CompositeLogViewer

1. Overview

CompositeLogViewer is a browser application for multi column depth series. By specifying the objective site/hole/core/section and data, the user can browse one or more depth series data. Each depth series is shown in one column separately, and the order of the columns is changeable. All depth series shown by this application constantly share the sole depth axis. Consequently, by the specification of a depth interval, the user can browse multi depth series at the same interval.

CompositeLogViewer is just focused just on browsing data simply and quickly, and not on sophisticated diagram processing. Data entry is also unable.

2. Login

2.1. User authentication

After starting the application, the Login dialog (Fig. 2.1) will appear and prompt you to enter your username and password.

Fig. 2.1 Login dialog

After logging in, the main window will open. If the entered username or/and password are invalid, an error dialog (Fig. 2.2) will appear and request that you login again.

Fig. 2.2 Login failure dialog - invalid username or password

2.2. Changing your password

To change your password, click the button at the bottom right of the Login dialog. The Change Password dialog will be displayed (Fig. 2.3).

Fig. 2.3 Change Password dialog

Type your login ID, your current password, a new password, and retype the new password. After filling all fields, click the "OK" button. When your password is accepted, the Login dialog will be activated. Otherwise an error dialog will be displayed.

3. Browsing data

3.1. Selecting objective

Fig. 3.1.1 Select objective dialog, which contains "overview table" (upper right), "depth type" panel (lower right) and "Hired Columns" list (left).

This dialog window provides the user with the functions for selecting data that the user wants to browse.

Specifying site/hole/core/section

The user can specify the expedition/site/hole/core/section by clicking a column in the "overview table" (upper right). In the "overview table", the number of counts for each data existed in the database is displayed corresponding to the selected expedition/site/hole/core/section. The each count is represented by the expressions shown in the Appendix A. The user may select the objectives while checking the number of data.

By clicking a column in the "overview table", the user can select the site/hole/core/section and the information about the selected objective will be displayed in the field above the table. And the user can go into next table by clicking the button above the table. The labels of the buttons are changed according to the "overview table" currently displayed. For example, when the user selected an expedition in columns and clicked a site button, then the "overview table" will be changed the one for expedition to site and the labels of the buttons are also changed to the "expedition" and "hole".

Another way to specify the expedition/site/hole/core/section is that by using the field above the "overview table". The field shows text expression of expedition/site/hole/core/section chosen in the table, and is editable. By entering text onto the field followed by Enter key, the selection in the table is updated when the entered text is valid.

The user can specify the depth type such as type of the correction and whether the depth compression was applied or not in the "depth type" panel. To specify these items, the availability (counts) of data shown in the "overview table" is also changed (See Appendix B).

The data existed in the database are listed in the leftmost column on the "overview table". The highlighted items in the list show that the items can be displayed in the main window, while the dimmed items cannot be displayed (See Appendix B). It depends on the selected site/hole/core/section and depth type whether the items will be highlighted or dimmed.

Choosing/Editing Template

A template is a property set to show columns in Main Window and to export as a SVG file. A template can be selected from the drop-down menu which is located at the top left corner of the CLV window. See Templates for CLV and SVG for more details.

Hiring data columns

This dialog provides with the function of hiring data columns that the user wants to browse. Firstly, select data in the rows in the leftmost column of the "overview table", and then the "hire" button becomes enable. Secondly, by clicking the "hire"button, the selected data names are added into the "Hired Columns" list. When hiring multiple data names, drag a mouse pointer on the data names in the "overview table", and then the data names under the mouse pointer will be selected. After that, by clicking the "hire" button, these data will be all hired. Or using a mouse and keyboard, it is possible to select multiple data names. Pressing the Ctrl key and clicking the data names in the "overview table", multiple data names will also be selected. After that, click the "hire" button, then the selected multiple data will be hired.

All data in "Hired Columns" list can be browse in the main window. These data names are saved when the "select" button is pressed. And these hired data in this list will be kept as it is for next run-time. When firing data from the "Hired Columns" list, select the data name in the list and press the "fire" button. To select multiple data names, press the Shift or Ctrl key and click a data name by mouse. To press the Shift key means to select all data names between the first selected data name and the last of it. And to press the Ctrl key means to select each clicked data name.

The order of data columns displayed in the main window is followed by the order of the "Hired Columns" list specified by the user. This order is also saved when the "select" button is pressed. To change the order of data names, click the data names and press the "up" or "down" button , then the selected data names will move up/down.

Any number of columns can be hired, but the dimmed data columns will not appear in the main window. It is due to the data availability (See above or Appendix B).

Choosing depth

A depth scale to plot data on the main window should be chosen from the depth type panel on the lower right of the dialog. There are 8 (site/hole/core) or 9 (section) pre-defined processed depths. Some other processed depths will also be shown when processed depths for chosen site/hole/core/section were entered from D-tunes application. To learn more about pre-defined processed depths, see Appendix C.

When the user completes the above operations and press the "OK" button finally, the main window for browsing will appear.

3.2. Main window

Main window of CompositeLogViewer consists of one diagram and some buttons at the top (Fig. 3.2.1). All columns contained in one main window share sole depth axis as mentioned already.

Fig. 3.2.1 Main window.

"new window..." button

By pressing the "New window..." button, another main window to specify the objective site/hole/core/section and data will be opened.

"bulk export" button

The "bulk export" button allows users to export all the depth-oriented data on the database to files. There are two different modes of bulk export, i.e. quick and complete. Quick bulk export limits the output data by a given CompositeLogViewer's template. Complete bulk export outputs all the data at specified site, hole, core or section.

Quick bulk export might be not available depending on a status of application. At that time, the icon of "bulk export" button would be . Reloading data makes quick bulk export available.

Single execution of bulk export creates a directory specified by user. Just under the directory, a CSV file is created. To know what has been output by the bulk export function, see Bulk export output specification.

Clicking the "bulk export" button shows a bulk export dialog.

