PDF manual - Ocean Drilling Program
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1. CURATION BIBLIO USER S MANUAL Table of Contents Document Layout xs sheen ETE ES ERE AER RUP ETE ES 1 Starting ss essee ERE RATE ER 2 The Main Biblio Window eee 3 Biblio Dutton oa io as auc ole eee s v UR ERE IS SIR B a To ae RUD o IRR i Vidi 4 New Records cus eo 4 awe y re te ea AT hd do ws ARA eS 5 Required Information siss eue PES eR pe pee FREIE 6 ha ru aD 6 p rp E 6 Number face Ice ru eu ace LUE uos int icula sie Disce Sr 6 Title i gp RS NSN SR RRA RM RI CR RENTA Mea 7 Optional Information 4 5 vos Ses RR RS HIER Re REGGE CR RUN 8 Journal Name 221 E XII Eo ORCI SUB 8 Citations x otto pr 8 Publicatton Dated oss cete eee DELLI E dca asd paie ll hat 8 Entered Date fora ha Sabet VEI aft ud dp P Quad su RE EV sS 8 Bate Received soos oed Lad too qu he eed Hes ap Gea hee d gd 8 sent Acknowledgement aa A pa be dane E ES 8 Sample Request Author and Keyword Associations 8 Associaton ENIES Pina Sco aes AR SCR a FOSC el S ARCU Re a ICQ ee age 9 thor A SSOCTIUOTIS vou Dax SARI DU as ESO oe cav qu NUR Ar 9 Sample Request Associations 0 cece eee eee 10 Keyword Associations 2 2 25 26 s cece eect eee reece 11 Creating leg site hole associations 0 0 eee cece eee 12 Creating keyword associations 0 02. 1992 75 Structural Features in Leg 128 Cores Relationship with the Tectonic Evolution ofthe Japan Sea 1992 74 Performance of the Ocean Broadband Downhole Seismometer at Site 794 In Tamaki K Allan J 1992 13 Can Opal A Opal CT BSR Be an Indicator ofthe Thermal Structure ofthe Yamato Basin Japan Sea 1992 72 Seismic Stratigraphy of the Kita Yamato Trough In Tamaki K Allan J McWilliams M etal Proc 1992 71 Consolidation Characteristics and Permeabilities of Sediments from the Japan Sea Sites 798 and 1992 70 Seismic Evidence of Anisotropy in the Yamato Basin Crust In Tamaki K Allan J McVVilliams M 1992 69 Detailed Crustal Structure of Northern Yamato Basin In Tamaki K Allan J McVVilliams M et al P 1992 58 Broadband Downhole Digital Seismometer Experiment at Site 784 a Technical Paper In Tamaki 1992 67 Estimating IN SITU Stress Field from Basaltic Rock Core Samples of Hole 794C Yamato Basin Ja 1992 Figure 18 A SR search window Ocean Drilling Program Curation Biblio User s Manual 17 Appendix B Troubleshooting If you work with multiple programs or windows open at the same time you may experience what appears to be a glitch with the Biblio program Users who operate with multiple programs open at the same time often navigate between the programs with the representative buttons on the Start bar rather than minimizing the windows whe
3. eee cent eee ene er 12 Opening Existing Records eee 13 Appendix A SR and IR Windows 15 Appendix B Troubleshooting eere 17 Table of Figures Figure 1 The Login window for Biblio 0 0 0 2 Figure 2 Login error message Fe e Y Lek x en Ye eK S 2 Figure 3 Main Biblio window iL EUER EN 3 Figure 4 Deletion warning message seleeeee eee eee 4 Figure 5 Message when opening a new record 4 Figure 6 A new record ready for entry 5 Figure 7 selections 12 sy arem eh e wf ets 6 Figure 8 Search for a publication from this window 7 Figure 9 All journal publications in database 7 Figure 10 Add or remove an author from this window 9 Figure 11 Enter a sample request association here 10 Figure 12 Select keyword associations here 11 Figure 13 Available keyword groups 0 0c eee eee eee ee nee 12 Figure 14 The publication search window 0 0 e cece eee eens 13 Figure 15 List of journal publications in database 13 Figure 16 An existing journal record 14 Figure 17 SR publication record rayon ot Se ek ede 15 Figure 18 A SR search window 0 cece eee eee
4. een eee 16 Curation Biblio User s Manual 1 Introduction The Biblio program was developed to help correlate participating scientists to their publica tions sample requests and the core samples used in their analyses The program can be used to search for enter or make changes to this information Document Layout This document is broken into four sections The first two describe the login procedure and the contents of the main Biblio window The third section describes how to start a new record with descriptions for each entry field and the three record associations The final section describes how to search for and open an existing record There are also two appendices at the end of the document Appendix A displays screen shots highlighting the differences between IR SR windows and abstract dissertation journal windows Appendix B provides trouble shooting information Ocean Drilling Program Curation Biblio User s Manual 2 Starting Biblio 1 In order to run Biblio your computer must have the Java Runtime Environment JRE Please check with IS if you are unsure of your computer s JRE status 2 Start Biblio by either double clicking on the Biblio icon if available on your desktop or by clicking on the biblio bat file This opens the Login window see Figure 1 P ae Login Cancel Figure 1 The Login window for Biblio 3 Enter the Username Password and Host String The Userna
