SISMER/SCOOP/MU/110 V4.2 02/05/00 Page 1 SYSTEM
Contents
1. Display a subset of profiles This option displaysa Profiles selection enabling the selection of profilesto display Display the profiles of another file This option enables displaying the profiles of a file selected using the Files selection window This window filters the files containing the same type of data asthe curent file File selection is proposed and validating these choices results in displaying the profiles of the file selected in white Erase the profiles of other files This option enables suppressing any profiles from another file than the current file All the profiles in the window displayed in white disappear SISMER SC OO P MU 110 V4 2 02 05 00 Page 48 IFREMER SCOOP user manual Allthe modifications are implemented upon validation of QC22 Cancel Displays a menu offering two options Cancel last modification Cancels the last profile flagging option and restores the previous values Cancel all modifications for this parameter Cancels all modifications flags set station suppressed line suppressed Next Displays the next couple of parameters Disabled if on the last couple of parameters Also updates any zoom window open Previous Displays the previous couple Disabled if on the first couple of parameters bi Also updates any zoom window open Validate Records all modifications and the flags set for all parameters and opens the quality flag entry window for all types of da2. IFREMER SCOOP user manual 4 Presentation of the SCOOP software The SCOOP software isa quality check QC chain customized foroceanographic data collected e Ata given point on all or part of the water column on vertical profiles station e Ata given point of the watercolumn during a given lapse of time time series This check consists in running a number of standardized tests in compliance with the recommendations of the Intergovemmental Oceanographic Commission upstream any archiving or broadcasting of this data In addition it enables handling the files SCOOP comprises the following functions e The monitor enabling to chain the various functions e The modules of the QC section assuch These modules are independent from one another e The tools The organization of the software in its operating version is SCOOP_HOME bin data Ex cutables Traits de c tes isobathes The SCOOP HOME directory is indicated with an environment variable The application s environment vanables are e HOME_CUMATO specifying the directory storing the climatology files e HOME _ETOPOS specifying the directory storing the etopo5 dat file e SCOOP HOME specifying the directory grouping the set of files required for the project e SERVEUR_DATA specifying the directory storing the copies of the data summaries to be archived in the SISMER server SISMER SC OO P MU 110 V4 2 02 05 00 Page IFREMER SCOOP user manual 4 1
3. The user can Create suppress or modify parameters and their different associated values For each parameter the user can associate minimum and maximum values fora specific zone MIN REGION MAX REG ON PIC REGION PIC BORNE REGION PRESSION MIN PRESSION_MAX fields in the PARAM REGION table and orthe same values regardless of the geographic zone MIN PARAM MAX_PARAM PIC PIC_BORNE fields in the PARAMETRE table 5 2 3 The other reference tables The user creates modifies or suppresses records in the tables CUMATOLOGIE CENTRE PAYS APPLICATION NAVIRE TYPE_DONNEE REGION FIC_PARAM PARAM_APPLI SISMER SC OO P MU 110 V4 2 02 05 00 Page 13 IFREMER SCOOP user manual 6 MONITOR FUNCTION The opening logo displays Figure 2 Monitor screen It isthe menu displayed for the user which remains constantly on screen The left hand column coresponds to the quality check steps the right hand column to processes associated with the tools It ison this level that the ship s maximum velocity can be chosen required for automatic checking The density threshold used by QC21 can be chosen To modify the default language for the SCOOP labels use the Version menu English or French SISM ER SC OO P MU 110 V4 2 02 05 00 Page 14 IFREM ER SCOOP user manual Activating the Data function results in redisplaying the heading s visual check screen in the viewing mode Button Validate and Quit invalid If the QC21 and Q
4. 2 Adding To add a Cruise in the main screen e Click Add e An entry window displays Figure 11 Add cruise window e Enterthe name ofa file present in the Database All the files present in the Database processing the same type of data and absent from the screen can be listed clicking the button in this window The list then displays the file name the reference and cruise name associated with this file e Click the file chosen with the mouse or enter its name using the keyboard Using the character enables choosing all the files with names containing a generic term e g Fil selects File1 File2 Validate the file name entered orchosen in the list by pressing Retum e The cruise added displaysasa double cruise and doesnot become the curent cruise e The map scale is recalculated SISM ER SC OO P MU 110 V4 2 02 05 00 Page 31 IFREMER SCOOP user manual 3 TL This button then enables viewing the list of cruises which are displayed graphically and changing the current cruise Note If only one cruise is displayed this button is disabled e Click The following window displays 71007111 bot FI35197100711 S H 02 atlantic bot FI35199100451 ROMANC Ib7301092 bot LBS52197301092 LEBAM Ib7 301093 bot LBS2197301093 LEBAM Ib7301095 bot LBS2197301095 LEBAP Ib7301096 bot LBS2197301096 LEBAP Ib7301097 bot LBS52197301097 LEBAM Ib7 301098 bot LBS2197301098 LEBAM Ib7301099 bot LBS2197301099 LEBAL Ib7301
5. station 2 PRES PHOS NTRA NTRI SLCA station 3 PRES TEMP PSAL PHOS NTRA NTRI SLCA when adding DOX1 to all the stations in the file The list displayed is PRES TEMP PSAL PHOS NTRA NTRI SLCA DOX1 1 2 3 4 5 6 7 8 If the sequence proposed is not changed the output is station 1 PRES TEMP PSAL DOX1 station 2 PRES PHOS NTRA NTRI SLCA DOX1 station 3 PRES TEMP PSAL PHOS NTRA NTRI SLCA DOX1 If the sequence proposed is changed PRES TEMP PSAL PHOS NTRA NTRI SLCA DOX1 1 2 3 5 6 7 8 4 the output obtained is station 1 PRES TEMP PSAL DOX1 station 2 PRES DO X1 PHOS NTRA NTRI SLCA station 3 PRES TEMP PSAL DOX1 PHOS NTRA NTRI SLCA SISMER SC OO P MU 110 V4 2 02 05 00 Page 54 IFREMER SCOOP user manual 8 3 Suppressing parameters This function isenabled by clicking the Suppress parameters button Its purpose is to suppress one or several parameters in a file in the MEDATLAS format After clicking Suppress parameters the following window displays V users agence scoop data 6900 PRES SEA PRESSURE sea surface 0 TEMP SEA TEMPERATURE PSAL PRACTICAL SALINITY DOX1 DISSOLVED OXYGEN PHOS PHOSPHATE PO 4 P CONTENT NTRA NITRATE NO3 N CONTENT Figure 26 Suppress parameters window e Fillinthe Filename field The default file name proposed is that of the file subject to quality check If inappropriate click to access the list of files available Click Display the parameters The parameters present in the
6. DOUBLE DIFF TEMPS Time deviation defining the double stations between 2 cruises 1440 minutes default value QC 11 e DOUBLE DIFF POSMON Deviation in positions defining the double stations between 2 cruises 1 mile default value QC11 e DOUD ESGIA DIFFTEM PS Time deviation defining the double stations within the same cruise QC11 Default value 30 minutes e DO UBLESTA_DIFFPO SITION Position deviation defining the double stations within a same cruise QC11 Default value 1 mile e STAT FACMAXPRES Pressure test in respect of ETOPO5 QC 21 e UMITE ZONEI Upper depth for zone 1 QC21 e UMITE ZONE2 Upperdepth for zone 2 QC21 e STAT FAC TEURI Number of standard deviations in highly variable zone QC21 between the surface and LIMITE_ZONE1 default value 4 e STAT FAC TEUR2 Number of standard deviations authorized in medium variable zone 3 QC21 between LIMITE_ZONE1 and UMITE_ZONE2 e STAT FACTEUR3 Number of standard deviations authorized in low variation zone QC21 between LIMITE_ZONE2 and the floor default value 2 e DEC DOUBLE AFFIC HAG E Default offset for double profiles Default value 10 pixels QC12 default value 2 INC ERTITUDE_PROF Uncertainty on ETOPOS for pressure control PRES gt PROF heading INCERTITUDE PROF Default value 5 QC21 NBPRESC RO ISSANT Number of points at beginning and end of profile to test whether a profile is reversed Default value 5 QC 21 e POURCENTAGE Q