Fig. 3.2.2 Data exporting dialog.

Select the mode to export. If quick mode is not available, an alert message was shown.

In the "Bulk CSV File" field, a character set for text encoding and line ending characters can be specified.

A nonexistent directory should be specified as a directory to export data. If an existent directory is specified, an alert message will appear.

"SVG export" button

The "SVG export" button allows users to save the current diagram as an image in the "SVG" format.

Fig. 3.2.3 Saving a diagram as an image dialog.

"Origin position, vertical" field sets the vertical distance between the top of the diagram and the top of the vertical axis of the diagram.

• Input field: sets the user defined distance in millimeters.
• Auto checkbox: automatically sets the distance derived from the current diagram

"Plot Height" field sets the height of the vertical axis of the diagram.

• "Fix" radio button's input field: sets the user defined height in millimeters.
• "Proportional" radio button's input field: automatically calculates and shows the height for the vertical axis, provided the user will set a length in millimeters for the single measure unit of the vertical axis.

"Width" field shows the total width of the current diagram in millimeters. If the width of the columns will be less than the length of the area description positioned at the top of the diagram, then the appropriate width will be set as to have the description be visible.

"reload" button

The data shown in the diagram are re-read from database by the "reload" button.

"print..." button

The "print..." button enables the user to print the diagram. the page setup dialog will appear prior to the print dialog. These two dialogs are provided by OS, and are different in deferent platforms. On Mac OS X, some characters are not printed correctly.

"align windows" button

This button tiles multiple main windows with the same alignment side by side.

"info" button

By pressing the "info..." button, the document shown help information will be displayed in web browser. The user is requested to specify the web browser to use prior to display the document.

"Template selector" and "template manager" button.

A template is a property set to show columns in Main Window and to export as a SVG file. A template can be selected from the drop-down menu which is located at the top left corner of the CLV window. See Templates for CLV and SVG for more details.

"hire columns..." button

By pressing the "hire columns..." button, the data column selection dialog (Fig. 3.2.4) will be displayed.

Fig. 3.2.4 Hire columns dialog.

In this dialog, the user can hire columns in much the same way as the Selecting objective. But changing the order of display and firing the data cannot be done. And the hired data names cannot be saved.

"up/down core/section" buttons

The user can navigate among cores/sections by shifting the core/section buttons up/down . Objective core/section is changed to just above and below the currently displayed core/section by "up" and "down" buttons, respectively.

3.3. Diagram

The diagram in CompositeLogViewer main window consists of one or more data columns. The order of columns can be changed by mouse drag-and-drop operation on the column header. Column width can also be changed by mouse drag-and-drop operation on the column header boundary.

Columns consist of diagram and some buttons at the bottom. All columns except depth axis column have the "fire column" button . And the user can delete any columns in the diagram by this button. The usage of each buttons is explained in the following sections.

3.3.1. Column "depth axis"

Depth axis column aims to show depth scale (Fig. 3.3.1.1). The diagram in the CompositeLogViewer main window always has only one depth axis column. Because all columns contained in one diagram share the sole depth axis as already mentioned .

Fig. 3.3.1.1 Depth axis column.

This column quite differs from the other columns; the others can be added on demand by using the "hire columns..." dialog and can be removed by pressing the "fire column" button . The user can select the preferable depth intervals by clicking the "change depth interval..." button at the bottom.

Or by mouse dragging operation on the diagram area in this column, the preferable depth interval can also be selected (Fig. 3.3.1.2). Selected depth interval is shown as two red lines in all columns. The selection is canceled by mouse clicking operation on the diagram area in this column.

Fig. 3.3.1.2 Selection of depth interval on depth axis column.

By pressing the "change depth interval..." button , the "Depth interval" dialog will be opened (Fig. 3.3.1.3). The dialog consists of two spinner fields showing the upper and the lower depth of intervals, the "Reset" button, the "Maximize" button, the "Cancel" button, and the "OK" button. When the dialog appears, the upper and the lower depth fields show the selected depth interval if it has been selected before, or currently displayed depth interval. By pressing the "Reset" button, the values in depth fields will be reset to the currently displayed depth interval. The upper and the lower depth values are set to uppermost and lowermost depths of the objective site/hole/core/section respectively by pressing the "Maximize" button. The "Cancel" button is to cancel the changed depth interval. Depth interval shown in the depth fields is applied by pressing the "OK" button.

Fig. 3.3.1.3 Depth interval dialog.

Scroll bar on the left-hand side in the column enables the user to move displayed depth interval up and down vertically.

3.3.2. Dialog "registration info"

Registration info dialog aims to show information about registration(Fig. 3.3.2.1). Some columns, especially graph column, have button that invoke this(Fig. 3.3.2.2).

Fig. 3.3.2.1 Registration info dialog.

Fig. 3.3.2.2 Column Having this button.

The table that shows information has generally four columns.

• objective : this column shows depth information.
• data : this column name is changed by each parent column. if parent column didn't have data, it won't be displayed.
• registered by : this column shows who registered.
• registration time stamp : this column shows when it was registered.

3.4. Basic Diagram

3.4.1. Column "core recovery"

This column shows the recovered core lengths as black vertical bar. This column is only available when the selected objective is a site or a hole.

Fig. 3.4.1.1 Core recovery column.

By pressing the "show detail" button , a window will be opened (See below).

Window "core recovery viewer"

This window can show details of core recovery (Fig. 3.4.1.2).

Fig. 3.4.1.2 core recovery detail window.

"expedition" column shows the value of expedition of core. "site" column shows the value of site of core. "hole" column shows the value of hole of core. "core number" column shows the value of core number of core. "core type" column shows the value of core type of core. "top depth" column shows the value of top depth of core. "drilled length" column shows the value of drilled length of core. "curated length" column shows the value of curated length of core . "recovery" column shows the value of collection rate of core. "time on deck" column shows the value of time on deck of core. "liner" column shows the value of liner of core. "operation tool" column shows the value of operation tool of core. "comment" column shows the value of comment of core.

