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Sedtrans05

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1. 1 Engelund Hansen 1967 Total load 0 004218 1 592e 06 178 Comp arison between the 2 Einstein Brown 1950 Bedload 0 002488 9 39e 07 93 3 Bagnold 1963 Total load 0 002046 7 72e 07 20 0 different calculation methods mas SO oon ae as 5 Van Rijn 1993 Bedload 0 00501 1 891 2 06 85 Graphic representation of how the variation of one input parameter influence any output parameter Sedtrans05 Profiles of U and SSC Profile of mean current velocity and suspended sediment concentration Detailed instructions for using Sedtrans05 GUI are found in the help file accessed directly from the program Menu Help Help Setrans05 or F1 key 10 Use of SED05 SED05 is a user interface running in a console window It computes the sediment transport for one set of conditions Only the file sed05 exe is necessary to run the interactive batch version The program is capable to generate example and explanation files The command line option Le type sed05 return a explanation of the command line syntax of SED05 which is reproduced in the frame below Command line syntax for using the 1D version of Sedtrans05 version 1 03 SEDO5 b IN FILE OUT FILE o OUT FILE c PARAMFILE f h v b Batch mode with optionally names of input and output files default is interactive mode Specify the name of the output file
2. LTO 919 GT pPI T VWLHd dNITad dNIHY dD YIM ddd LH AITO Z ZA 070 SE000 O S8T oe 0 S 0 S70 87 VWLdd dNITad dNIHY dD UIAM Adag LH AIS Z Zn T owes y ur pextw eq ued s d ndur yjog SATSSYOO pue SATSSYyoo uoU AOJ qu 3s jjTD ST 3eudoj q ST qaeuzsojg ndut sy suorqenb satssyoo uou 0 0 070 0 0 S8L GFE 0 SOE S70 870 sz a uezed s y TOF usATH sr I qunu eer e JT r T1o1z L oysz oys NZ 1z aagN TZ9 T9 VATOW UdaWNIL dI L NITWS SOH V d dN gt ATAJA Aa PNOTASOUMMM H m Q N a TLdoOl NAYI 0 S0 O 0 0 0 0 CoS LZ yous GTO TI a TLdOI NAYI 0 sr aeuasog qndur y qu urp s Ars uooS A0 g Cae AE a ILdOI NAYI szojeTnqeq SO y 104 3u urp s ndur urL Seuuoo s oeds Aq p qezed s oq jsnw 9 TrrtjJ y UT s nTeA TeOr3i umu urL pezoubt ere s u T Aqduse pue SOUTT qu uuoo 24 Appendix B Explanation of the output files Below is the file OUTDATA LST generated with version 1 02 of SED05 by using the command line option e The output parameters may vary in future versions of the program Only the OUTDATA LST file generated with each program version is certain to described correctly the output of that version Abbreviations used in the output files of Sedtrans05 interactive batch version version 1 02 In the output file dat main results IRUN identifier for the
3. The Free Software Foundation may publish new revised versions of the GNU Free Documentation License from time to time Such new versions will be similar in spirit to the present version but may differ in detail to address new problems or concerns See http www gnu org copyleft Each version of the License is given a distinguishing version number If the Document specifies that a particular numbered version of this License or any later version applies to it you have the option of following the terms and conditions either of that specified version or of any later version that has been published not as a draft by the Free Software Foundation If the Document does not specify a version number of this License you may choose any version ever published not as a draft by the Free Software Foundation 31 Appendix D GNU General public license under which Sedtrans05 is published Sedtrans05 is licensed under the GNU General Public License which is reproduced in full below Copyright C 2005 Urs Neumeier Christian Ferrarin Carl Amos and Georg Umgiesser Sedtrans05 was developed at the ISMAR CNR in Venice and the University of Southampton Previous versions of Sedtrans 1992 and 1996 were developed at the Geological Survey of Canada Bedford Institute of Oceanography Version 3 29 June 2007 Copyright 2007 Free Software Foundation Inc lt http fsf org gt Everyone is permitted to copy and distribute verbatim copies of this
4. making available to the public and in some countries other activities as well To convey a work means any kind of propagation that enables other parties to make or receive copies Mere interaction with a user through a computer network with no transfer of a copy is not conveying An interactive user interface displays Appropriate Legal Notices to the extent that it includes a convenient and prominently visible feature that 1 displays an appropriate copyright notice and 2 tells the user that there is no warranty for the work except to the extent that warranties are provided that licensees may convey the work under this License and how to view a copy of this License If the interface presents a list of user commands or options such as a menu a prominent item in the list meets this criterion 1 Source Code The source code for a work means the preferred form of the work for making modifications to it Object code means any non source form of a work A Standard Interface means an interface that either is an official standard defined by a recognized standards body or in the case of interfaces specified for a particular programming language one that is widely used among developers working in that language The System Libraries of an executable work include anything other than the work as a whole that a is included in the normal form of packaging a Major Component but which is not part of that Ma