7. The tests QC 0 Input format check Displays the list of any anomalies encountered QC 11 Automatic header check Search for double entries within a preset space time radius Date check Checks ship velocity between two consecutive stations Floor depth check In the case of time series e Sensor depth check e Series duration check e Search for double entries acknowledgement of the sensor s depth e Land position QC 12 Header visual check e Station position chart or time series on the map with coastline e Ship velocity graph e Viewing possible fora bathymetry selection e Slightly offset display of another cruise if one or several stations comprise double entries QC 21 Automatic parameter check measurement points e Presence of at least two parameters vertical reference measurement e The abscissa pressure or time must be monotonous increasing e Pressure must not exceed the equivalent of the floor depth e The parameters must be included between the minimum and maximum limits according to the region the region is displayed on the enor message and depth Fora time series in the absence of PRES SENSOR DEPTH is used to determine the minimum and maximum values to be used e The profile must not be constant sensor jammed or faulty e Peaks are detected e Test on deviation in respect of pre existing climatological statistics for the zone e Tests specific to certain parameters no density inversion on the vertical e T
8. V4 2 02 05 00 Page 21 IFREMER SCOOP user manual 7 3 QC12 Header visual check This function islaunched automatically afterQC11 It presents the results from QC11 but also enables the userto adjust them e Corect crise header e Corect station header e Rejecta file in the case of double entry checking e Correct the flagsset during the QC11 automatic check These modifications are taken into account only upon completion of the work using the Validate button A N For the presentation the color code of the data matches the value of the maximum value flag Fag Color rd ed 2 4 4 O o Back Displaying results starts with the following window which remains constantly displayed during the entire visual check session SISMER SC OO P MU 110 V4 2 02 05 00 Page 22 IFREMER SCOOP user manual 89762111 bol Sasereveoeteeabisatiiie FUSED 26598211 r I Traite de cotent 1EM Figure 6 Header visual checking screen The main part on the right hand side is the map associated with the cruise From the file chosen on the monitor level the stations display on the map background The geographical limits are calculated according to the position of end stations with a margin on either side All the cruise s stations display on a cartographic background Coast lines and even bathymetry from GEBCO The longitudes and latitudes display in the form of a grid the map backgroundsare presented in equidist
9. be processed on SISM ER SC OO P MU 110 V4 2 02 05 00 Page 15 IFREMER SCOOP user manual another monitor An identical window then displays the message File being processed on another monitor and it retums the userto the selection of another file If the file has never been checked only the Format button is enabled in the other cases the Format Header and Data buttons are enabled according to the file s state of progress in the quality check chain The checks possible are those already run as well asthe next one in the chain The various states of progressare e 0 format check run Format Header enabled e 11 headerautomatic check run Format Header enabled e 12 header visual check Header amp Data enabled e 21 automatic parameter check run Header amp Data enabled e 22 parameter visual check run Format Header amp Data enabled To move from one button to another use the mouse orthe Tab key The Header button enables the automatic headercheck and chaining with the header visual check is immediate and requires no user intervention The Data button enables changing parameters then automatic parameter check and checking the chaining with the parameter visual checking is performed The right hand part of the monitor screen similar to a file manager enables activating e Create summary generates summanes e Add Parameters adds parameters at their defau
10. cruise subject to quality check all the fields can be modified except the station s reference field The Validate button is enabled Conversely if the station selected belongs to a double cnuise none of the fields can be modified and the Validate button is disabled SISM ER SC OO P MU 110 V4 2 02 05 00 Page 26 IFREMER SCOOP user manual e A second part displaying the characteristics of the station related with the time series This part is accessible field selection only in the case of time series data e A third part listing any emors detected during the QC11 stage forthe station considered The third part of the screen cannot be modified This window also has the following functions e The Next and Previous buttons enable moving inside the stations list ordinates by date The Next button is disabled on the last station and the Previous button is disabled on the first station Each action performed moves to another curent station and changes the contents of the station screen e The Validate button enables global validation of the modifications performed on the various stations selected using previous buttons e Manual flag modification For each field Date Latitude Longitude and Depth you can force the value of the flag If a flag value is 5 it cannot be modified bi The value modifications date position depth must be performed during the first run in QC12 You can modify the flags only dur
11. is presented using the color code of each station s global quality flag e Modifying the curent viewing window using the zoom function To zoom in click the Zoom button then outline the new viewing window using the mouse second button This operation can be renewed In any case to retum to the previous situation press Zoom and to the initial situation with a 24 click on Zoom e Changing certain viewing options Click the bathymety Add or cancel the display of bathymetry from the GEBCO or CARTOLB files A window containing the bathymetry caption displays Click the Station numbers Add orcancel the display of the station numbers Click the Station links Add or cancel the display of the links between stations the stations are related chronologically The top left section provides information related with the cruise Initially it is the cruise subject to quality check which is described Later it will be the current cruise i e the one selected by the user when clicking its profile using the mouse You can also change the curent cruise using the J button located next to the cruise reference If the current cruise is the cruise subject to quality check its fields can be modified more particularly for e The fields showing a color indicating a problem SISM ER SC OO P MU 110 V4 2 02 05 00 Page 24 IFREMER SCOOP user manual A bar chart represents the ship s velocity during the cruise If required a cursor ena
12. number date position and depth are displayed on the lower left part of the screen e Under the offset profiles window The button enablesa station description e Click e The following window displays presenting the entire station header and data SISMER SC OO P MU 110 V4 2 02 05 00 Page 43 IFREMER SCOOP user manual FT3519690031100830 Data Type H09 DATE 13041969 TIME 0700 LAT N42 30 00 LON E008 28 98 DEPTH 800 NB PARAMETERS 06 RECORD LINES 00016 PRES SEA PRESSURE sea surface 0 Cdecibar 10000 pascals TEMP SEA TEMPERATURE Celsius degree PSAL PRACTICAL SALINITY CP S U DOX1 DISSOLVED OXYGEN ml 1 PHOS PHOSPHATE PO4 P CONTENT Cmillimole m3 NTRA NITRATE NO3 N CONTENT mil limole m3 GLOBAL PROFILE QUALITY FLAG 1 GLOBAL PARAMETERS QC FLAGS 111100 W HISTORY INSTRUMENT BOUTEILLES 0H HISTORY COMMENT EI SURFACE SAMPLES E Figure 20 Station Description window A horizontal scroll bar enables viewing all the information You can suppress points in the current profile In order to do this the lines to be suppressed are highlighted and the Delete button clicked The Default value button enables assigning the parameters selected to their default value The Quit button enables using this window to view the station s specifications e The Keep and Reject buttons enable managing the double entries detected during QC 21 Reject changes the color of the profile