3.4.2. Column "section index"

Section index column aims to show the sections dividing horizons (recovered core) and section number (Fig. 3.4.2.1). Major and minor ticks of the section interval (inside sections) are shown by 50 and 10 cm interval, respectively. This column is not available when depth corrections of SV, SE or SVE, or depth compression correction are applied, or site/hole/section is selected as objective (See Appendix B).

Fig. 3.4.2.1 Section index column.

3.4.3. Column "scientist sample"

This column aims to show the sampling horizons of scientist samples with specified sampling code. By pressing the "configure display..." button , the dialog will be opened (Fig. 3.4.3.1).

Fig. 3.4.3.1 Sample code dialog.

After selection of a sample code, sampling horizons are shown in the column (Fig. 3.4.3.2).

Fig. 3.4.3.2 Scientist sample column.

Shown sample data are able to be exported as a CSV file from the "export sample" button . The file format specification is follow (see Table 3.4.3.1).

3.4.4. Column "laboratory sample"

This column aims to show the sampling horizons of laboratory samples with specified sampling code. By pressing the "configure display..." button , the dialog will be opened (Fig. 3.4.4.1).

Fig. 3.4.4.1 Sample code dialog.

After selection of a sample code, sampling horizons are shown in the column (Fig. 3.4.4.2).

Fig. 3.4.4.2 Laboratory sample column.

Shown sample data are able to be exported as a CSV file from the "export sample" button . The file format specification is simillar to that of the scientist sample column (see Table 3.4.3.1).

3.4.5. Column "miscellaneous material"

This column aims to show the measured horizons of miscellaneous material. The described miscellaneous materials are shown by left pointed arrowhead at horizons where miscellaneous materials were taken. The value of depth information, miscellaneous material name, depth name and units are connected to this arrowhead. This column is quite similar to the color reflectance horizons column. Please see that section to learn operation.

Fig. 3.4.5.1 miscellaneous material column.

By pressing the "show detail" button , a window will be opened (See below).

Window "miscellaneous material viewer"

This window can show details of miscellaneous material (Fig. 3.4.5.2).

Fig. 3.4.5.2 miscellaneous material viewer

"miscellaneous materials" column shows the value of depth information and miscellaneous material name. "method description" column shows the value of method description of miscellaneous material. "depth" column shows the value of depth name and units. "volume (cc)" column shows the value of volume of miscellaneous material. "comments" column shows all the comments described about miscellaneous material.

3.5. VCD Diagram

3.5.1. Column "lithology-distribution"

The "lithology-distribution" column aims to show the "lithology-distribution" (Fig. 3.5.1.1).

Fig. 3.5.1.1 The "lithology-distribution" column (diagram types of lithology, sediment components, and sediment texture; from left to right).

Data structure of lithology-distribution is complicated, and understanding of data structure is necessary to use the column. There are two most important natures of data structure.

Firstly, lithology-distribution is described for each scale, hole, core, section, and the description for different scale are independent from each other even for the same depth (e.g. descriptions for Hole A, Core A-1H, Section A-1H-1). This design is done to conform to actual geological lithology description; Geologist draws some different lithology diagrams of different scales for single objective. This nature is quite different from most other data measured for core.

Secondly, description of lithology is separated from distribution of lithology (lithology-distribution; a distribution of a lithological feature). Lithology of lithology-distribution is assigned (1) by description of microscope slide taken from the lithology-distribution, (2) to be the same as previously described another lithology-distribution, (3) visually, (4) to be a gradation, or (5) to be an alternation.

The diagram area of the column shows lithology-distributions and their boundaries. A lithology-distribution is shown by a rectangle filled by a pattern or patterns of described lithology, their sediment components (widths of components indicate their proportions), or sediment texture (densities of colors indicates their proportions). These three types of diagram can be switched by the dialog opened by the "configure display..." button (See below). Boundary of lithology-distribution is shown by horizontal line or horizontally repeating pattern of described boundary. Descriptions of lithology-distribution and their boundaries are shown by text on the right. The level of detail is changeable by the dialog opened by the "configure display..." button (See below).

When too many comments on lithology-distributions are in the column, the texts for deeper lithology-distributions may not be shown. By expanding the width of the column, they may appear. If not yet, try to change depth interval for display (See depth axis column).

By pressing "configure display..." button the dialog to configure diagram display (Fig. 3.5.1.2). In this dialog, the type of diagram chosen from "lithology", "sediment components", and "sediment texture" (Fig. 3.5.1.2), and comment level can be specified.

Fig. 3.5.1.2 The dialog to configure display of column "lithology-distribution".

Legend of the diagram is available in another window (Fig. 3.5.1.3) opened by the "legend" button at the bottom. A printing of the legend is available by pressing the "print..." button. and There is a checkbox at upper-right corner of the window. It is used to switch to show a definition of the selectee at each area. Each definition of the selectee is shown at each area by switching a checkbox.

Fig. 3.5.1.3 The window to show legend for column "lithology-distribution".

Lithology-distribution legend SVG export button(*please change the placement later)

By pressing the "SVG export" button at the top of the window, the image of a legend can be saved as the SVG image file. One thing to keep in mind is that the frames of the legend will be saved in the up to down order. For example the legend can have frames in order from left to right and up to down, but the final SVG file will have these frames appear in the up to down order.

By mouse clicking on the rectangle of a lithology-distribution, the user chooses and clears the choice of the lithology-distribution. To choose all the lithology-distributions, mouse button can be clicked triple. By pressing the "show detail..." button at the bottom, the lithologies of the chosen lithology-distributions can be shown in the "lithology-distribution viewer" window (See below).

Window "lithology-distribution viewer"

The window of lithology-distribution viewer consists of list (left), viewer (right), and two buttons (top of left) (Fig. 3.5.1.4).