5. recommended for use with sediments finer than PER WDIR GD RHINP RLINP BETA SALI RHOS AULVA TIMEDR BEDCHA CONC TEMP DT USTCWS ARG4 OBS2 ROT IOPT1 26 BAGNOLD formula is based on laboratory tests with grain sizes between 0 18 6 Incorrect input 7 Incorrect input 8 Incorrect input 9 Incorrect input 10 Incorrect input 11 Incorrect input 12 Incorrect input 13 Incorrect input 14 Incorrect input 15 Incorrect value 16 Incorrect input 17 Incorrect input 18 Incorrect input 19 Incorrect input 20 Incorrect input 21 Incorrect input 22 Incorrect input 23 Incorrect input 24 Incorrect input 30 Incorrect input Warnings 101 ENGELUND HANSEN 0 15 mm 102 103 and 0 45 mm 104 105 107 YALIN formula is not recommended for use with sediments smaller than 0 2mm based on the results of sensitivity analyses VAN RIJN formula is based on laboratory experiments using sediments with grain sizes of 0 2 to 2 0 mm The cohesive algorithm is not intended for non cohesive sediments 27 Appendix C GNU Eree Documentation License under which this user manual is published Version 1 2 November 2002 Copyright C 2000 2001 2002 Free Software Foundation Inc 51 Franklin St Fifth Floor Boston MA 02110 1301 USA Everyone is permitted to copy and distribute verbatim copies of this license document but changing it is not allowed 0 PREAMBLE The purpose of this License is to make a manual textbook or other functio
6. run integer value ERR error warning code see below UB maximum wave induced orbital velocity at the bottom m s FCW bottom skin friction factor UA current speed to be used in bottom stress calc m sec U100 current speed at 1 m above seabed m sec USTCWS combined skin friction shear velocity of GM m sec USTCW combined total shear velocity of GM m sec ZO bed roughness length m FALL settling velocity for non cohesive sediment m sec RHEIGHT predicted ripple height m RLENGTH predicted ripple length m COA depth averaged reference concentration at z0 kg m 3 os suspended sediment transport rate kg m s QSDIR direction of suspended sediment transport degree SEDM time averaged net sediment transport as mass kg s m SED time averaged net sediment transport as volume m 3 s m SEDDIR direction of net sediment transport azimuth degrees In the output file da2 additional parameters IRUN identifier for the run integer value AB excursion length of bottom wave orbit m WL wave length m USTCRB critical shear vel for initi of bedload trans m sec USTCRS critical shear vel for initi of suspended load transport m sec USTUP critical shear vel for initn of sheet flow transport m sec ZOC apparent bed roughness length m PHIB angle between wave and current directions radians PHI100 angle between wave and current directions at l m above seabed DELTACW height of the wave current boundary lay
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9. 0 USTCS current skin friction shear velocity of GM 11 USTWS wave skin friction shear velocity of GM 12 USTCWSE effective combined skin friction shear velocity 13 USTCWSB transport related combined shear velocity 14 USTC total current shear velocity of GM 15 USTW total wave shear velocity of GM 16 RPLCOEF ripple coefficient for shear velocity conversion Li TBA time at which bedload transport ceases sec 18 TB2 time at which bedload transport recommences sec Tog TSA time at which suspended load transport ceases sec 20 TSZ time at which suspended load transport recommences sec 21 PERBED percentage of time spent in only bedload transport phase 22 PERSUSP percentage of time spent in suspended load transport phase 23 CO reference concentration at z0 kg m 3 24 TAOCWS averaged effective shear stress 25 RHOW water density kg m3 26 VISC dynamic viscosity of water Pa s Array OUT3 5 Results similar to file coh 1 TAUEFF effective To includes drag reduction and TAOS Pa 2 TAOS solid transmitted stress due to Ulva Pa 3 ZS height change in bed surface m positive erosion negative deposition 4 EDRATE mean erosion deposition rate kg m 2 s positive erosion negative deposition 5 TCONC final total suspended sediment concentration kg m 3 Array PROFILE 12 3 SSC and velocity profile non cohesive lst column Zi height above the bed m 2nd column Ci suspended sediment concentrat
10. ED05 by inpu example i Appendix A z b qur 4sezesu y oqa pepunozr eq TIMM 4T 0 0 0 0 070 070 0 0 0 0 0 0 070 070 070 070 070 700E ST GE 0S97 our Zour ToOudi pOI L OI L ZOI L TOASL pz Z ZZ IZ GHGSN OT 69 89 L 99 GO FO 9 ZO TO WATAW UdHWIL dWAL NITWS ST GEL 069 O dNdL NITWS the command line option e using L 20 Gp E TAT 0 0 070 TZ9 SOHU 070 SOHA Z0 T uorsz A sz aoezeuo Teotzewnu uou bututeqjuoo sutt Aue Gosuezqpes JO pou yo eq ayy AOF STTF 4ndut ue jo stdwexy ed sso2lq4s UOTSOAS TeOTATAD xxw by Aqtsuep yz Inq Arp u PTeMUMOP SATATSOd uq3qd WHOdHd UT s rzqu JO N 1 q sseTO SM yoes FO UOT RZeEAAUSOUOD qu urp s pspusa T 0 ebuez eATn Aq pazeacd eaze peq Jo uot Oo spuoo s uorqeznp uoTsoze uoTATSOdep snrsT oS s zD p a nqger d Ge aTnezop XA3Tur xxu b 0OS9zZ 31nejg p Aqarsu p ur eezbep dorTs u ua6u T qd w 3aub r q etd Ww zrs urea NOT N umu sns ers waq Tes eap p q dtz dta uqaaou s zD p uoT IOSATp Ssaem spuoo s potzed saem w qaubr u saem uaasou s I6 p uorqo arTp Jue zIANS u qau u znse u JUeZAND Fo y y s w peeds quezano u uad p 19972m uotjenbe 4yzodsuezy qu urp s jo uorqo rI s enTeA Aebsequt uni y AOF dA rjTIT3qu pt suorqerA zqqe y jo butuesyW OST 00v 00 00 Str O r 029 61 8T
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14. Sedtrans05 User Manual revision 1 06 February 2010 Authors Urs Neumeier Christian Ferrarin amp Georg Umgiesser Copyright c 2007 2010 Urs Neumeier Christian Ferrarin amp Georg Umgiesser Permission is granted to copy distribute and or modify this document under the terms of the GNU Free Documentation License Version 1 2 or any later version published by the Free Software Foundation with no Invariant Sections no Front Cover Texts and no Back Cover Texts See Appendix C for the full text of the GNU Free Documentation License Contents Introductions una aS Au ate tet aasan au a sana kO Na E 4 Limitations Or SedtransOd scssscsaccsicceadderereetetsssstusteientesctessavatevonnbes sha seceaneevscbess cvshassetoetnaredeauts 6 Installation of SedtrandOS GUI L n a u A uw ASA S apas 7 Description of SedtrandO5 GUL eneee neren raeo eeaeee eea En EE EELEE EIE STESEN ESEE N TES 8 Use Ot SEDO Si u a sasam N E E Seca heat iets E E seu tatonets 10 Us of Sedtrghs Sm a nn aa wasasapa sana ii a 13 Use SE DUT aan aa nana alaa naima un less aqu aan aya aa 16 Instruction for the Cohesive Sediment Algorithm a 18 Compilation of the source code n 19 Direct access to the computation routines from other programs 21 Appendix A example input files n 23 Appendix B Explan