13. one or several files containing the stations It takes into account only the MEDATLAS format After clicking Concatenate files the following window displays Figure 29 Concatenate files window e Click e A file selection window displays SISM ER SC OO P MU 110 V4 2 02 05 00 Page 58 IFREMER SCOOP user manual fusers agence scoop data sfagence scoop data fusers agence scoop data fusers agence scoop data Resume fusers agence scoop data climato fusers agence scoop data recette fusers agence scoop data test V ege fusers agence scoop data 69003111 boff Figure 30 File selection window forconcatenation e Choose the file containing the cruise header Select the directory then the file To accessall the directory and files use the vertical scroll bars These are fully visible using the horizontal scroll bars To launch concatenation the module takes the selected file to read the cruise header and all the other files in the same directory in the alphabetical order to read the stations Concatenation is performed only with the files containing the same list of parameters e Then enterthe name of the output file in the Final file name field It will be generated in the directory containing the input files e The Ina distinct file or With each station buttons enable defining whether the cruise header isin each file Option With each station or in the first file e Click Cancel to quit
14. the MEDATLAS format The file comprises a cruise header and a seres of station profile headers e The application parameters Output e The checked filesfor which each numeric value is completed with an indicator or flag The data is never modified e The list of anomalies encountered during the various checks SISMER SC OO P MU 110 V4 2 02 05 00 Page IFREMER SCOOP user manual Upon starting the application displays for 5 seconds adjustable time the following logo Figure 1 Logo screen SISMER SC OO P MU 110 V4 2 02 05 00 Page 10 IFREMER SCOOP user manual 5 Application parameters 5 1 Presentation of the parameters The following parameters must be initialized in a PARAM_APPLI table CH DIR TRAVAIL Path of the directory for the application s intemal working files e USTE IMPRIMANTE List of printers available e USTE VITESSE List of the velocities in the Ship velocity in knots menu in the monitor screen VITESSE_DEFA UT Default ship velocity 15 e TIME OUT Time out for the SISMER LOGO screen time after which the window disappears default value 5 seconds Monitor e EPS DEFAUT Default value for the vertical instability threshold accepted 0 03 in sigma t EPS DEFAUT default QC 21 DECALAGE PROFILS Default offset for offset profiles Default value 30 pixels QC22 e DOUBLE NB STATIONS Number of double stations default 1 station QC11 to detect double Cruises e
15. 4 match a land position QC_ELON 4 Tests for double entries within the Double entry station input file considering the sensor depth SISMER SC OO P MU 110 V4 2 02 05 00 Page 20 IFREMER SCOOP user manual These messages and flags are logged into the Database according to the following principles If before the check the flag is different from 5 it is updated in the STATION table and the message is inserted into the ERREUR STA table The previous checks performed on the headers are automatically followed with detection of the double entry data A file willbe consdered asa double entry of the processed file if It has been run through this check and e Itisrelated with a cruise performed on the same ship at a period matching that of the cruise being processed ina different geographical zone or e It is related with a same cruise for types of data all included in the file processed or e N stations in this file match stations in the file processed at D miles and T minutes close The N D and T parameters are defined in the PARAM_APPLI table in the database During the check they are read respectively in the fields DOUBLE NB STATIONS DOUBLE DIFFPOSITION DOUBLE DIFFTEM PS In the case of time series when detecting a double entry the depth of the sensor is also taken into consideration The depth of the two time series are not equal to plus or minus DOUBLE DIFFPROF field in the PARAM _APPLI table SISMER SC OO P MU 110
16. 910 bot LBS2197301910 LEBA Ib7301911 bot LBS2197301911 LEBAR Ib7 301912 bot LBS2197301912 LEBAM Ib7 401101 bot LBS2197401101 LEBAP Ib7401102 bot LBS2197401102 LEBAP Ib7401103 bot LBS2197401103 LEBAM lb7401104 bot LBS2197401104 LEBAM Figure 12 List of cruises displayed window The star marksthe cruise subject to quality check Choose a cnuise and click it using the mouse Validate it by clicking Validate The characteristics of the cruise chosen then display in the Cruise Description window and the cruise becomes the curent cruise SISM ER SC OO P MU 110 V4 2 02 05 00 Page 32 IFREM ER SCOOP user manual 4 Reject When a double entry is detected for the file subject to quality check Enables suppressing either the double entry cruise or the cruise subject to the QC Note If only one cruise is displayed this button is disabled e Click Reject e The following window displays Figure 13 Reject window e If only two cruises are displayed on the map background the valid cruise is the one not rejected and the Valid Cruise field cannot be modified e f more than two cruises are displayed and if the cruise to be suppressed is the cruise subject to quality check the reference of the valid cruise must be entered Click The list of references forthe cruises displayed except the one to be suppressed displays Choose a reference using the mouse e If the cruise to be suppressed is not
17. C 22 checks have been run it is possible to skip the QC 21 or QC 11 check again Request Checks already run Do you wish to run them again yes or no As its name suggests the Quit button enables quitting the application at any time The state of progress of the file checked is then that of the last process performed and validated applied to it When starting SCOOP only the Quit File selection buttons and those in the right hand column are enabled They will remain so constantly except during processing The user can choose the MEDATLAS file to check using the File selection button which provides access to a file selector e Click the Cancel button to prevent selecting files In this case the chaining monitor will retum systematically to the presentation described above e Click the Filter button to display the files in the selected directory nce scoop data fusers agence scoop data Resume fusers agence scoop data climato fusers agence scoop data recette fusers agence scoop data test users agence scoop data 69003111 bot Figure 3 Files selection e Select the file using the mouse e Click Validate to confirm your selection e The name of the file selected then displays in the heading of the monitor window The file selected is immediately made inaccessible on all monitors in the network It will be released when the user processing it selects a new file Conversely the file selected can already
18. CPROFIL QC percentage of the profile points in order to assign the global QC to the profile Default value 50 QC 22 e POURCENTAGE PROFSTAT Uncertainty on ETOPOS5 for station depth control QC11 Default value 20 SISMER SC OO P MU 110 V4 2 02 05 00 Page 11 IFREM ER SCOOP user manual e LANGUE DEFAUT Default language E English and F French If this choice is not modified on the monitor level the language chosen is used for all labels in the SCOOP software e ECART PRESSION Pressure deviation for file merge eSIAT FACTEUR ST QC21 Number of times standard deviation fora time series intervening in out of envelope detection ePOURCENTAGE DISIFOND QC21 Uncertainty on time series depth eLARG EUR FILTRE QC21 Width of the LANCZOS filter eDUREE SERIE MIN QC21 Minimum duration of a time series ensuring it passes in the LANC ZOS filter eINTERVALLE SERIE QC21 Minimum gap between two time series measurements for the LANC ZOS filter eDOUBLE_DIFFPROF QC21 Sensor depth difference for double time series detection eLISTE_EPS List of insta bilities proposed on the monitor screen SSM ER SC OO P MU 110 V4 2 02 05 00 Page 12 IFREM ER SCOOP user manual 5 2 Configuration maintenance This module isa self standing module as it isnot called by the chaining monitor It enables creating a group of parameters GROUP table matching a list of parameters to check These parameters are grouped into couples X