Fig. 3.5.1.4 The window "lithology-distribution viewer".

The list of the lithology-distributions contained lithology description can be shown in the window, and the user can choose lithology-distribution(s) from the list by the mouse clicking. The detailed lithology description on the chosen lithology-distribution is displayed on the viewer area.

Choice of a lithology-distribution can be canceled by mouse clicking with the Ctrl key.

By pressing the "print..." button, lithology description for the chosen lithology-distribution can be printed on one page. The printing dialog which appears after the page setting dialog enables printing.

By pressing the "export..." button, lithology description(s) for the all lithology-distribution(s) can be exported to the separated HTML file(s) specified by the save dialog. The name of the HTML file exported is designated by the depth intervals of lithology-distribution. Character code of the HTML file exported is ISO-8859-1.

3.5.2. Column "graphic representation"

The column of the "graphic representation" aims to show hand-drawn graphic representations (Fig. 3.5.2.1). Graphic representations by sedimentologist, petrologist, and structure geologist are shown in a single diagram by different colors. The column is available only when a core or a section is chosen to view, and depth correction type is "STD".

Fig. 3.5.2.1 The column "graphic representation ".

The column contains the "configure display..." button at the bottom. By pressing this button, the configuration dialog will appear (Fig. 3.5.2.2). In the dialog, width of graphic representation image, shown/hidden of image, and colors of graphic representations (sedimentology, petrology, and structure geology) are configurable. On Mac OS X, the color specification does not work well.

Fig. 3.5.2.2 The dialog to configure display of column "graphic representation ".

3.5.3. Column "VCD slide"

The column of "VCD slide" aims to show the descriptions of microscope slides of VCD ("SS", "STS", "TSB" samples). The described slides are shown by left pointed arrowhead at horizons where the slides were taken. The texts of lithology name, horizon, and descriptor are connected to this arrowhead (Fig. 3.5.3.1).

Fig. 3.5.3.1 The column "VCD slide".

When too many slides are in the column, texts for deeper slides may not be shown. By expanding the width of the column, they may appear. If not yet, try to change depth interval for display (See depth axis column).

By mouse clicking on arrowhead or text, the user may choose or clear the choice of slide. To choose all the slides, the mouse button must be clicked triple. By pressing the "show detail..." button at the bottom, the lithologies of the chosen slides will be shown in the slide viewer window (See below).

Window "microscope slide viewer"

The window of the "microscope slide viewer" consists of lists of slides and photos (left), viewer (right), and two buttons (top of left) (Fig. 3.5.3.2).

Fig. 3.5.3.2 The window "microscope slide viewer".

The list of the microscope slides contained lithology description can be shown in the window, and the user can choose the microscope slide from the list by mouse clicking. The detailed lithology description on the chosen microscope slide is displayed on the viewer area.

Microscope photography(s) are listed in the lower left if chosen slide has some photos. By choice of the photo, the photography is shown on the viewer area.

Choice of a slide can be canceled by clicking by mouse with the Ctrl key.

By pressing the "print..." button, lithology description for the chosen microscope slide or chosen microscope photography is printed on one page. The printing dialog which appears after the page setting dialog enables printing.

By pressing the "export..." button, lithology description(s) for the all microscope slide(s) and all microscope photography(s) will be exported to the separated HTML file(s) and image file(s) specified by the save dialog. The names of the HTML and image file exported are decided by horizon and sample code of microscope slide, and photo subject, respectively. The character code of the HTML file exported is ISO-8859-1.

3.5.4. Column "summarized-lithounit"

The column "summarized-lithounit" aims to show the descriptions of summarized-lithounit (Fig. 3.5.4.1).

Fig. 3.5.4.1 The column "summarized-lithounit".

Summarized-lithounit is lithounit summarized from view of site scale. Each of those is defined for a site, and a site has some summarized-lithounit. A definition of summarized-lithounit has some distributions in holes at the site for which the definition is done. From another point of view, the relationship between distribution and definition of summarized-lithounit are not one-to-one.

The diagram area of the column shows summarized-lithounits (distribution). A summarized-lithounit is shown by rectangle filled with defined pattern. Definitions of summarized-lithounits are shown by text on the right. The level of detail is changeable by the dialog opened by the "configure display..." button (See below).

By pressing the "configure display..." button , the dialog to configure diagram display will be opened (Fig. 3.5.4.2). By this dialog, comment level can be specified.

Fig. 3.5.4.2 The dialog to configure display of column "summarized-lithounit".

3.5.5. Column "structure-distribution"

The column of the "structure-distribution" aims to show the "structure-distribution" (Fig. 3.5.5.1). structure-distributions by sedimentologist, petrologist, and structure geologist are shown in each column. The column is available only when a section or a hole or a core or a section is chosen to view.

Fig. 3.5.5.1 The "structure-distribution" column.

When too many comments on structure-distributions are in the column, the texts for deeper structure-distributions may not be shown. By expanding the width of the column, they may appear. If not yet, try to change depth interval for display (See depth axis column).

By pressing "configure display..." button the dialog to configure diagram display (Fig. 3.5.5.2). In this dialog, the type of diagram chosen from "structure-subgroup" in the scientist (Fig. 3.5.5.2), and comment level can be specified.

Fig. 3.5.5.2 The dialog to configure display of column "structure-distribution".

Legend of the diagram is available in another window (Fig. 3.5.5.3) opened by the "legend" button at the bottom. A printing of the legend is available by pressing the "print..." button. and There is a checkbox at upper-right corner of the window. It is used to switch to show a definition of the selectee at each area. Each definition of the selectee is shown at each area by switching a checkbox.

Fig. 3.5.5.3 The window to show legend for column "structure-distribution".

By pressing the "SVG export" button at the top of the window, the information of a legend can be saved as the SVG image file.

3.5.6. Column "structure-distribution histogram"

The column of the "structure-distribution histogram" aims to show the "structure-distribution"using a histogram method (Fig. 3.5.6.1). structure-distributions by sedimentologist, petrologist, and structure geologist are shown each column. The column is available only when a section or a hole is chosen to view.