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18. ation of the output files a 24 Appendix C GNU Free Documentation License 27 Appendix D GNU General public license a 31 Introduction Sedtrans05 is a sediment transport model for continental shelf and estuaries It predicts the sediment transport at one location as function water depth sediment type current and waves single point model Sedtrans05 computes the boundary layer parameter for pure current or pure waves or combined current waves conditions The threshold of movements is computed as function of grain size sediment density water salinity and temperature Five different transport equations are available for non cohesive sediments sand Type and dimension of bedform are also predicted and taken into account for the hydrodynamic calculations The Cohesive Sediment Algorithm model can be used for cohesive sediment to model the full cycle of bed erosion transport in suspension including flocculation and deposition SedtransO5 is described in following publication Neumeier U Ferrarin C Amos C L Umegiesser G amp Li M Z 2008 Sedtrans05 An improved sediment transport model for continental shelves and coastal waters with a new algorithm for cohesive sediments Computer amp Geosciences doi 10 1016 j cageo 2008 02 007 SedtransOS is composed by computation routines and that can be access
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21. can be removed from the computer The installation of Sedtrans05 is started with the file setup exe The user must have ADMINISTRATOR RIGHTS for the installation Any previous version of Sedtrans05 installed in the same destination directory will be automatically removed during the installation procedure However previous examples files for the batch version INDATA DAT OUTDATA LST INDATA CST which are not copied during the installation but created with the options e may not longer be correct after the upgrade to a newer version They should be recreated with the commands SEDO5 e and SEDO5 ec before being used because the format of input output files may change from one version to the next The installations files consist of setup exe setup Ist sedtrans05 cab The installation will create a new directory by default C Program files Sedtrans05 and make a short cut Menu Start Programs Sedtrans05 Following files are created in the Sedtrans05 directory sedtrans05 exe The Sedtrans05 GUI program sedtrans05 dll Library file containing all the computation routines sed05 exe Batch version and interactive DOS version Sedtrans05 GUI does not use it directly sedtrans05 hlp Help file for the Sedtrans05 GUI sedtrans05 cnt additional data for the Help file sedtrans05 gid additional data for the Help file readme txt A short explanation file The use of the batch mode sed05 exe will create several ot
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23. cted based on SIB data of Li and Amos 1998 I break off ripples x wave curent ripples Main window of Caloulation method l tipple height 0 020 m ripple length 0 265 m C 1 Engelund Hansen 1967 Total load equation Sedtrans05 son C 2 Einstein Brown 1950 Bedload equation Ja 3 Bagnold 1963 Total load equation l 2 UB 0 1852 maximum wave induced orbital velocity at the bottom m s C 4 Yalin 1963 Bedload equation FCW 0 01468 bottom skin friction factor C 5 Van Rin 1993 Bedioad equation UA 0 1889 current speed to be used in bottom stress calc m sec U100 0 5 current speed at 1 m above seabed m sec 7 Cohesive USTCWS 0 0305 combined skin friction shear velocity of GM m sec USTCW 0 0639 combined total shear velocity of GM m sec zo 0 002845 bed roughness length m FALL 0 06899 settling velocity for non cohesive sediment m sec RHEIGHT 0 02043 predicted ripple height m RLENGTH 0 265 predicted ripple length m coa 0 002003 depth averaged reference concentration at 20 kg m 3 as 0 002166 suspended sediment transport rate ka m s QSDIR 20 direction of suspended sediment transport degree SEDM 0 002046 time averaged net sediment transport as mass kg s m SED 7 72e 07 time averaged net sediment transport as volume m 3 s m SEDDIR 20 direction of net sediment transport azimuth degrees z Sedtrans05 xj Comparison between the results of the different methods E Transport ate Direction
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25. d Carl L Amos Sedtrans92 Li M Z amp Amos C L 1995 SEDTRANS92 a sediment transport model for continental shelves Computer and Geosciences 21 533 554 Sedtrans96 Li M Z amp Amos C L 2001 SEDTRANS96 the upgraded and better calibrated sediment transport model for continental shelves Computer and Geosciences 27 619 645 Limitations of Sedtrans05 Software issues There is no check of the input values in the core Fortran77 routines of SedtransO05 Some limited input checks are done in the two input interfaces sed05 exe and Sedtrans95 GUI Windows version but they pick up only major problems e g wave height larger than water depth It is the responsibility of the user to assure that the input values are realistic AND within the range of validity of the different equations used Otherwise the results will be meaningless and the program may crash For SED05 exe and SEDI1D exe the length of each filename inclusive path specified as command line argument is limited to 200 characters Physical limitations of Sedtrans05 The model assume linear wave theory and not adapted for breaking wave and the swash zone of beaches Limitations of the Cohesive Sediment Algorithm CSA The CSA does not model sand mud mixture biological processes bioconsolidation or bioturbation lateral movement of fluid mud due to current or gravitational forces resuspension of fluid mud by waves or instabilities of the water sedime