19. IFREM ER SCOOP user manual SYSTEM OF CONTROL ORIENTED OCEANOGRAPHIC PARAMETERS SCOOP USER MANUAL VERSION APPLICABLE Written by Signature and date Approved by Signature and date D BARDET Approved by Signature and date Approved by Signature and date SISMER SC OO P MU 110 V4 2 02 05 00 Page IFREMER SCOOP user manual VERSION HISTORY Written by Object of modification DESCHAMPS Creation BARDET Following proof reading by IFREMER Modifications related 7 8 9 11 12 with the upgrades of 14 22 23 33 SCOOP version 2 0 35 37 42 43 9 10 11 13 14 16 17 18 1920 21 2 Customer proof read 2 23 24 25 26 3 1 33 34 36 37 4 2 43 45 7 12 37 i Upgrade file loading 5 7 8 9 10 11 12 46 tool added 1314 16 19 20 25 26 27 35 40 41 42 43 44 45 48 50 GOARIN Upgrade added the 5 7 10 26 34 Merging and Add 35 43 46 parameters tools Upgrades for software 5 38 54 version 4 1 Software version 4 2 4 7 8 9 19 27 28 36 37 40 41 42 43 44 45 46 58 SISMER SC OO P MU 110 V4 2 02 05 00 Page IFREM ER SCOOP user manual CONTENTS NR OB BCT KE 4 2 DOCUMENTS APPLICABLE AND REFERENC E DOC UMENTTS KR EEEEERKREEEEERKREEEEERKR KEE KREE KREE KREE 5 ZLO DOCUMENT APPLICABLE 5457 i SEES SES BE E E SEER ere NGRE 5 2 2 REFERENC ED CUMENTS as EEN GERE REE 5 3 ERMINOLO GYDER IDEER DERE ES ne 6 4 PRESENTATION OF THE SCOOP SOFTWARE cccceesseeeesaeeeeeeeaeeeeeseaaeeeeeeaaeeeeeeaaeeeeneaaeee
20. MER SCOOP user manual The Next et Previous buttons enable changing the curent profile SISMER SC OO P MU 110 V4 2 02 05 00 Page 46 IFREMER SCOOP user manual All profiles Displays or removes the non curent profiles in the superimposed window In the case of a time series the profile filtered is superimposed on the data The curent profile s average and standard deviation are also displayed Climatology selection The button enables choosing a climatology different from the default climatology Hag selection Select the flag then click the part of the work profile to flag Print This menu comprises three selections Print superimposed To print the contents of the superimposed viewing window One or all profiles according to the choices made using the All profiles button Print offset To print the contents of the offset profiles viewing window Print Zoom To print the contents of the zoom window if it is present on screen The cruise name is added in the printed charts Choosing one of these sub menus results in displaying the following window LIST OF PRINTERS sis2 xpr device ps gray 3 densi isis xpr device ps gray 3 densi1 rich xpr device ps plane 5 dens EI E St Print in a file OK P Validate Cancel Figure 22 Printer list window SISM ER SCOOP MU 110 V4 2 02 05 00 Page 47 IFREMER SCOOP user manual This window enables the user to choose th
21. P Tisa couple of parameters Group of parameters Intemal SCOOP notion The parameters are grouped in order to facilitate data validation Hence several parameters are validated in each validation chain process A group compnises several parameter couples e g The TS group comprises the P Tand S parameters and the P 1 P S T S couples There is a fictitious group matching the validation of the headings named with the code GOO Parameter Heading of a column of figures matching the same type of measurements or calculations It is included in station headings Encoding for these parameters is identical to that of GF3 All parameters measured orcalculated present in a data file are listed in the station heading Type of data Information contained in the cruise and station headers This type corresponds to the ROSCOP code for data acquired during a cruise fora station For a cruise there can be several types of data fora station a single type of data is included in the heading i e H10 for CTD data or HO9 for bottle data Progress status A value associated with a file specifying the checks performed Progress status for the checks is related with a data file and a group of parameters on the QC1 level this group is set to G 00 Time series The reference parameter of files containing time series is time represented using the following parameters e YEAR MNTH DAYX TIME or e YEAR DATE TIME SISMER SC OO P MU 110 V4 2 02 05 00 Page
22. RES is disabled and it must be explicitly pressed to flag pressure again e All the points included in this window then receive the flag level selected and are replotted using the color matching the flag e Inthe case ofa time series the PRES button is greyed e The profile s global flag is calculated as being the smallest global flags of the parameters with the exclusion of the reference parameter pressure for vertical profiles and time for time series SISMER SC OO P MU 110 V4 2 02 05 00 Page 50 IFREMER SCOOP user manual 8 FILE MANAGEMENT RELATED FUNCTIONS 8 1 Generating summaries Activate this function by clicking the Create Summary button Its purpose isto generate cruise summaries and data summaries for cruises to be archived in SISMER s SERVEUR application After clicking Create Summary the following window displays SUMMARY CREATION File name users agence scoop data 69003 ae All stations SERVEUR informations Cruise number Database code Sensor type Code of the Data responsible Archive address Validate Cancel Figure 24 Summary generation window Entering certain information is required in order to insert the data in SSMER s SERVEUR base To fill in the various fields proceed as follows SISMER SC OO P MU 110 V4 2 02 05 00 Page 51 IFREMER SCOOP user manual e Move to the field using the mouse orthe Tab key e Fill in the fields using the keybo
23. This function is enabled clicking the Add parameters button Its purpose isto add one or several parameters in a file in the MEDATLAS format After clicking Add parameters the following window displays users agence scoop data 6900 ABCP ALPHA BETA CAROTENES ALKW ALKALINITY ALKY ALKALINITY AMON AMMONIUM NH 4N CONTENT ASDW ABSORPTION STANDARD DEVIATION ATMP ATMOSPHERIC PRESSURE ATMS ATMOSPHERIC PRESSURE SEA LEV AMAP ALLOXANTHINE BATH BATHYMETRIC DEPTH BCCW NUMBER OF BACTERIA CELLS SW BCMW BACTERIAL BIOMASS IN SEA WATER BFUP 19 BUTANOYLOXYFUCOXANTHINE CIUW 14C UPTAKE 0 2 1 MICRON Figure 25 Add parameters window Fillin the File name field The default file name proposed is that of the file subject to quality check If inappropriate click to access the list of files available e Using the mouse select the parameter s to be added e Click Cancel to quit without modifying e Click Validate to actually add the parameters in the file selected The list of all files present in the output file displays and a sequence is proposed for these parameters This sequence can be changed by the user If the user attempts to add a parameter which already exists in all stations in the file an error message displays SISM ER SC OO P MU 110 V4 2 02 05 00 Page 53 IFREMER SCOOP user manual Example File for 3 stations containing respectively the following parameters station 1 PRES TEMP PSAL DOX1
24. Y COUPLE table in order to enable their viewing in the form of a curve It also enables associating with each parameter value limits per geographical zone and valid default values which will be used pergeographical zone and default value limits which will be used for specific regions table PARAM_REGION Finally it enables performing maintenance forthe reference tables CUMATOLOGIE C ENTRE PAYS APPLICATION NAVIRE TYPE_DONNEE REGION FIC_PARAM PARAMETRE and the application s configuration table PARAM_APPLI Description of the functions 5 2 1 The groups The user enters a group name and links parameters with it To these parameters must be associated with a reference climatology which will be used in the processes as the default climatology Once the group name has been entered or selected in a list NOM GROUPE from the GROUPE table the parameters can display in the form of a list of values code GF3 label matching the CODE_PARAMETRE and NOM_PARAMETRE fields of the PARAMETRE table and the user can select one or several parameter couples and associate them with a climatology CUMATOLOGIE table By default this climatology is LEVITUS 98 when the user doesnot enter one If the group name exists the user modifies the group required The list of couples of parameters displays and the usercan e modify an existing couple change a parameter or the climatology e suppressa couple e add a couple 5 2 2 The parameters
25. ameter couple The errors found during automatic checking are represented on the screen using color codes Fag Color Ra The user can only correct the flags associated with the data The main interface window displayed at the beginning is as follows D 9 SISMER SC OO P MU 110 V4 2 02 05 00 Page 41 IFREM ER SCOOP user manual 7 6 1 Description of the functions PAL PRES statian 3 FEDIPREO 1 ee 38 85 36 40 36 6 34 44 30 V Figure 19 Parameters visual check window It is divided into four parts es Top left window Offset view of all profiles The title of the window indicates Cruise number amp name The horizontal cursor located under the window enables viewing all profiles These display according to the chronological sequence Between each profile a pixel offset is applied Its default value is 30 but it can be adjusted using the sliderin the top middle section of the screen e Choose the offset step SISM ER SC OO P MU 110 V4 2 02 05 00 Page 42 IFREMER SCOOP user manual e Validate using OK In the beginning the current profile is the first profile containing an eror The color code used to show the anomalies flags detected by the QC21 automatic check is tat listed in the table above In the couple the color used is the color of the highest level flag among the two parameter Click on the profile to make it the curent profile and display it in bold It also becomes the