Fig. 3.5.6.1 The "structure-distribution histogram" column.

By pressing "configure display..." button the dialog to configure diagram display (Fig. 3.5.6.2). In this dialog, the type of diagram chosen from "structure"(Fig. 3.5.6.2) and The color of each hole can be set and The interval of the histogram can be set. and by a mouse cursor is moved to a selectee above in the selectee tree (top of the window), the definition of the selecee is shown by the pop-up window. But if a definition is not set up, it is shown "(unsetting)".

Fig. 3.5.6.2 The dialog to configure display of column "structure-distribution histogram".

The "export data" button , enables the user to show or export the numerical data set, which is shown graphically in the column, by another application software or as a local comma-separated value (csv) file, respectively. By pressing this button, a dialog appears (Fig. 3.5.6.3). In the dialog, the radio buttons "open" and "save" are on the top. When the "open" is chosen, user can choose an application software to open the data. The "save" button enables to specify a file to which the data will be exported. Enter key needs to submit entry in field of file name to save.

Fig. 3.5.6.3 Show/export dialog.

3.5.8. Column "drilling-disturbance"

The column of the "drilling-disturbance" aims to show the "drilling-disturbance" (Fig. 3.5.8.1). drilling-disturbance by sedimentologist, petrologist, and structure geologist are shown in each column. The column is available only when a section or a hole or a core or a section is chosen to view.

Fig. 3.5.8.1 The "drilling-disturbance" column.

When too many comments on drilling-disturbance are in the column, the texts for deeper drilling-disturbance may not be shown. By expanding the width of the column, they may appear. If not yet, try to change depth interval for display (See depth axis column).

By pressing "configure display..." button the dialog to configure diagram display (Fig. 3.5.8.2). In this dialog, the comment level can be specified (Fig. 3.5.8.2).

Fig. 3.5.8.2 The dialog to configure display of column "drilling-disturbance".

Legend of the diagram is available in another window (Fig. 3.5.8.3) opened by the "legend" button at the bottom. A printing of the legend is available by pressing the "print..." button.

Fig. 3.5.8.3 The window to show legend for column "drilling-disturbance".

By pressing the "SVG export" button at the top of the window, the information of a legend can be saved as the SVG image file. For more details, see SVG Export Legend for structure-distribution.

3.5.9. general comments (not included in this release)

The column of the "general-comments" shows general comments in browsing site / hole / core / section. The general comments described by sedimentologist, petrologist, and structure geologist are shown in a single column in order.

Fig. 3.5.9.1. The column "General comments"

3.6. Instrumental Measurements Diagram

3.6.1. Columns "whole core MSCL sections", "split core MSCL sections" and "split core MSCL (xyz) sections"

These columns aim to show the information of MSCL (Multi-Sensor Core Logger, Geotek Ltd.) run which has been performed for section (Fig. 3.6.1.1). Vertical distributions of sections are displayed by rectangles. MSCL measurements have been done for the sections displayed by gray solid rectangles. This column has the "show detail" button , the "up/down selection" buttons , and the "fire column" button .

Fig. 3.6.1.1 whole core MSCL sections column.

By mouse clicking operation on rectangle of section for which MSCL measurement have been done (shown by gray solid rectangle) in the diagram area in this column, the section can be selected (Fig. 3.6.1.2). The selection can be canceled by mouse clicking operation on somewhere out of these rectangles in the diagram area in this column. When the section is selected, the "up/down selection" buttons are enabled while they are disabled when no section is chosen. By the "up/down selection" buttons , MSCL run just above/below the selected MSCL run can be selected. These buttons are helpful when these rectangles lie close to others. MSCLRunViewer for selected section can be opened by pressing the "Show detail" button (See below).

Fig. 3.6.1.2 MSCL run selected.

Window "MSCL run viewer"

Dialog window "MSCL run viewer" provides information of MSCL run for the selected section. The window consists of area of run information (upper left), area of calibration information (lower left), area of measurement parameters (right) (Fig. 3.6.1.3).

Fig. 3.6.1.3 MSCL run viewer.

By the button "Read calibration file" in the bottom of the area of calibration information, calibration parameter file will be shown by another application software or be exported as a local file. The area of measurement parameters shows those of core thickness, P-wave velocity, gamma density, magnetic susceptibility, and electrical resistivity. These areas are not contained by the window when there is no measurement.

3.6.2. Column "GRA density"

Fig. 3.6.2 GRA density column.

This column aims to the show depth series of GRA (Gamma Ray Attenuation) density values. This column contains four buttons at the bottom. They are the "change horizontal axis range..." button , the "export data..." button , the "configure display..." button , and the "fire column" button.

The horizontal axis range will be adjusted as your desired width, by mouse dragging operation on the diagram area in this column (Fig. 3.6.2.2). The adjustment of the horizontal axis range is canceled by mouse clicking operation .

Fig. 3.6.2.2 Horizontal axis range selected.

By pressing the "change horizontal axis range..." button , the "Horizontal axis range dialog" will be opened (Fig. 3.6.2.3). The dialog is quite similar to the "Depth interval dialog" with one exception. The right value is permitted to be smaller than the left value in the "Horizontal axis range dialog", while the upper depth value has to be always smaller than the lower depth value in the "Depth interval dialog".

Fig. 3.6.2.3 Horizontal axis range dialog.

By pressing the "configure display..." button the dialog window for editing graphic properties will be opened (Fig. 3.6.2.4). The dialog contains panels of "value axis" and "series". The "Value axis" panel has the "Logarithmic scale" checkbox. By checking this checkbox, the horizontal axis will be changed to logarithmic or linear scale. Data containing zero or negative values cannot be displayed on the logarithmic axis. In the table in the series panel, plot symbol, symbol size, symbol color, line appearance, and line color (second to sixth columns) for each series (rows in the table, whose names are shown in the first column) are all editable. The "Cancel" button is to cancel the edited graphic properties. Edited properties are applied by clicking the "Apply" or "OK" button. The "Apply" button remains the dialog opened while the "OK" button closes the dialog.