26. d line syntax for using the 1D time version of Sedtrans05 version 1 02 SEDI1D Show the present help text SEDI1D By default the input file is IN1D DAT and output files are OUTI1D The files can also be specified as follow SEDI1D inputfile SEDI1D inputfile outputfile SEDI1D inputfile outputfile c paramfile Modify the defaults parameters according to the file paramfile inputfile must be with extension outputfile must be without extension SEDI1D L Show the licence SEDI1D e Generate the example files IN1D DAT input data and INDATA CST modification of default parameters and write the list of abbreviations used in the output files to the file OUT1ID LST SEDIID reads input parameters from a file containing on the first data line the initial bed characteristics and the initial SSC on the other data lines several successive hydrodynamic conditions each with a specific duration The hydrodynamic conditions can be defined with the same input parameters as for SED05 Alternatively to can be specified directly in this case the subroutine with the cohesive sediment algorithm COHESIVE is called directly without passing through the main subroutine SEDTRANSOS See the comments in the example input file INID DAT which is generated with the command line option e for more details The output is a tabular text file with SSC and bed characteristics for each minute or each calling interval whiche
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29. e sediments IN1 can also be 15 or 16 elements long 1 IOPT1 selection of sediment transport equation 1 2 3 4 5 7 or 10 22D water depth m 380 UZ current speed m s 4 Z height of current measurement m 5 CDIR current direction degrees north 6 HT wave height m 7 PER wave period seconds 8 WDIR wave direction degrees north 9 GD grain size m 10 RHINP ripple height m 11 RLINP ripple length m 12 BETA bed slope degree 13 RHOS grain density default 2650 kg m 3 14 SALIN salinity default 35 15 TEMP temperature degrees Celsius 16 TIMEDR deposition erosion duration seconds OPTIONAL 17 AULVA fraction of bed area covered by Ulva range 0 1 OPTIONAL Array IN2 30 1 SWITCH 2 CSULVA 3 TMULVA 4 TRULVA 5 RKERO 6 EO 7 CDISRUPT 8 CLIM1 9 CLIM2 10 KFLOC 11 MFLOC 12 RHOCLAY 13 CTAUDEP 14 PRS 15 RHOMUD 16 DPROFA 17 DPROFB 18 DPROFC 19 DPROFD 20 DPROFE 21 CONSOA 22 TEROA 23 TEROB 24 TEROC 25 TEROD 26 CDRAGRED 277 Z0COH 28 FCWCOH 29 WSCLAY 30 DOCOMPACT CONC 21 BEDCHA 20 3 Default parameters for cohesive algorithm with the value 999 the default value is not modified if 0 then IN2 is ignored if lt gt 0 then IN2 is processed Cohesive SSC Description of cohesive bed column 1 depth below surface m column 2 critical erosion shear stress Pa column 3 dry bulk density kg m3 Array OUT1 16 Results s
30. ecified to the compiler The source files for SEDI1D 1D vertical time model for cohesive sediment consist of sedild f sedtrans core f cohesive f sed_param h The main file is sedild f which contains INCLUDE statements making reference to all the other code files Therefore only sedild f has to be specified to the compiler The source files for the computation routines accessed through the subroutine SEDTRANSOS consist of sedtrans core f contains the subroutine SEDTRANSOS5 cohesive f referred from sedtrans core f with an INCLUDE statement sed_param h definition of the COMMON blocks The source files for sedtrans05m MEX file for Matlab consist of sedtransO5m f the gateway routine 20 sedtrans054ll f sedtrans core f cohesive f bedform f sed_param h sedtrans05m m the help file explaining the usage of the MEX file The main file is sedtrans05m f which contains INDCLUDE statements making reference to all the other code files Therefore only sedtransO5m f has to be specified when compiling the MEX file from Matlab Compilation was tested with Matlab 6 1 and g77 as Fortran77 compiler sedtrans05m m is the help file explaining the usage of the MEX file It is recommended to keep sedtrans05m m together with the compiled MEX file The source files for DLL executable dynamic link library for Microsoft Windows consist of sedtransOSdll f sedtrans core f cohesive f bedfor
31. ed through following user interfaces The different components are Sedtrans05 GUI a graphic user interface for Microsoft Windows SED05 a console program for interactive or batch calculations SEDIID a 1D vertical time model for cohesive sediment Fortran77 routines that can be integrated in other programs Sedtrans05 dll a dynamic linked library compiled for Microsoft Windows that can be called from other programs sedtrans05m a compiled MEX file to access SedtransO5 from Matlab only compiled for Microsoft Windows SedtransO5 GUI is recommended to make a few calculations to examine how variations in some input parameters modify the results or for teaching purpose To process larger dataset or when the input data are already in a file it is recommended to use SEDO5 or the Matlab function sedtrans05m if the data are already in Matlab The different components of Sedtrans05 can be downloaded from http labsedim ugar ca sedtrans05 Sedtrans05 is be published under the GNU General public license see Appendix D History of Sedtrans Sedtrans05 is the latest version of Sedtrans which history started in the early 1980s The previous versions of Sedtrans were developed at the Geological Survey of Canada Bedford Institute of Oceanography Dartmouth Nova Scotia The first versions were known as Atlantic Geoscience Centre AGC sediment transport model The two versions previous to Sedtrans05 were published by Michael Z Li an