5. published In house ODP publications will be Initial Reports or Scientific Results Dissertations probably will not have a journal name as they are not usually published enter the university name instead Abstracts may be published in one book that contains all abstracts from the meeting enter the meeting name and year e g Fall 1999 AGU Citation Citation refers to the volume number if available and the page numbers of the paper Publication Date Enter the date stamped on the dissertation volume abstract or professional journal Entered Date This refers to the date the publication record was entered in the Curation Biblio database Date Received Refers to the date ODP received a scientist s publication Sent Acknowledgement Refers to the date an acknowledgement was sent to the scientist stating that ODP received their publication This field is not activated until the check box is marked Sample Request Author and Keyword Associations Refers to the sample requests authors and keywords and leg site hole associated with the cur rent publication This information is entered at alternate windows which are activated by clicking on their corresponding buttons These options are described in more detail in Associ ation Entries p 9 Note once all information is entered for the current publi cation be sure to save the record from the main window This is the only Save button that saves to the database oth ers on
6. ave the keyword associations to memory To save the key words to the Biblio record in the database you must click on Save on the main window 5 Clear refreshes all keyword fields Cancel closes the current window and discards any unsaved changes and re opens the main window Note view completed associations from the main window An author sample request or keyword association can be removed from a record at any time by returning to their respective windows and using the Remove function Ocean Drilling Program Curation Biblio User s Manual 13 Opening Existing Records Any record entered in the database can be opened from the main window Record information can be edited or updated including author sample requests and keyword associations 1 From the main window click on the Open button This opens the Publication Search window see figure 14 fo Figure 14 The publication search window 2 Select the type of publication from the dropdown list options journal abstract disserta tion SR IR You can also enter the publication number if known 3 Click on the Search button This displays a list of records matching the entries see Fig ure 15 If only one match is made that record is automatically opened on the main win dow Note the SR and IR search results will also contain a leg number column Please see Appendix A to view an example of this type of window P
7. blication record Notice the additional Leg field The Initial Reports publications screen is identical in appearance S Biblio Main Scientific Result Add Remove Authors LastName FirstName m Tamaki Kensaku Suyehiro Kiyoshi Allan James Ingle Jr James Pisciotto Kenneth ectonic Sythesis and Implications of Japan Sea ODP Drilling In Tamaki K Suyehiro K Allan J McWilliams M et al Proc ODP Sci Results 127 128 Pt 2 College Station TX Ocean Drilling Program 1333 1350 Add Remove Keywords Leg Site Hole Keyword 11 1992 07 27 1993 ODP LEG 127 ODP LEG 127 05 01 1984 ODP LEG 127 ODP LEG 127 Add Remove Sample Req ODP LEG 128 Reca Goa Purpose ual AES 05 08 88 12 01 82 We propose to assess the r 05 01 89 12 01 92 We will measure in situ stre 10 06 89 12 01 82 The purpose ofthis researc 02 18 90 12 01 92 Continuation of sampling fo Figure 17 SR publication record Ocean Drilling Program Curation Biblio User s Manual 16 The following is an example of a Scientific Result Publication Search screen Notice the additional Leg column as compared to the search screen for abstracts dissertations and jour nals Publication Search Title 7156 Coarse fraction minerals of sands in Cascadia margin sediments O 1995 89 Data Report Results of Geo