26. anomaly calculation between the previous level and the current level Comparison of the difference in density with the threshold chosen on the level of the Monitor window This threshold cormesponds to a maximum accepted instability e Pressure check This check is specific to the time series Pressure coherence is checked with the sensors depth and the distance separating the sensor from the floor e Curent meter check This check consists when using a Current meter in testing forthe presence of at least one of the HCSP HCDT or NSC T EWCT couples If none of these couples is present the seres global flag is set to 3 If the direction of the current orthe heading is flagged at 3 or 4 the conesponding East and North components are flagged identically At the output of QC 21 the contents of the ERREUR CAM ERREUR_SIATand ERREUR VAL tables are copied into an ASCII file named after the file being validated plus the extension er2 SISMER SC OO P MU 110 V4 2 02 05 00 Page 40 IFREMER SCOOP user manual 7 6 QC22 Parameters visual check Enabled automatically after completion of QC21 the purpose of this module is to present the result from the previous automatic checks QC 21 It isa graphic representation of the parameter couples of the group selected by the user The representation of the parameters is performed by couple according to a sequence defined in the group Therefore only one viewing window displays with one par
27. ant cylindrical projection When a file processed has already been run through this check and when enors remain following correction related with stations these display in an information window The latter can remain displayed during the entire check SISM ER SC OO P MU 110 V4 2 02 05 00 Page 23 IFREMER SCOOP user manual Upon first display on screen e The cruise on which quality check is run displays in color the points of the stations for which emors have been detected appear according to the color code defined above When several errors are detected on a single station the display color is that of the quality flag with the highest value e The points of the stations are interconnected but the station numbers are not displayed e Any double cruises detected display identically as the curent cruise with the exception of their color Grey The station points are translated by n pixels downwards in order to prevent overlapping which would hide an exact double nisa value read in the PARAM_APPLI DEC DOUBLE AFFICHAGE table default n 2 e The coastline displays bathymetry is not displayed e A station is circled in bold on the map It isthe current station cormesponding to the first station with an eror Other functions are accessible on this level e Changing the curent cruise by selecting a station from a greyed out cruise The description of the cruise selected displays in the Cruise description window and the latter
28. ard File name The default file name proposed is that of the file subject to quality check If itis inappropriate click to access the list of files available If the file selected has not fully succeeded the quality check chain a pop up message notifies you e At the output 2 cases are possible There isa cruise summary file and a data summary file All stations are in the same file This usually occurs for bottle data H09 There isa cruise summary file and as many data summary files as there are stations in the cruise This often occurs with CTD data H10 This selection is performed using the buttonsin the section Summary type Cruise number Compulsory numeric field fixed length 8 Number assigned to the cruise within the SERVER Base code Compulsory uppercase character field length 6 Encoding intemal to the SERVER application matching the data Sensor type Non compulsory field length 20 Code of the data responsible Uppercase characters field length 7 Encoding intemal to the SERVER application Archive address Field comprising maximum 36 characters Address on magnetic disk accessible via NFS where the data files will be stored bi The various codes entered are not checked in respect of the values existing in the SERVER e Once all fields have been filled in click Validate SISMER SC OO P MU 110 V4 2 02 05 00 Page 52 IFREMER SCOOP user manual 8 2 Adding parameters
29. ated ona North or West border of the region e Reference parameter pressure time increasing Compliance of the profile with marine physical logic e g Pressure increases with depth e Comparison with statistics Pressure check Comparison of pressure with the PROFONDEUR parameter when the depth is filled in the station header otherwise statistical references ETOPO 5 e Comparison with statistics Temperature and other parameters check The statistics used in the comparison are stored in several files In the case of a time series there are no statistics Checking is performed in respect of the medium and standard deviation calculated on the data Only bearing is excluded HCDT parameter from this calculation The FACTMUL_1 FACTMUL_2 FACTMUL_3 fields of the climatology table are multiplied by the standard deviation of the PARAM _APPLI table according to the relationship of depth with one of the three zones defined by LIMITE ZONE1 LIMITE_ZONE2 and LIMITE_ZONES from the PARAM_APPLI table matching respectively 1 the continental plateau 2 the threshold zones and dope 3 deep sea e Constant profile A constant parameter cormespondsto a parameter blocked or failed e 6 Peak test Check performed on the entire profile in orderto detect isolated value peaks SISMER SC OO P MU 110 V4 2 02 05 00 Page 39 IFREMER SCOOP user manual Gradient test at profile beginning and end e Density inversion Density
30. bles browsing it fully A During the entire QC12 session the velocity displayed remains that of the cruise subject to quality check the reference of which is specified in the heading of the Ship veloc ity window e The window sheading indicatesthe reference of the cruise subject to quality check e The ordinates axis is graduated in knots the abscissa represents the stations having their numbers displayed e Ared barchart indicates that a velocity anomaly hasbeen detected for this station during the visual check e Click one of the chart s barsto display the station description window for the station matching the bar chart s abscissa selected and the station becomes the current station It is circled on the map Therefore this functionality provides direct access to the stations for which ship velocity anomalies have been detected during QC11 This window is active only when the current cruise is the cruise subject to the quality check SISMER SC OO P MU 110 V4 2 02 05 00 Page 25 IFREMER SCOOP user manual Click a current cruise station to display its specifications The Station Description window then displays the station becoming the curent station and circled on the map Fal se duration of the series 712 750000 Figure 7 Station description window This window comprises three sections e A description part as such displaying the station s main specifications If the station selected belongs to the
31. confirmation window If QC21 hasbeen run you are prompted to confirm whether you wish to run it again Figure 18 Running QC21 ornot e Click Cancel in the main screen to retum to the chaining monitor SISM ER SC OO P MU 110 V4 2 02 05 00 Page 38 IFREMER SCOOP user manual 7 5 QC21 Automatic parameter check Launched immediately after the parameter loading this function does not have a user interface and runs totally seamlessly It enables performing the following checks e Acceptable data Checks the presence of the PRES reference parameter for vertical profiles and the date for the time series and at least one other parameter e Regional data impossible Coherence check on the parameters value in respect of the parameters minimum and maximum values forthe region considered The minimum and maximum values fora parameter can be checked according to the measurement depth fora given region A point belongsto a single region Fora time series in the absence of PRES the SENSOR DEPTH field is used to determine the minimum and maximum values to be selected If an error occurs the message contains the region s code The regions are not always separate A station can be located at an intersection between regions one region contains only the North and West borders In this case the station located ona border belongsto the region with the highest level of hierarchy HIERARCHIE field in the table if the station is loc