Fig. 3.6.2.4 Configure display dialog.

The "export data" button , enables the user to show or export the numerical data set, which is shown graphically in the column, by another application software or as a local comma-separated value (csv) file, respectively. By pressing this button, a dialog appears (Fig. 3.6.2.5). In the dialog, the radio buttons "open" and "save" are on the top. When the "open" is chosen, user can choose an application software to open the data. The "save" button enables to specify a file to which the data will be exported. Enter key needs to submit entry in field of file name to save.

Fig. 3.6.2.5 Show/export dialog.

3.6.3. Columns "magnetic susceptibility ×10^-5 SI" and "magnetic susceptibility ×10^-8m³/Kg"

These columns are quite similar to the GRA density column. Please see that section to learn operation.

Fig. 3.6.3.1 Magnetic susceptibility column.

3.6.4. Column "P-wave velocity"

This column is quite similar to the GRA density column. Please see that section to learn operation.

Fig. 3.6.4.1 P-wave velocity column.

3.6.5. Column "electrical resistivity"

This column is quite similar to the GRA density column. Please see that section to learn operation.

Fig. 3.6.5.1 Electric resistivity column.

3.6.6. Column "X ray CT scan"

This column aims to show the image of X ray CT scan which has been reconstructed from numerous slices of a section (Fig. 3.6.6.1). This column is similar to the section photo column.

Fig. 3.6.6.1 X ray CT scan column.

about "registration info" button

See Registration Info Dialog for more details.

3.6.7. Column "section photo"

This column aims to show split section (archive half) image for the specified depth interval (Fig. 3.6.7.1). This column is not available when depth corrections of SV, SE or SVE, or depth compression correction are applied (See Appendix B). The column contains three buttons; the "export..." button , the "configure display..." button , and the "fire column" button .

Fig. 3.6.7.1 Section photo column.

The button "export..." shows a dialog to open the image by an external application software, or to save the image file onto local volume.

By pressing the "configure display..." button , the "configure image width in photo column" dialog will be opened (Fig. 3.6.7.2). And the user can configure the image width whether it should be fit to the column width or not. When the "fit to column width" button is checked, the photo width is fitted to column width, and when the "fix" button is checked, the "slider" and the text field are enabled. The user can adjust photo width by using the "slider" or by entering value into text field. Brightness rescaling of image shown in the column is enabled by two sliders in the lower of the dialog. The upper and lower sliders are to change white and black values in the initial image. Rescaling does not work on Mac OS X, Linux and Solaris.

Fig. 3.6.7.2 Configure image width in section photo column dialog.

about "registration info" button

See Registration Info Dialog for more details.

3.6.8. Column "color reflectance horizons"

This column aims to show the color reflectance measured horizons (Fig. 3.6.8.1). Horizons are displayed by arrowheads. This column has the "show detail" button , the "up/down selection" buttons , and the "fire column" button .

Fig. 3.6.8.1 Color reflectance column.

By mouse clicking operation on horizon marker (shown by triangle) in the diagram area in this column, the horizon can be selected (Fig. 3.6.8.2). The selection can be canceled by mouse clicking operation on somewhere out of horizon marker in the diagram area in this column. When the horizon is selected, the "up/down selection" buttons are enabled while they are disabled when no selection is chosen. By the "up/down selection" buttons , horizon just above/below the selected horizon can be selected. These buttons are helpful when horizon markers lie close to others. RSCViewer can be opened by pressing the "Show detail" button (See below).

Fig. 3.6.8.2 Horizon selected.

Window "RSC viewer"

This window aims to show the colorimetry of selected horizon. The window of the "RSC viewer" consists of horizon (upper part), lists of wavelength and reflectance (left), graph of wavelength and reflectance (right), and values of CIE L*a*b*, CIE XYZ, and Munsell (bottom) (Fig. 3.6.8.3).

Fig. 3.6.8.3 RSCViewer window.

3.6.9. Columns "CIE L*", "CIE a*" and "CIE b*"

These columns aim to show the parameters in CIE (Commission Internationale de l'Eclairage - International Commission on Illumination) 1976 L*a*b* color space. These columns are quite similar to the GRA density column. Please see that section to learn operation.

Fig. 3.6.9.1 CIE L*, a*, b* columns.

3.6.10. Column "XRF logger horizons"

This column aims to show the measured horizons of XRF (X-Ray Fluorescence) logger. This column is similar to the color reflectance horizons column. Please see that section to learn operation.

Fig. 3.6.10.1 XRF logger measured horizons column.

By pressing the "show detail" button , the window shown below will be opened (Fig. 3.6.10.2).

Fig. 3.6.10.2 XRF logger detail dialog.

3.6.11. Column "XRF logger component"

This column aims to show quantitative analysis result values by XRF logger. This column is similar to the GRA density column. Please see that section to learn operation.

Fig. 3.6.11.1 XRF logger component column.

3.6.12. Columns "paleomagnetic polarity, declination", "inclination" and "intensity"

These columns are quite similar to the GRA density column. Please see that section to learn operation.

Fig. 3.6.12.1 Paleomagnetic polarity columns.

3.6.13. Column "Cryomag measured horizons"

This column aims to show the measured horizons of cryomag (pass through type magnetometer). This column is similar to the color reflectance horizons column. Please see that section to learn operation.

Fig. 3.6.13.1 Cryomag measured horizons column.

By pressing the "show detail" button , a window will be opened (See below).

Window "Cryomag measurement results"

This window can show detail of cryomag measurement results (Fig. 3.6.13.2).

Fig. 3.6.13.2 Cryomag measurement results dialog.