8. chemical Well Logging the Japan Sea Sites 794 796 797 1992 88 Data Report Geochemical Logging Results from the Sea of Japan Sites 798 and 799 In Tamaki K 1992 87 Data Report Geochemistry and Mineralogy of Ash Layers from Legs 127 and 128 in the Japan Sea 1992 86 Data Report Uranium Thorium and other Trace Elements in Strip Samples from Cores 128 798B 1992 85 Data Report Pliocene Pleistocene Holocene Trace Metal Data from Holes 784A 795A and 797B In 1992 84 Data Report Electrical Resistivity Experiment in the Yamato Basin In Tamaki K Suyehiro K Allan 1992 83 Tectonic Sythesis and Implications of Japan Sea ODP Drilling In Tamaki K Suyehiro K Allan J M 1992 82 Neogene Kinematics in the Japan Sea Region and Volcanic Activity of the Northeast Japan Arc In T 1992 81 Geothermal Measurements Thermal Evolution of the Japan Sea Basins and Sediments In Tamaki 1992 80 Cmposition and Correlation of Physical Property Results from Japan Sea Basin and Rise Sites Le 1992 79 Diagenetic Reactions in Deeply Buried Sediments of the Japan Sea Sythesis of Interstitial Water 1992 78 Lithostratigraphy and Compositional Variation of Neogene Hemipelagic Sediments the Japan 1992 7T Biostratigraphic and Biochronologic Synthesis of Legs 127 and 128 Sea of Japan In Tamaki K Su 1992 76 Subsidence of the Japan Sea Stratigraphic Evidence from ODP Sites and Onshore Sections In
9. cord ready for entry Author Associations Add Remove Authors Keyword Associations Add Remove Keywords Note You must enter the publication type number and title and leg for IR or SR publications in order to save the record Ocean Drilling Program Curation Biblio User s Manual 6 Required Information The publication type number and title and leg for SR and IR publications are required to save the record The following describes each of these entry fields Type Select the type of publication from the dropdown list provided see Figure 7 Figure 7 Type selections Abstract information presented at a professional meeting Dissertation written work required for graduate studies nitial Report ODP publication Journal traditional paper publication Scientific Result ODP publication Leg The leg entry is only available and required for Scientific Results and Initial Results publica tions records Enter the leg number that the scientists sailed on and collected data for the pub lication Number Assign a reference number for each record Each publication type has a separate numbering system There is a four digit limit on the number entry abstracts dissertations and journals are numbered in sequential order initial reports and scientific results are numbered by their leg volume nu
10. ghting it then clicking Remove 6 While highlighted the author s address is displayed in the Author s Information box Note If an author does not exist in the database or if author information requires editing it must be done through the Gate program Please refer to the Gate User s Manual 7 Click on Save to save the author information to memory To save it to the biblio record in the database you must also click on the Save button on the main window 8 Cancel closes the current window and discards any unsaved changes and re opens the main window Clear refreshes the window and clears all entry fields Sample Request Associations Add sample requests to the current record at the Sample Request Associations window 1 From the main window click on the Add Remove Sample Req button This opens the Sample Request Associations window see Figure 11 Sample Request Associations Find a request containing Request Number Request Part No Search Sample Request List Sample Requests Selected Purpose Add gt gt Clear Remove Save Figure 11 Enter a sample request association here Ocean Drilling Program Curation Biblio User s Manual 11 2 Enter the sample request number and request part number if known If you enter noth ing in the part field all parts associated with the request will be
11. listed These are the numbers assigned by the curators when samples are requested by scientists 3 Click on Search to display a Sample Req List that corresponds to the number entry 4 From this list select a sample s that you want associated with the record by highlight ing it then clicking Add The request moves to the Sample Requests Selected box 5 Remove a selected sample request at any time by highlighting it then clicking Remove 6 Click on Save to save the sample request s to memory To save the request s to the biblio record in the database you must also click Save on the main window 7 Cancel closes the current window and discards any unsaved changes and re opens the main window Clear refreshes the window and clears all entry fields Keyword Associations Add keywords to the current record at the Keyword Associations window From the main window click on the Add Remove Keywords button This opens the word Associations window see Figure 12 Keyword Associations Leg Site Hole N M Leg Site Hole List Leg Site Holes Selected Keyword Group None Selected Keyword List Keywords Selected Add Clear Remove Cancel Save Figure 12 Select keyword associations here Ocean Drilling Program Curation Biblio User s Manual 12 This window actually performs tw