32. curent profile forthe superimposed mode display window e Right hand window Superimposed view of all profiles amp Climatology selected on the chaining monitor level The chart s title is the number of the current station The scale is calculated from the profiles displayed with a 5 margin on either side By default all profiles display The reference profiles display in blue average in continuous line standard deviation in dotted line If it does not display this means climatology isnot available around the measurement point The climatology selected also displays in the case of a parameter according to PRES The profiles displayed on the background are greyed To show the anomalies detected during QC21 the color code listed in the table above is applied to the curent profile For the chemical parameters connected using a reference line the reference line for the profile s geographical region is displayed To choose another reference climatology e Inthe Climatology section in the center of the screen Click next to the climatology window e A list ofthe climatologies available forthe validated group of parameters displays AN This choice does not result in a modification of the flags associated to the data but merely hasan information value forthe user Click a profile in order to make it the current profile It also becomes the curent profile for the offset profiles window For the current profile the station
33. d by clicking the monitor s Data button It enables selecting the group of data to be qualified Therefore it prepares the following steps QC21 amp QC22 Upon launching the following screen displays Cl S R R Group Climatological reference PTS DENS P T S DOX1 DENS P TS DOX2 DENS Validate Cancel Figure 15 Group selection window SISMER SC OO P MU 110 V4 2 02 05 00 Page 36 IFREMER SCOOP user manual e Choose in the list of all groups available the group to be associated with the file to be checked e When the group has been chosen the list of possible climatologies displays in the right hand list with one of the climatologies highlighted This climatology is considered as being the default value To change this choice click another climatology bi The Validate button is accessible only when one of the groups has been explicitly chosen CI Sere Group Climatological reference P T S DENS gt Levitus 94 P TS DOX1 DENS Levitus 98 ET 1X1 P T S DOX2 DENS LEVITUS 98 ET 5X5 ol ud MEDATLAS 1997 MODE 1995 V5 SSS Validate Cancel Figure 16 Parameter loading window e Whena group and a climatology have been selected click the Validate button to start loading SISMER SC OO P MU 110 V4 2 02 05 00 Page 37 IFREMER SCOOP user manual e You are prompted to confirm the choice for group and climatology Figure 17 Climatology
34. e type of print out required e Print in a POSTSCRIPT file by checking the Print in a file box and entering the file name in the Validate text field e Normal printing selecting one of the printers in the list above The Cancel button closes this window without any action whereas the Validate button starts the print out required Options This button displaysa menu containing the following choices Plots points of measurements This option enables displaying the measurement points on the curent profile in the superimposed profiles window or the zoom window You can by clicking on a measurement point see the value in x y for this point These values display in a small window which disappears when releasing the mouse button The button s label is replaced with Delete points of measurement In the case of a time series the display format fora measurement point is ETDD year month day time Delete station This option removes the curent profile This profile is suppressed in the output file A confirmation prompt displays The profile s color changes light green Default value All the points in the current profile are set to the default value In order to enable this function the Y parameter must be PRES and the X parameter a measured parameter A confirmation prompt displays Update station comments This option displays a Comments window enabling the userto view or change the curent profile comments
35. eeeaaeeseoeaaeeeeneaaeeenss 7 Aad iMAE TESTS EE EEEE FS E EE 8 4 2 ASSOCIATED Lee 9 4 3 SSOPIWARE INRUT OUTP UT is orrae aea a gedeien ES sde de dE EA E ENAN E AE EEN 9 5 APPLICATION PARAMETERG cccccssseecesneeeeeenneeeeanaeeeeananseeeannnseeeananseeeanauseeeanaueeeeauanseeeauaneeseaeaneeeesonnes 11 5 1 PRESENTATION OF THE PARAMETERS cccccseececeeeeeeeeeeeeeeeeeaeeeeeeeseeeeeeeaaeeeeeesaeeeeeeaaeeeeeeaaeeeeeesaeeeeesaaneeennnags 11 532 CONFIGURATION MAIN TENANGE picctands dieccessivaceedauns e AE EE aaa ccasuceteudedheudeveuntiteddums soacedawantes 13 521 Ce Tree E 13 522 Whe parameters aisle Ai bai de Ai ei Se ee Ae ee 13 5 2 33 The other reference tables ce ccccseccecesseeeeeeeeeeeeeeeeeeeeeeeeeeeeeeseeeeeeeseeeeeeseeeeesaaeeeeesaaneeeeenags 13 Gfclelduel2e le el TTT 14 7 QUALITY CHECK RELATED FUNCTIONS 10cccccseeeeeesnneeeeesnnnseeesnaneeeesnnneeeeananseeeananeeeeananseeeauaneeeeananseessoanss 17 Ze OCOFORMAT CHECK EE 17 KSC SQ CTI AUTOMATIG HEADER CHECK E 20 Par Q C12 HEADER ee EE 22 7 4 CR LOADING PARAMETERS eu NEKENER NEEN arasseelanaianesanassivs REE En NANREN AEREN ER Eee NNN 36 Zb QC21 AUTOMATIC PARAMETER CHECK 39 ZP OC 22 PARAMETERS VISUAL CHECK oiie rE A KEEN EEN EE ENEE NR 41 7 6 1 Description of the Tunc tons de ae rer de NEA EEA EE N 42 NO 2 Operin Mod EE 50 8 FILE MANAGEMENT RELATED FUNCTONS ss sssssssssssnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn KREE nnmnnn nnmnnn nn
36. ests in the case of current meter of the presence of at least one of the velocity heading or Ea st North couples e Specific test on pressure in the case of time series e In the case of current meter time series if the heading or velocity of the curent is flagged at 3 or 4 the flag iscamied overto the East and North components QC 22 Parameters Visual C heck e Superimposed charts Offset charts Zooming M Possibility to recall another cruise on the zone SISM ER SC OO P MU 110 V4 2 02 05 00 Page IFREM ER SCOOP user manual e Profile display filtered in the case of time series e Display of the reference profiles and variation envelope e Display specific to certain parameters Redfield ratio 4 2 Associated tools Parameter suppression Suppress parameters Parameter addition Add parameters Merging Merge files Concatenation Concatenate file File splitting Split file To prepare the data files upstream the chain e The Statistics tool Statistics enabling to print the contents of the STAT GLOBAL and STAT PARAM tables e The Load file tool Load Files enabling to load a set of files in the MEDATLAS format without requiring user intervention In addition a specific SISMER tool e Create summary Summary enabling the generation of operating reports forthe archiving center SISMER 4 3 Software Input Output Input e The data isin the form of an ASCII file in
37. file display Using the mouse select the para meters to be suppressed Click Cancel to quit without modification or Validate In the latter case confirmation is required In case of confirmation the parameters are suppressed SISM ER SC OO P MU 110 V4 2 02 05 00 Page 55 IFREMER SCOOP user manual 8 4 Merging files This function isenabled by clicking the Merge files button Its purpose is merging two MEDATLAS files together After clicking Merge files the following window opens Vusers agence scoop data 69 Figure 27 Merge files window e Click foreach of the filesto be merged e A file selection window displays SISM ER SC OO P MU 110 V4 2 02 05 00 Page 56 IFREM ER SCOOP user manual fusers agence scoop data fusers agence scoop data fusers agence scoop data Resume fusers agence scoop data climato users agence scoop data recette users agence scoop data test Figure 28 Selection window for files to be merged e Then enter in the Output file name field the name for the output file It will be generated in the application s current directory e Click Cancel to quit without generating any merge e Click Validate to merge both files SISM ER SC OO P MU 110 V4 2 02 05 00 Page 57 IFREMER SCOOP user manual 8 5 File concatenation This function isenabled by clicking the Concatenate files button Its purpose isto concatenate a file comprising the cruise header with