The "objective" column shows sample or horizon which has been measured. The "type" column shows demagnetization type (i.e. AFD or THD) or remains magnetization (i.e. ARM, IRM, or NRM) type. The "treatment bias" column shows magnetic field intensity in the case of remains magnetization measurement. "treatment demag." column shows magnetic field intensity of demagnetization. These values appear only for remains magnetization measurement. Columns "declination (deg.)", "inclination (deg.)" and "intensity (A/m)" show the remanent magnetic polarity and intensity after demagnetization or magnetizing treatments. "offline comment" column shows comment about remains magnetization or demagnetization. By pressing the "Export" button, the data in the table can be exported to a comma-separated value (csv) file specified.

3.6.14. Columns "AMS:anisotropy factors", "AMS:susceptibilities", "AMS:declinations (degree)" and "AMS:inclinations (degree)"

These columns aim to show AMS (Anisotropy of Magnetic Susceptibility) measurement results. They are quite similar to the GRA density column. Please see that section to learn operation.

Fig. 3.6.14.1 Columns of AMS:anisotropy factors, AMS:susceptibilities, AMS:declinations (degree) and AMS:inclinations (degree) (left to right).

about "registration info" button

See Registration Info Dialog for more details.

3.6.15. Columns "total carbon (wt%)", "organic carbon (wt%)", "calcium carbonate (wt%)", "nitrogen (wt%)" and "sulfur (wt%)"

These columns are quite similar to the GRA density column. Please see that section to learn operation.

Fig. 3.6.15.1 Columns of total carbon, organic carbon, calcium carbonate nitrogen and sulfur (left to right).

3.6.16. Column "CHNS/O measured horizons"

This column aims to show the measured horizons of CHNS/O. This column is similar to the color reflectance horizons column. Please see that section to learn operation.

Fig. 3.6.16.1 CHNS/O measured horizons column.

By pressing the "show detail" button , a window will be opened (See below).

Window "CHNS/O measured Viewer"

This window can show details of CHNS/O measurement (Fig. 3.6.16.2).

Fig. 3.6.16.2 CHNS/O measured detail window.

"Sample" area shows the sample information for measurement. "instrument" area shows the kind of measurement instrument. "Measurement Time" area shows when the measurement was done. "Measurement Result" area shows the measured values of carbon, hydrogen, nitrogen, and sulfur. The values in the row "Area" are integration values of chromatographic peaks (explained later), and those in the row "Conc." show contents. Chromatogram is shown by intensity change against time. By pressing the "Export" button, chromatogram data can be exported to a comma-separated value (csv) file specified by a save dialog.

3.6.17. Columns "Gas Chromatograph ECD", "Gas Chromatograph FID", "Gas Chromatograph NGA", "Gas Chromatograph TCD/FID"

These columns aim to show the measured horizons of each Gas Chromatograph. These columns are quite similar to the color reflectance horizons column. Please see that section to learn operation.

Fig. 3.6.17.1 Columns of Gas Chromatograph ECD, Gas Chromatograph FID, Gas Chromatograph NGA, Gas Chromatograph TCD/FID(left to right).

By pressing the "show detail" button , a window will be opened (See below).

Window "Gas Chromatograph Result Viewer"

This window can show details of each Gas Chromatograph measurement (Fig. 3.6.17.2).

Fig. 3.6.17.2 Gas Chromatograph Result Window.

"Sample information" area shows the sample information for measurement. "Table" area shows the measured values of compound name and amount. "information" area shows who registered data, when registered and comment about data.

about "export"

The "Export result data files..." button enables the user to show or export the numerical data set, which is shown graphically in the column, by another application software or as a local comma-separated value (csv) file, respectively. By pressing this button, a dialog appears (Fig. 3.6.17.3). In the dialog, the radio buttons "open" and "save" are on the top. When the "open" is chosen, user can choose an application software to open the data. The "save" button enables to specify a file to which the data will be exported. Enter key needs to submit entry in field of file name to save.

Fig. 3.6.17.3 Show/export dialog.

By pressing the "Export calibration data files..." button, calibration data files can be exported to specified directory by a save dialog. (Fig. 3.6.17.4) By pressing the "Export attachment data files..." button, attachment data files can be exported to specified directory by a save dialog. (Fig. 3.6.17.4)

You don't need to enter file name, just select a directory and push the "OK" button

Fig. 3.6.17.4 files export dialog.

3.6.18. Columns "Gas Elements(ECD)", "Gas Elements(FID)", "Gas Elements(NGA)" and "Gas Elements(TCD/FID)"

This column aims to show quantitative analysis result values by Gas Chromatography. These columns are quite similar to the GRA density column. Please see that section to learn operation.

Fig. 3.6.18.1 Columns of gas elements(ECD), gas elements(FID), gas elements(NGA) and gas elements(TCD/FID)(left to right).

3.6.19. Column "Liquid Elements"

This column aims to show quantitative analysis result values by Liquid Chromatography. This column is quite similar to the GRA density column. Please see that section to learn operation.

Fig. 3.6.19.1 liquid elements column

3.6.20. Column "Liquid Chromatography"

This column aim to show the measured horizons of Liquid Chromatography. This column is quite similar to the color reflectance horizons column. Please see that section to learn operation.

Fig. 3.6.20.1 Column of Liquid Chromatography.

By pressing the "show detail" button , a window will be opened (See below).

Window "Liquid Chromatograph Result Viewer"

This window can show details of Liquid Chromatograph measurement (Fig. 3.6.20.2).

Fig. 3.6.20.2 Liquid Chromatography Result Window.

"Sample information" area shows the sample information for measurement. "Table" area shows the measured values of compound name, signal and area. "information" area shows who registered data, when registered and comment about data.

about "export"

This function is the same as the Exporting of The Gas Chromatography Result Viewer. Please see that section to learn operation.

3.6.21. Column "Gas Concentration from GC/MS"

This column aims to show quantitative analysis result values by GC Mass Spectrometer. This column is quite similar to the GRA density column. Please see that section to learn operation.