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34. er USTCS current skin friction shear velocity of GM USTWS wave skin friction shear velocity of GM USTCWSE effective combined skin friction shear velocity USTCWSB transport related combined shear velocity USTC total current shear velocity of GM USTW total wave shear velocity of GM RPLCOEF ripple coefficient for shear velocity conversion TB1 time at which bedload transport ceases sec TB2 time at which bedload transport recommences sec TSL time at which suspended load transport ceases sec TS2 time at which suspended load transport recommences sec PERBED percentage of time spent in only bedload transport phase PERSUSP percentage of time spent in suspended load transport phase co reference concentration at z0 kg m 3 TAOCWS averaged effective shear stress RHOW water density kg m3 VISC dynamic viscosity of water Pa s In the output file pro velocity and concentration profile for non cohesive sediments IRUN identifier for the run integer value Zi height above the bed m Ci suspended sediment concentration at height Zi kg m 3 Ui mean velocity at height Ui m s In the output file coh results for cohesive sediments IRUN identifier for the run integer value ERR error warning code see below TAUOEFF effective To includes drag reduction and TAOS Pa TAOS solid transmitted stress due to Ulva Pa UNUSED height change in bed surface m positive erosion negative deposition EDRATE mean erosi
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37. her files see Use of SED05 It is possible to uninstall Sedtrans05 through Control Panel Add Remove Programs Description of Sedtrand05 GUI Sedtrans05 GUI give the same results than SED05 for non cohesive sediments including secondary results However cohesive sediments cannot be modelled with it Compared to the console interface SED05 Sedtrans05 has the advantage to present all the input and output parameters in one widow The results can be copied into the system clipboard for transfer in another program The 50 last input values and results are kept in memory and examination how variations in some input parameters modify the results is also favoured by following functionalities att File Edit View Batch Help Input values for run 3 lt gt Results for un 3 Water depth m 10 Grain size mm 05 Seimeni Tens port rato u pE PPE en pasi rO pee Desc 0 Direction of net sediment transport 20 0 ka s 3 Ripple lenath mn g Eure rection rom N 2 Bedslope o Time fraction with no transport 190 Height above bed z m 1 Time fraction with only bedload transport 644 Time fraction with suspended load transport 16 6 i sein tp 35 ee ees ee Wave height Hs m 0 6 ee w Full results retumed by Sedtrans05 Wave period Ts s 6 EXPECTED BEDFORMS ARE Amos 1990 Li amp Amos 1998 eo Medium sand Wentworth scale Wave direction from N 150 Temperature C 15 bedform types predi
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39. ied for the batch mode and its extension not one of the output files dat da2 txt pro or coh then the input filename is also used as output filename This property of SED05 can be used under Microsoft Windows to process a input file with extension different from dat da2 txt pro or coh directly from the Windows Explorer without a consol window by creating in the SendTo folder a shortcut with target sed05 exe b where is the location of sed05 exe With the command line option f all tabular output for non cohesive sediments normally files dat da2 and pro is written in only one file dat with 81 columns This may be more convenient if all parameter have to be processed subsequently with another software The tabular output files are tab separated with by default a header line The header line can be suppressed with the command line option h which produces output files that can easier read be Matlab Fortran program etc With the command line option v the program does not calculate density and dynamic viscosity of water from salinity and temperature but read them directly as input values With this option the interactive version ask for density water and dynamic viscosity instead of salinity and temperature and the batch version expects water density kg m in the column containing usually salinity and dynamic viscosity Pa s in the column containing usually temperature After the first run in the i
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41. imilar to file dat T 2 FCW bottom skin friction factor 3 UA current speed to be used in bottom stress calc m sec 4 U100 current speed at 1 m above seabed m sec 5 USTCWS combined skin friction shear velocity of GM m sec 6 USTCW combined total shear velocity of GM m sec 7 Ae bed roughness length m 8 FALL settling velocity for non cohesive sediment m sec 9 RHEIGHT predicted ripple height m 10 RLENGTH predicted ripple length m 11 COA depth averaged reference concentration at z0 kg m 3 12 0S suspended sediment transport rate kg m s 13 QSDIR direction of suspended sediment transport degree 14 SEDM time averaged net sediment transport as mass kg s m 15 SED time averaged net sediment transport as volume m 3 s m 16 SEDDIR direction of net sediment transport azimuth degrees Array OUT2 26 Results similar to file da2 1 AB excursion length of bottom wave orbit m 2 WL wave length m 3 USTCRB critical shear vel for initi of bedload trans m sec 4 USTCRS critical shear vel for initi of suspended load transport m sec 5 USTUP critical shear vel for initn of sheet flow transport m sec 6 ZOC apparent bed roughness length m 7 PHIB angle between wave and current directions radians 8 PHI100 angle between wave and current directions at 1m above seabed UB maximum wave induced orbital velocity at the bottom m s 14 15 9 DELTACW height of the wave current boundary layer 1
