sh
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module load gsl/1.16-fasrc02
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make
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sbatch gsl_int_test.sbatch
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#### Example Output:
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```
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result = -4.000000000000085265
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exact result = -4.000000000000000000
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estimated error = 0.000000000000135447
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actual error = -0.000000000000085265
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intervals = 8
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```

‎Libraries/GSL/README.txt

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‎Libraries/GSL/gsl_int_test.sbatch

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#!/bin/bash
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#SBATCH -J gsl_int_test
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#SBATCH -o gsl_int_test.out
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#SBATCH -e gsl_int_test.err
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#SBATCH -p serial_requeue
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#SBATCH -t 30
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#SBATCH -N 1
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#SBATCH -n 1
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#SBATCH --mem=4000
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# Load required modules
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source new-modules.sh
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module load gsl/1.16-fasrc02
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# Run program
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./gsl_int_test.x

‎Libraries/HDF5/README.md

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#### Purpose:
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Example of using HDF5 libraries on the cluster. The specific example creates a random vector and writes it to a HDF5 (.h5) file.
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#### Contents:
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(1) hdf5_test.f90: Fortran 90 source file
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(2) Makefile: Makefile to compile the source code
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(3) hdf5_test.sbatch: Btach-job submission script to send the job to the queue
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#### Example Usage:
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source new-modules.sh
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module load hdf5/1.8.12-fasrc08
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make
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sbatch hdf5_test.sbatch
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#### Example Output:
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```
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[pkrastev@sa01 HDF5]$ h5dump output.h5
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HDF5 "output.h5" {
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GROUP "/" {
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DATASET "darr" {
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DATATYPE H5T_IEEE_F64LE
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DATASPACE SIMPLE { ( 100 ) / ( 100 ) }
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DATA {
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(0): 0.19997, 0.141935, 0.9609, 0.557535, 0.638827, 0.462287, 0.498032,
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(7): 0.867238, 0.762328, 0.23642, 0.0605957, 0.150953, 0.948071,
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(13): 0.844535, 0.181702, 0.280175, 0.229308, 0.552097, 0.73992,
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(19): 0.331059, 0.388762, 0.41635, 0.325443, 0.412334, 0.631472,
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(25): 0.890654, 0.765588, 0.144551, 0.148686, 0.0065211, 0.367894,
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(31): 0.152968, 0.220681, 0.629017, 0.459204, 0.697648, 0.389048,
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(37): 0.919453, 0.199217, 0.58728, 0.363542, 0.754135, 0.194908,
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(43): 0.815831, 0.938569, 0.42343, 0.296155, 0.811725, 0.364881,
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(49): 0.893735, 0.00850734, 0.887926, 0.194576, 0.588769, 0.0942312,
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(55): 0.0470023, 0.921254, 0.331883, 0.0983307, 0.941179, 0.0732383,
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(61): 0.578579, 0.668021, 0.175048, 0.872878, 0.306461, 0.956044,
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(67): 0.13224, 0.905966, 0.758271, 0.98402, 0.417583, 0.187216,
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(73): 0.846184, 0.322552, 0.500836, 0.221774, 0.736674, 0.318103,
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(79): 0.584469, 0.9694, 0.433704, 0.0462207, 0.207506, 0.933283,
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(85): 0.789315, 0.484947, 0.045633, 0.756139, 0.152743, 0.741604,
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(91): 0.256809, 0.0134879, 0.440945, 0.603259, 0.94596, 0.566918,
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(97): 0.348724, 0.493279, 0.437733
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}
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}
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}
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}
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```

‎Libraries/HDF5/README.txt

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‎Libraries/HDF5/hdf5_test.sbatch

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#!/bin/bash
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#SBATCH -J hdf5_test
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#SBATCH -o hdf5_test.out
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#SBATCH -e hdf5_test.err
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#SBATCH -p serial_requeue
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#SBATCH -t 30
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#SBATCH -N 1
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#SBATCH -n 1
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#SBATCH --mem=4000
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# Load required modules
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source new-modules.sh
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module load hdf5/1.8.12-fasrc08
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# Run program
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./hdf5_test.x

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