12. ly save to memory Ocean Drilling Program Curation Biblio User s Manual 9 Association Entries Note at each Associations window you can select more than one author keyword or sample request from the generated Lists To choose a block of selections hold down lt Shift gt while clicking on the first and last selection in the block To choose multiple individual selections hold down Ctrl while clicking on each individual selection Author Associations Add authors to the current record at the Author Associations window 1 From the main window click on the Add Remove Authors button This opens the Author Associations window see Figure 10 Author Associations Lx Find a name containing Search Author List Selected Authors Author s Information Add gt gt Clear lt lt Remove Cancel Save Figure 10 Add or remove an author from this window 2 In the Find a name containing field enter one or more author s names separated by commas or partial names 3 Click on Search This displays an Author List that corresponds to the name entry 4 From this list select the author s you want associated with the current record by high lighting it then clicking Add The name is added to the Selected Authors box Ocean Drilling Program Curation Biblio User s Manual 10 5 Remove a selected author at any time by highli
13. mation associated with that record is dis played on this window Information for new records is entered on this window or the Associations windows which are opened by clicking one of the Add Remove buttons Ocean Drilling Program Curation Biblio User s Manual 4 Biblio Buttons New this button starts a new record The main screen will open with all entry fields blank Notice that the Type box and all buttons except Save and Delete are now active The short cut lt Alt N gt performs the same function as New Open this button opens the Publication Search window which can be used to retrieve an existing record see Opening Existing Records p 13 Same as lt Alt O gt Save this button saves a new record or changes made to an existing one Same as lt Alt S gt Delete this button deletes the current record Same as lt Alt D gt The following warning is generated when you click Delete Yes continues the deletion No cancels the deletion Figure 4 Deletion warning message Exit this button exits the Biblio program Same as lt Alt X gt Note if you have any unsaved changes in the current record clicking New Exit or Open displays the following message Yes saves any changes No discards them Figure 5 Message when opening a new record Add Remove Authors this button opens the Author Associations window From here you can add or remove authors from the c
14. mber these are the same and the chapter number of the article within the volume e g 134 10 There is no easy way to determine the next sequential number to assign to abstracts disserta tions and journals The best way to do this is to start from the main window 1 Click on the Open button This opens the Publication Search window which searches for existing records see Figure 8 From here search for the latest number entered for a Ocean Drilling Program Curation Biblio User s Manual 7 specific publication type Publication Search None Selected Figure 8 Search for a publication from this window 2 From the Publication Type dropdown list select the type of publication either abstract dissertation or journal 3 Click on the Search button A list of all publications for the specified type will be dis played see Figure 9 Publication Search X 5 s No Title 7155 Aeuxinic southern North Atlantic Ocean during the Cenomanian Turonian oceanic anoxic event 1998 n 7154 Role of subducted sediments in the genesis of Kurile Kamchatka island arc basalts Sr isotopic and elem 1996 A 7153 Paleoceanographic and Paleoclimatic History of the Somali Basin during the Pliocene Pleistocene Multiva 1997 7152 Global wind induced change of deep sea sediment budgets new ocean production and CO2 reservoirs 1988 7151 Diatoms of the Fur Formation their taxono