38. for the SCOOP SISMER SCOOP DSL 010 software October 1994 V1 1 Data dictionary SSMER SCOOP DIC 012 10 J anuary 1995 Medatlas specifications for the Mediteranean data banking SISMER 94 IS 014 version 3 1 Upgrades forthe SCOOP software specific ations SISMER SC OOP DSL 012 V 1 1 February 1996 SCOOP version 4 software upgrades time series control Detailed specifications DII IDT SISM ER 98 040 Software architecture file version 4 SSMER SCOOP DCD 020 Implementation of the upgrades of the SCOOP software contract n 99 2 210 854 Upgrades of the SCOOP software to version 4 2 contract n 00 2 210 058 SISMER SC OO P MU 110 V4 2 02 05 00 Page IFREMER SCOOP user manual 3 TERMINOLOGY Please referto the following documents e Quality Plan SCOOP SISMER SC OOP PLQ 000 Terminology section e Specification file for the SCOOP SISMER SC OOP DSL 010 software October 1994 V1 1 Chapter 4 Glossary However the following definitions are reminded Current cruise Cruise which is described in the window cruise description in QC 1 2 and displayed in coloron the map background File Cruise subject to quality check File chosen on the sequencing monitor level at the beginning of the current sessions which is processed by the SCOOP validation chain Parameter couple A selection of two parameters in order to produce a graphic representation of one of the parameters in respect of the other abscissa ordinate e g
39. ic checks The Quit button enables closing this mooring viewing window SISM ER SC OO P MU 110 V4 2 02 05 00 Page 28 IFREMER SCOOP user manual Clicking one of the points matching a sensor results in updating the station description window However aslong asthe Mooring description window is open intervening in the Station description window is not possible SISMER SC OO P MU 110 V4 2 02 05 00 Page 29 IFREMER SCOOP user manual 6 other buttons enable working in the session Complementary information Add Reject Cancel Validate 1 Complementary information about the cruise or mooring Parameters Name f Water bottle Oxygen Phosphate Nitrate IDM P T 5 02 DENS controlled with Levitus 83 Figure 10 Complementary information window Provides complementary information about the cruise described in the Cruise Description window For the cruise subject to quality check only the Project Archiving Centre and Comments fields can be modified The button provides the list of archiving centers SISM ER SC OO P MU 110 V4 2 02 05 00 Page 30 IFREMER SCOOP user manual The changes are taken into account when the user clicks Validate You can view and modify the file header comment within the editor located at the bottom of the window All the modifications are recorded into the base only upon exiting QC12 using the Validate button in the QC12 main screen
40. ile with the name of the directory and the extension trc enables tracking the validation s progress When starting the validation of a file the file name is recorded and when validation is complete the user is notified about whether the file is recorded in the base or not SISM ER SC OO P MU 110 V4 2 02 05 00 Page 62 IFREMER SCOOP user manual END OF DOCUMENT SISMER SC OO P MU 110 V4 2 02 05 00 Page 63
41. ing the last run in QC12 which does not require any automatic check QC11 otherwise QC11 is run again because modifications have been made and the flags are reset automatically e The Comments button enables displaying the Comments window This window enables viewing or modifying the comments for the current station Validating the comments modification is performed upon activating the Validate button in the main QC12 window It displays the following window Ee Comments est Banne Cl ler sur mouillage Casse CHAIN EN El OK Cancel Figure 8 Comment screen SISMER SC OO P MU 110 V4 2 02 05 00 Page 27 IFREM ER SCOOP user manual The Hide station push button when activated cancels the display of the current station in the position plan and velocity chart velocities are recalculated This station is not suppressed in the database Mooring description button When several stations are located at the same geographical point and when the type of data matches a time series it is possible to view the mooring in the vertical plane as below Figure 9 Mooring description The various sensors stations in the MEDATLAS format file are drawn the station number characters 14 to 18 and the depth display along a vertical line representing the mooring The ocean depth is also displayed in the bottom left comer Each sensor displays with the color of the flag assigned by automat
42. lt value in a file e Suppress parameters suppresses parameters in a file e Merge files merges two files e Concatenate Files concatenates files e Split File splits a global file into N files 1 per station e Statistics Prints the contents of the STAT GLOBAL and STAT PARAM tablesin a file During the checks associated with the Format Header and Data buttons all the monitor buttons are disabled and the mouse pointer changes into an hour glass icon It is always possible to repeat a previously run check on a file In this case the state of progress is not modified and the buttons enabled after the operation are the same as before The use of the various buttons as well as the associated processes are described in the following chapters SISMER SC OO P MU 110 V4 2 02 05 00 Page 16 IFREMER SCOOP user manual 7 QUALITY C HEC K RELATED FUNCTIONS 7 1 QCO Format check It is activated using the Format button It is the first check applicable to a file The number of anomalies detected displays upon completion of the process A format check without errors is completed with the following window Figure 4 Window specifying a valid format In case of emor the correction operates in the interactive mode asthe anomalies are displayed forthe user who corects them and validates the correction as follows After completion of the checks the following window displays with On the right the line
43. n the monitor When clicking Statistics the following window displays users agence scoop data 69_ sy Figure 32 Print statistics window Choose the name of the file on which statistics are generated in the text entry zone or using the file selector The file must have succeeded in all checks progress status 22 Otherwise the user is notified that statistics for this file cannot be generated The file name at output isthe name of the file containing the result tables SISM ER SC OO P MU 110 V4 2 02 05 00 Page 61 IFREMER SCOOP user manual 8 8 Loading files users agence scoop data 6900 Figure 33 File loading screen This function enables loading a set of files checked in the MEDATLAS format data format checked and files already loaded Two exclusive buttons enable selecting whether a single MEDATLAS file or all the files in a directory must be inserted which must be the first action taken by the user The file or directory selector enables selecting the directory or file to be loaded The entry zone enables entering the name of the MEDATLAS file or directory The list of projects enables selecting one or several projects associated with the files processed The Validate button enables launching the MEDATLAS file loading executable The Cancel button enables retuming to the monitor The critical errors detected are recorded in a file named after the directory and with the extension log A f
44. na 51 BL GENERATING SUMMARIES iner anpren a NAE AA EEE NE OEE EA A d A AE tee E EEA NEE ESERE 51 8 2 ADDING PARAMETERS EEN EEN AKENE NA Eaa aa SEEE NEE EO AEE AAEN Ne 53 83 SUPPRESSING PARAMETERS borraron Irre EARE EAA A EAA REER INI E AARRE ERA ARARAT 55 E MERGING TE 56 8 5 FILE CONCATENA TION SEEDEDE EESTI EEG TATEAN EEE 58 SiO LNG FILES orraa Es dagegen 60 B R SSTATISTE EE 61 8 8 LOADING BUER deeg eege DER et ER ee REE SNARERE NESS eeh SES SELER EEG 62 SISMER SCOOP MU 110 V4 2 02 05 00 Page IFREMER SCOOP user manual 1 OBJECT The object of this user manual is to describe the use of the SCOOP software System of Control Oriented Oceanographic Parameters designed forthe Centre National de Donn es Oc anographiques Francais IFREMER SISMER It is a validation assistance expert system It reads ASCII files MEDATLAS format and exports files in the same format after adding quality flags foreach numeric value controlled In addition it includes file handling tools It uses code and reference data tables SISMER SC OO P MU 110 V4 2 02 05 00 Page IFREMER SCOOP user manual 2 DOCUMENTS APPLICABLE AND REFERENC E DOC UMENTS 2 1 Documents applicable The proposition from ALCATEL TIN ANSWARE 2 2 Reference documents ALCATEL TIN ANSWARE Quality Manual ALCATEL TIN ANSWARE Asmod e standard Project management method SCOOP SISMER SCOOP PLQ 000 Quality Plan 1 0 October 1994 Specifications file