42. ines from other programs It is possible to access the single point model Sedtrans05 from other program either to develop another user interface or to integrate SedtransO5 in larger 2D 3D hydrodynamic sedimentary models All the computations in Sedtrans05 is accessed through the subroutine SEDTRANSOS5 in the file sedtrans core f with following two exceptions the text of the bedform predictions is generated in the subroutine BEDFORM in the file bedform f and density and viscosity of water is computed from salinity and temperature in the subroutine DENSVISC in the file cohesive f Before the first call to SEDTRANSOS it is necessary to make one call to the subroutine INICONST The input parameters of SedtransO5 are transmitted as arguments to SEDTRANSO5 The main results are returned as arguments from SEDTRANSOS additional results are returned in the common blocks OSCL THRE FRICF TIMIN PROF PROFIL definition of common blocks in file sed_param h For explanations of the input output argument of SEDTRANSOS see the beginning of the SEDTRANSO5 subroutine For explanations of the additional results see the comments in the file sed_param h NO input argument check is done in the subroutine SEDTRANSO5 Specific for the non cohesive methods call to SEDTRANS05 with IOPT lt gt 7 If IOPT1 NE 7 then none of the input arguments for the Cohesive Sediment Algorithm will be accessed the arguments BEDCHA and CONC do
43. ion at height Zi kg m 3 3rd column Ui mean velocity at height Ui m s With IOPT1 10 the COHESIVE subroutine is called directly without passing through the main subroutine SEDTRANSO5 In this case CONC BEDCHA and IN2 are processed normally but only followings parameters contained in IN1 are considered D UZ which then does not represent velocity but TAUCWS RHOW USTCWS 2 SALIN TEMP TIMEDR and AULVA From the output arguments only RHOW VISC in OUT2 EDRATE ZS SEDM TCONC TAOS in OUT3 CONC and BEDCHA are assigned All the other output arguments are undefined 16 Use SEDIID SEDIID is a particular interface to Sedtrans05 that simulate a 1D vertical time model for cohesive sediment It assumes an infinite homogeneous horizontal bed which is subject to various current and wave conditions over time This simple model is not designed to represent a natural environment but it is perfectly adapted for modelling processes observed in an annular flume It was specifically written for comparing the cohesive algorithm with experimental results in annular flumes It is made available because it may be useful for other persons but it was developed and tested to be a robust user friendly and versatile program Therefore some adaptations in the code may be necessary for particular situations The command line option displays the explanations of the command line syntax which is reproduced in the frame below Comman
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46. le This mode does not produce any screen output The command line option e generates an example input file INDATA DAT an explanation file for the output files OUTPUT LST and an example file to modify the default parameters with the optional command line option c INDATA CST SED05 saves the results in several ASCII files that have all the same name but different extensions dat da2 pro txt coh See detailed output explanations in the file OUTPUT LST generate with sed05 e also reproduced in Appendix B 11 The default input file is INDATA DAT and the default output files are OUTDATA It is possible to specify the filenames for input and output for the interactive version with the command line option o for the batch mode by specifying input and output names after the command line option b The output files are OUTDATA txt a text file with input values summary results and bedform predictions the interactive mode writes the output of this file also to the screen OUTDATA dat the main results in tabular format OUTDATA da2 additional output parameters in tabular format OUTDATA pro profiles of current velocities and for non cohesive sediment suspended sediment concentration SSC OUTDATA coh results of the cohesive sediment algorithm in tabular format this file is only created if the cohesive sediment algorithm is used If no output filename but only a input filename is specif
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49. m f sed_param h sedtransOS5dll def The main file is sedtransOSdll f which contains INDCLUDE statements making reference to all the other code files Therefore only sedtransOSdll f has to be specified when creating the object file with the compiler For producing the DLL dllwrap requires also sedtransOSdll def which contains the list of subroutine to be exported The source files for Sedtrans05 GUI graphic user interface for Microsoft Windows consist of About_form frm Fprofiles frm Modulel bas About_form frx Fprofiles frx Module2 bas Batch_form frm Fsensitivity frm SEDTRANSO5S HLP Batch_form frx Fsensitivity frx sedtransOSw vbp Fcomparison frm GraphFun bas sedtransOSw vbw Fcomparison frx Licence_form frm sedtrans05 dll Fmain frm Licence_form frx sed05 exe Fmain frx SedtransOSGUI is programmed in Visual Basic 6 The project file is sedtransOSw vbp The call to sedtransO5 dll included in the source files but can also be compiled separately see above does not work when the program is executed within the Visual Basic programming environment The program must be compiled and then sedtrans05 dll be placed in the same directory than sedtrans05 exe sed05 exe compiled console program for batch calculations is included in the source files When placed in the same directory than sedtrans05 exe it can be called directly from SedtransOSGUI 21 Direct access to the computation rout