15. me is biblio The Host String for testing is shoretest For production it is shore 4 Use the mouse or the Tab key to navigate through the entry fields lt Tab gt moves the cursor forward one field and lt Tab Shift gt moves it back one field 5 Click on Login to open Biblio or Cancel to exit the login without starting the program Note Please be patient as it may take a minute for the pro gram to make a connection to the database 6 Incorrect login information causes the following error to be displayed If you continue to receive this error after verifying the login please notify IS Figure 2 Login error message Ocean Drilling Program Curation Biblio User s Manual 3 The Main Biblio Window After a correct login the main Biblio window opens see Figure 3 Biblio Main Bf x New Open Save Delete Publication Information Exit Type M Author Associations Number a Title Journal Name Citation Keyword Associations Add Remove Keywords Publication Date Entered Date i Date Received Sample Request Associations Add Remove Sample Req Figure 3 Main Biblio window When this window first opens only the New Open and Exit buttons are activated The other buttons become active when a new record is requested or an existing one 15 opened When an existing record is opened all infor
16. my and biostratigraphic interpretation Results from the Harre b 1994 7150 Late Pleistocene Paleoceanography ofthe South Atlantic Sector ofthe Southern Ocean Ocean Drilling Pro 1993 7139 Diversity of Planktonic Foraminiferal Assemblages from Quaternary Sequences at DSDP Sites 219 220 1997 7137 Palynofacies analysis of sediments from the Cote d lvoire Ghana transform margin Preliminary correlation 1996 7136 Origin and evolution of Cycladophora davisiana Ehrenberg Radiolaria in DSDP Site 192 Northwest Pacific 1997 7135 Late Neogene radiolarian biostratigraphy in the subarctic Northwest Pacific 1996 Figure 9 All journal publications in database 4 From the list determine the latest publication number entered Enter the next sequential number as the Number entry in your new record e g the latest journal number in Figure 9 is 7155 For a new journal record you would enter the number 7156 Title Enter the entire title of the publication in the available field There is no limit on the number of characters Ocean Drilling Program Curation Biblio User s Manual 8 Optional Information While the remaining fields are optional in the sense that they are not necessary for saving records much of the information is still vital for record tracking Be sure to fill in as much information as available The following describes the remaining entry fields Journal Name Enter the journal name in which the paper is
17. n switching between programs With Biblio only the main window has a navigational button If you look at your Start bar you should see a button with the Java logo cup of steam ing coffee and the words Biblio Main The glitch occurs when you are working in any of Biblio s windows other than Biblio Main If you open another program then try to click on the Biblio navigational button to re open the screen you were previously working on only the Main window will appear You will also notice that it is in a locked state No buttons work and you cannot type in any of the fields The reason this happens is because Biblio locks the main window when any other window in the program is open In order to find the window you were working on you will have to either minimize all the other programs you have open or click on lt Alt gt lt Tab gt and select the Java icon from the dialog box Once you do this the working window of Biblio will appear You should now be able to continue with the work you were doing on this window or Cancel out of it and re open the main window which will now be activated Ocean Drilling Program
18. nd displays the record information and all associations see Figure 16 S Biblio Main 5 Click Cancel to return to the main window without selecting a record New Open Save Delete Exit Publication Information Type Journal x Author Associations Add Remove Authors Number 55 i LastName First Name Title 1 Dr Hinrichs Kai Uwe 2 Dr Rinna Joachim A euxinic southern North Atlantic Ocean during the Cenomanian Turonian ocd anic anoxic event Journal Name Earth and Planetary Science Letters Citation E Vol 158 165 173 jon zara Add Remove Keywords Associations Publication Date 1998 Entered Date 11 09 1998 1 Sent Acknowledgement Date Received 05 01 1994 Sample Request Associations Add Remove Sample Req Figure 16 An existing journal record 6 From here you can edit or add any information You can also open any of the association windows and add or remove authors sample requests or keyword associations remem ber that associations can only be edited at their respective windows which are opened with the association buttons on the main window Note be sure to save before exiting the program or any unsaved changes will be discarded Ocean Drilling Program Curation Biblio User s Manual 15 Appendix A SR and IR Windows The following is an example of an existing Scientific Results pu