45. pdated SISM ER SC OO P MU 110 V4 2 02 05 00 Page 18 IFREMER SCOOP user manual SISMER SC OO P MU 110 V4 2 02 05 00 Page 19 IFREMER SCOOP user manual 7 2 QC11 Automatic header check It is enabled using the Header button and has no user interface The following table presents the checks run and the emor messages as well as the value of the matching flags in case of eror Check Messages in case of problem Flag in case of problem The end date exceeds the cruise End date before cruise begin begin date date The yearin the begin date Cruise reference incompatible matches the 5to 8 charactersin with the begin date the cruise reference The date of each station is Date not included in the cruise between the cruise begin and dates end dates The velocity between two Ship velocity too high stations exceeds the max value chosen on the level of the chaining monitor Depth is not filed in QC PROFONDEUR 9 Depth is included within the limits Depth out of limits geographical QC_PRO FONDEUR 4 associated with the geographical zone The station depth is compared Doubtful depth compared with QC PROFONDEUR 3 with the 9 depths in the statistic s ETOPO5 DAT file surrounding the station Land position pO E_IAT QC_LON A Double entry tests Double entry station fe A For time senes only the ocean sdepth than the begin dates QC_ETIME 4 The position specified doesnot Land end position QC_ELAT
46. sto be comected and on the left across the labels forthe comesponding enors SISM ER SC OO P MU 110 V4 2 02 05 00 Page 17 IFREM ER SCOOP user manual DECT QUSREMT EAST pt MET CUEREAT WORTH COMPOIEST SAT CURRENT WORTH esT set 93 9939 CSP HRRINTAL CURRENT SPEED defa 9958 Figure 5 Format Check window e Correcting the lines using the keyboard To scroll the lines use the arow keys T gt When the windows are too namow to contain the error labels for the lines to be comected use the horizontal scroll barslocated under the window in order to scroll the messages fully Also if the windows are too small to contain all the messages and lines to be conected the vertical scroll bars in the right hand side of the window enable scrolling to the rest In this case the 2 windows are synchronized e When the corrections are completed validate them using the Validate button e Click the Cancel button to cancel the format check and retum to the previous situation e After validation a new format check is launched and the procedure developed above must be followed until the result required isachieved Only errors related with checking the headers already stored in the database and the non critical errorscan remain without affecting the move to the next checks If this check succeeds and is validated for the first time the file information is inserted into the Database tables If it isa new run the information is u
47. ta HOS Y Water bottle statior H21 Y Oxygen H22 N Phosphate H24 N Nitrate Figure 23 Para meters visual check validation window SISMER SCOOP MU 110 V4 2 02 05 00 Page 49 IFREMER SCOOP user manual This window displays the list of data types for the file and enables selecting the data types validated A vertical scroll bar enables listing them all The userhasno obligation to modify the flags present e Validate using OK Quit Quits the parameters visual check without validating any modifications Confirmation is required 7 6 2 Operating mode Modifying flags To modify the flag level fora zone proceed as follows e Choose the flag level among the 4 buttons located in the middle and bottom sections of the window e Using the mouse outline the zone to flag in the superimposed viewing part or in the zoom window See above for zoom technique To cancel the flag level selected click in a zone other than the superimposed viewing window AN In the superimposed viewing window or in the zoom window you can only modify the current profile s flags provided the parameter to be modified is viewed in respect of the reference parameter which is PRES and that it isa measured parameter The flag defined will concem the parameter other than the reference parameter unless the Flag PRES button isenabled e To flag the PRES parameter use the Flag PRES button Then proceed asabove Once the zone is flagged flagging P
48. the cruise subject to the quality check the valid cruise at the origin of the rejection can only be the cruise subject to quality check and the button is disabled e Validate by clicking OK e Confirmation is requested from the user Cancel enables ignoring a rejection and retuming to the main window without modification e Incase of confirmation the rejected cruise is removed from the map background 5 Cancel To close visual checking without validation None of the modifications are taken into account and the state of progress remains at 11 SISM ER SC OO P MU 110 V4 2 02 05 00 Page 33 IFREMER SCOOP user manual The following screen is the chaining monitor with only the File selection Format and Header buttons accessible SISMER SC OO P MU 110 V4 2 02 05 00 Page 34 IFREMER SCOOP user manual 6 Validate To end visual check while validating Unless if the file subject to the quality check has been rejected you must fill in the SISM ER project s associated with the quality check using the following window Figure 14 Cruise validation window You must associate the file with one or several SISMER projects among those proposed in the window Note the error resulting from the modification of a station s depth is not critical at the time of the validation of QC12 SISM ER SC OO P MU 110 V4 2 02 05 00 Page 35 IFREMER SCOOP user manual 7 4 CP Loading parameters This module is enable
49. to blue the value of the number of stationsis then changed in the base and the output file Keep shifts the station number to black e Bottom left window Displays eror messages found by QC21 Read only window displaying constantly any emors detected by QC21 for the curent profile and under the form Station number Pressure amp Error message bi This window displays only the messages corresponding to flags 3 amp 4 e The buttons Part grouping the buttons common to the entire window SISMER SCOOP MU 110 V4 2 02 05 00 Page IFREM ER SCOOP user manual Changing the distance between offset profiles Changing the scale Enter the minimum and maximum values of the axes in the 4 fields set to this effect e Click Manual e Click Automatic to retum to the default values e Displaying the new drawing is performed in the superimposed window When a scale is defined manually it is maintained as such when parameter couples are changed Zoom Applicable only in the window containing superimposed profiles e Click Zoom e Using the mouse outline the zone to enlarge e The zone isthen enlarged in a new window e the outline forthe enlarged area displays on the chart including all profiles bi Once this window is displayed the user can no longer change the flags in the superimposed window See later forthe flag modification technique Figure 21 Zoom window SISMER SCOOP MU 110 V4 2 02 05 00 Page 45 IFRE
50. without running concatenation or Validate e Inthe lattercase generation is launched e If allthe files in the directory have not been concatenated the user is notified SISM ER SC OO P MU 110 V4 2 02 05 00 Page 59 IFREMER SCOOP user manual 8 6 Splitting files Start this function by clicking the Sp lit files button Its purpose isto split a global file into several files It is only applicable to the MEDATLAS format When clicking Split files the following window displays Yvusers agence scoop data 69 GES Figure 31 Split files window Fillin the File name field The default file name proposed is that of the file subject to quality check If inappropriate click to access the list of files available e Atthe output 2 cases are possible A file with the cruise header and one file per station One file perstation with the cruise header at the beginning of each station file This choice is made using the buttons in the Cruise header section e Enterthe output files root in the appropriate field e The cruise file name will be the root with the extension ent and the name of the station files will be the root with the station number e Click Cancel to quit without generating or Validate e Inthe lattercase generation is launched SISM ER SC OO P MU 110 V4 2 02 05 00 Page 60 IFREMER SCOOP user manual 8 7 Statistics To use this function click the Statistics button i
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