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51. not have to be arrays in this case Specific for the Cohesive Sediment Algorithm call to SEDTRANS05 with IOPT 7 Various constants and parameters of the Cohesive Sediment Algorithm are specified in the common block CCONST which is initialized by the subroutine INICONST Expert users can change these constants parameters by declaring the common block CCONST using INCLUDE sed_param h in the calling program and modifying some values AFTER the call to INICONST The subroutine BEDINI in file cohesive f is NOT tested so far The subroutine COMPACT in file cohesive f is NOT tested so far The array variable BEDCHA describing the variations of the cohesive bed with depth must have at least 3 row and may have up to 50 rows The function CHECKBEDCHA can be used to check that information in BEDCHA is valid 22 The dimension of the input output argument CONC concentration of each class of suspended sediment is specified with the PARAMETER variable NBCONC in the file sed_param h The settling velocity Ws of each element of CONC is specified in the common block WSCLASS variable WSI INICONST must have been called once before WSI is accessed To use CONC the best is include the 2 following lines INCLUDE sed_param h DOUBLE PRECISION CONC NBCONC See also the section Instruction for the Cohesive Sediment Algorithm in this manual 23 t files Below is the example file INDATA DAT generated with version 1 02 of S
52. nt interfaces internal Holmboe waves The flocculation equations used in the CSA are valid for seawater and brackish water until salinity of about 10 15 Therefore the Cohesive Sediment Algorithm should not be used for fresh water or very low salinities The CSA may not predict correctly erosion rate when long much longer than 5 min time step TIMEDR are used Mass conservation is always respected For cohesive sediment a well mixed water column is assumed This is not adapted for deeper subtidal areas Sedtrans can still be used in such situation if it is combined with a 3D hydrodynamic sediment transport model Installation of Sedtrand05 GUI Sedtrans05 GUI should run on any computer with Windows95 or later It was tested on Windows 98 and Windows XP Sedtrans05 requires 1 to 3 5 MB disc space depending which standard run time library files of VisualBasic 6 are already installed on the computer In addition 4 MB are needed for temporary files during the installation Setrans05 GUI is programmed in VisualBasic In order to work correctly some standard VisualBasic files must be copied to the SYSTEM directory and several files must be registered Therefore is not possible to simply copy the executable but the Sedtrans05 GUI must be installed using the setup program The installation files usually come as zipped file It may be necessary to unzip them before starting the installation After the installation the installation files
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54. nteractive mode it is possible to keep the previous input value for any parameter by giving an empty input simply pressing RETURN All dimensional variables are in SI units The grain size is in metres and not in mm as in the graphic user interface Sedtrans05 GUI Some limited input checking is done When a clearly impossible value is noticed this input value is refused in the interactive mode in the batch mode the calculations are aborted and an error code is written in the output files All errors or warnings are reported in the text output file txt but only the first error or warning is specified in the tabular output file dat See also general limitations of Sedtrans05 below 12 If the command line option c is used to modify some coefficients for the cohesive sediment algorithm the modified value are written in an additional output file log See also the section Instructions for the Cohesive Sediment Algorithm in this readme file 13 Use of sedtrans05m sedtrans05m is a MEX file function to call the Fortran77 subroutines directly from Matlab It operates like SEDOS or a direct call the calculation routines from another program However sedtrans05m has the advantage that it is not necessary to generate an input data file and then to read the output data files if the input data are already in Matlab and the output is afterward processed in Matlab When a compiled MEX file is available for your operating system proce
55. on and modification of the Modified Version to whoever possesses a copy of it In addition you must do these things in the Modified Version A Use in the Title Page and on the covers if any a title distinct from that of the Document and from those of previous versions which should if there were any be listed in the History section of the Document You may use the same title as a previous version if the original publisher of that version gives permission B List on the Title Page as authors one or more persons or entities responsible for authorship of the modifications in the Modified Version together with at least five of the principal authors of the Document all of its principal authors if it has fewer than five unless they release you from this requirement C State on the Title page the name of the publisher of the Modified Version as the publisher D Preserve all the copyright notices of the Document 29 Add an appropriate copyright notice for your modifications adjacent to the other copyright notices Include immediately after the copyright notices a license notice giving the public permission to use the Modified Version under the terms of this License in the form shown in the Addendum below Preserve in that license notice the full lists of Invariant Sections and required Cover Texts given in the Document s license notice Include an unaltered copy of this License Preserve the section Entitled History Preserv