19. o types of associations keyword and leg site hole You may perform just a L S H association just a keyword association or both These associations can be used to query the Curation Biblio database from a separate program Creating leg site hole associations 1 Enter a leg a site a hole or any combination of the three in the entry fields and click Search This creates a Leg Site Hole List corresponding to the entries 2 From this list select the leg site hole you want associated with the current record by highlighting it and clicking Add The L S H is added to the Selected box 3 Remove a selected L S H at any time by highlighting it then clicking Remove 4 Click on Save to save the selections to memory To save the selections to the Biblio record in the database you must also click on Save on the main window 5 Click on Clear to clear the L S H portion of the window and start over Creating keyword associations Select a keyword group from the dropdown list provided see Figure 13 Use the scroll bar to view all options This creates a Keyword List None Selected Figure 13 Available keyword groups 2 From the Keyword List select a keyword s that you want associated with the current record by highlighting it then clicking Add The word is then added to the Keywords Selected box 3 Remove a selected keyword at any time by highlighting it then clicking Remove 4 Click on the Save button to s
20. ublication Search l 7155 Aeuxinic southern North Atlantic Ocean during the Cenomanian Turonian oceanic anoxic event 1998 a 7154 Role of subducted sediments in the genesis of Kurile Kamchatka island arc basalts Sr isotopic and elem 1996 zz 7153 Paleoceanographic and Paleoclimatic History of the Somali Basin during the Pliocene Pleistocene Multiva 1997 7152 Global wind induced change of deep sea sediment budgets new ocean production and CO2 reservoirs 1988 7151 Diatoms ofthe Fur Formation their taxonomy and biostratigraphic interpretation Results from the Harre b 1994 7150 Late Pleistocene Paleoceanography ofthe South Atlantic Sector ofthe Southern Ocean Ocean Drilling Pro 1993 7139 Diversity of Planktonic Foraminiferal Assemblages from Quaternary Sequences at DSDP Sites 219 220 an 1997 7137 Palynofacies analysis of sediments from the Cote d lvoire Ghana transform margin Preliminary correlation 1996 7136 Origin and evolution of Cycladophora davisiana Ehrenberg Radiolaria in Site 192 Northwest Pacific 1997 7135 Late Neogene radiolarian biostratigraphy in the subarctic Northwest Pacific 1996 Figure 15 List of journal publications in database Ocean Drilling Program Curation Biblio User s Manual 14 4 Select a record from the list by clicking on it once for some publications types you may have to double click to select a record This re opens the main window a
21. urrent publication see Author Associations p 9 Same as lt Alt A gt Add Remove Sample Req this button opens the Sample Request Associations window From here you can add or remove sample request numbers from the current publication see Sample Request Associations p 10 Same as lt Alt R gt Add Remove Keywords this button opens the Keyword Associations window From here you can add or remove keywords or leg site hole associations from the current publica tion see Keyword Associations p 11 Same as lt Alt K gt Ocean Drilling Program Curation Biblio User s Manual New Records Click on the New button to refresh the main window and activate all entry fields and buttons except Save and Delete From here enter all information for a specific publication including author keyword and sample request associations see Figure 6 Note this is an example of a window for a dissertation abstract or journal The Initial Reports and Scientific Results contain the additional entry field Leg Please see Appendix A for an example of this type of window S Biblio Main New Save Delete Exit Publication Information Type v Number Title Journal Name Citation Publication Date 1 Sent Acknowledgement Sample Request Associations Add Remove Sample Req Entered Date Date Received Figure 6 A new re
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