56. on deposition rate kg m 2 s positive erosion negative deposition TCONC final total suspended sediment concentration kg m 3 NBCONC number of classes of suspended sediment Ci suspended sediment concentration for each class kg m3 bed characteristics BEDCHA MAXBED number of elements in Z Tero and rho Zi depth below surface m Tero_i critical erosion stress at depth Zi Pa rho_i dry bulk density at depth Zi kg m 3 Settling velocities Ws for each suspended sediment class of cohesive sediment Class Ws m s 1 0 000010 2 0 000016 9 0 000025 4 0 000040 0 000063 6 0 000100 7 0 000158 8 0 000251 9 0 000398 10 0 000631 11 0 001000 12 0 001585 13 0 002512 14 0 003981 15 0 006310 16 0 010000 17 0 015849 18 0 025119 19 0 039811 20 0 063096 21 0 100000 Error and warning codes Only one error warning code is specified in the file dat The full list of error warning is given in the file txt 0 No error or warning Critical errors Incorrect input argument D Incorrect input argument UZ Incorrect input argument Z Incorrect input argument CDIR Incorrect input argument HT Owe Qy tN ka EINSTEIN BROWN formula is based on laboratory experiments using sediments with grain sizes of 0 3 to 28 6 mm argument argument argument argument argument argument argument argument argument for NBED argument argument argument argument argument argument argument argument argument argument formula not
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60. s Modify defaults parameters according to the file PARAMFILE f Only one tabular output file for non cohesive sediments Hi No header line in tabular output files y Input water density dyn viscosity instead of salinity temperature Special options SED05 Show the present help text SED05 L Show the licence SED05 e Generate an example input file INDATA DAT for batch mode runs an example file INDATA CST to modify the default parameters and write the list of abbreviations used in the output files to the file OUTPUT LST IN FILE must be with extension default IN FILE batch mode is INDATA DAT OUT FILE must be without extension default OUT FILE batch and interactive modes is OUTPUT Examples of usage SED05 Interactive mode with default output files SED05 b cases csv Batch mode with input cases csv and output cases For the interactive version start sed05 exe without any command line parameter Due to the significant number of input parameters required by the cohesive algorithm interactive model computation is not available for cohesive sediments After the first run in the interactive mode it is possible to keep the previous input value for any parameter by giving an empty input simply pressing RETURN For the batch mode input values from a tabular text file start with sed05 exe the command line option b Comment lines lines with any text and empty lines are ignored in the input fi
61. ssor type sedtrans05m dll for Windows sedtrans05m so for Linux copy the compiled MEX file and the file sedtransO5m m in the current Matlab directory or in a directory that is on the Matlab path To compile the MEX file copy the source files including sedtransO5mf and sedtransOSdll f to the current Matlab directory and then type mex sedtrans05m f at the Matlab prompt It is possible that Matlab must be configured for your Fortran compiler type mex help at the Matlab prompt for information how to proceed The syntax for using sedtransO5m is described in the file sedtransO5m m which can be shown by typing help sedtrans05m at the Matlab prompt and which is reproduced below OUT1 SEDTRANSO5M IN1 SEDTRANSO5M IN1 CONC BEDCHA SEDTRANSO5M IN1 CONC BEDCHA IN2 OUT1 OUT2 OUT3 PROFILE BEDTXT CONC BEDCHA SEDTRANSO5SM For non cohesive sediments 1 lt IOPT lt 5 SEDTRANSO5M takes 1 input argument For cohesive sediments IOPT 7 SEDTRANSO5M takes 3 or 4 input arguments Between 1 and 7 output arguments can be requested The input and output variables to Sedtrans05 are bundled into several arrays that follow the parameter order of the input output files of the batch version SED05 except the columns IRUN and ERR IN1 can be an array of 15 or 17 columns if all IOPT1 lt 5 non cohesive and only output arguments OUT1 and OUT2 are requested Array IN1 17 Input variables to Sedtrans for non cohesiv
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65. ver is shorter See the explanation file OUTID LST which is generated with the command line option e for more details If error or warning are generated they are reported in the text output file txt but only the first error or warning is specified in the tabular output file dat 17 If the command line option c is used to modify some coefficients the modified value are written in an additional output file log Instruction for the Cohesive Sediment Algorithm 19 Compilation of the source code The main elements of Sedtrans05 the calculations routines and the interfaces SED05 and SEDIID are written in FORTRAN77 They were developed with the compiler g77 that is freely available at http www gnu org software fortran The code follow the FORTRAN 77 standard with following exception IMPLICIT NONE statements comments starting with names of variables and routines longer than 6 characters INCLUDE statements calls to 2 functions retrieving the command line arguments which are specific to the compiler g77 ARGC and GETARG however the code can easily be modified to skip this code section The source files for SEDO5 console program for interactive or batch calculations consist of sed05 f sedtrans core f cohesive f bedform f sed_param h The main file is sed05 f which contains INDCLUDE statements making reference to all the other code files Therefore only sed05 f has to be sp

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