Fig. 3.6.21.1 gas concentration from gc/ms column

3.6.22. Column "GC Mass Spectrometer"

This column aim to show the measured horizons of GC (Gas Chromatography) Mass Spectrometer. This column is quite similar to the color reflectance horizons column. Please see that section to learn operation.

Fig. 3.6.22.1 Column of GC Mass Spectrometer.

By pressing the "show detail" button , a window will be opened (See below).

Window "GC Mass Spectrometer Result Viewer"

This window can show details of GC Mass Spectrometer measurement (Fig. 3.6.22.2).

Fig. 3.6.22.2 GC Mass Spectrometer Result Window.

"Sample information" area shows the sample information for measurement. "Table" area shows the measured values of compound name, conc. and units. "information" area shows who registered data, when registered and comment about data. IF the data has the internal standards, it will be shown at the "information" area.

about "export"

This function is the same as the Exporting of The Gas Chromatography Result Viewer. Please see that section to learn operation.

3.6.23. Column "Elements Analysis from ICP-MS"

This column aims to show quantitative analysis result values by ICP (Inductively Coupled Plasma) Mass Spectrometer. This column is quite similar to the GRA density column. Please see that section to learn operation.

Fig. 3.6.23.1 elements analysis from icp-ms column

3.6.24. Column "ICP Mass Spectrometer"

This column aim to show the measured horizons of ICP Mass Spectrometer. This column is quite similar to the color reflectance horizons column. Please see that section to learn operation.

Fig. 3.6.24.1 Column of ICP Mass Spectrometer.

By pressing the "show detail" button , a window will be opened (See below).

Window "ICP Mass Spectrometer Result Viewer"

This window can show details of ICP Mass Spectrometer measurement (Fig. 3.6.24.2).

Fig. 3.6.24.2 ICP Mass Spectrometer Result Window.

"Sample information" area shows the sample information for measurement. "Table" area shows the measured values of compound name, conc. and units. "information" area shows who registered data, when registered and comment about data. IF the data has the internal standards, it will be shown at the "information" area.

about "export"

This function is the same as the Exporting of The Gas Chromatography Result Viewer. Please see that section to learn operation.

3.6.25. Column "Thermal Conductivity"

This column aims to show quantitative analysis result values by Thermal Conductivity. This column is quite similar to the GRA density column. Please see that section to learn operation.

Fig. 3.6.25.1 thermal conductivity column

3.6.26. Column "TCon measured horizons"

This column aim to show the measured horizons of Thermal Conductivity. The described section IDs are shown by left pointed arrowhead at horizons where section IDs were taken. The average of TC value and comment are connected to this arrowhead. This column is similar to the color reflectance horizons column. Please see that section to learn operation.

Fig. 3.6.26.1 Column of Thermal Conductivity.

By pressing the "show detail" button , a window will be opened (See below).

Window "Thermal Conductivity Result Viewer"

This window can show details of Thermal Conductivity measurement (Fig. 3.6.26.2).

Fig. 3.6.26.2 Thermal Conductivity Result Window.(with internal standards)

"Sample information" area shows the sample information for measurement. "information" area shows who registered data, when registered, average of tc value and comment about data. "Table" area shows the measured values of TC value, LET, NO., Time Start, Time Length, Time End, CV, Method, Comment, Probe Number and Probe Type.

about "export"

This function is the same as the Exporting of The Gas Chromatography Result Viewer. Please see that section to learn operation.

IF the data hasn't internal standards file(s), the "Export internal standards data files..." button will be disable. (Fig. 3.6.26.3).

Fig. 3.6.26.3 Thermal Conductivity Result Window.(without internal standards)

3.6.27. Column "elements of interstitial water"

This column aims to show ingredient analysis result values of interstitial water by Measurement apparatus. Measurement apparatus is Ultraviolet and visible spectrophotometer, and Alkalinity Titrator System and Other Titrator System. The measured value of each measurement apparatus is shown in the column for every unit. Units are pH, pmH, and mM and µM. This column is quite similar to the GRA density column. Please see that section to learn operation.

Fig. 3.6.27.1 elements of interstitial water columns

3.6.28. Column "Interstitial Water"

This column aims to show the horizon of the ingredient analysis result of interstitial water . The described sample IDs are shown by left pointed arrowhead at horizons where sample IDs were taken. This column is similar to the color reflectance horizons column. Please see that section to learn operation.

Fig. 3.6.28.1 Column of Interstitial Water.

By pressing the "show detail" button , a window will be opened (See below).

Window "Interstitial Water Result Viewer"

This window can show details of Interstitial Water measurement (Fig. 3.6.28.2).

Fig. 3.6.28.2 Interstitial Water Result Window.

"Sample information" area shows the sample information for measurement. "Table" area shows the measured values of Subject, Values, Unit, Equipment, Comment, Export attachment files, Registered by, Registration time stamp.

about "export"

This function is the same as the Exporting of The Gas Chromatography Result Viewer. Please see that section to learn operation.

3.6.29. Column "MAD Densities(g/cm³) and MAD Parameters(dimension less)"

Those columns aim to show ingredient analysis result values of moisture and density by Measurement apparatus. It measures with measurement equipment (Gas pycnometer), or the value of a special volume sampler is used. The measured values of each measurement apparatus are shown in the columns of MAD Densities(g/cm³) and MAD Parameters(dimension less). They are quite similar to the GRA density column. Please see that section to learn operation.

Fig. 3.6.29.1 densities of moisture and density columns

3.6.30. Column "Moisture and Density"

This column aims to show the horizon of the ingredient analysis result of moisture and density . The described sample IDs are shown by left pointed arrowhead at horizons where sample IDs were taken. This column is similar to the color reflectance horizons column. Please see that section to learn operation.

Fig. 3.6.30.1 Column of Moisture and Density.

By pressing the "show detail" button , a window will be opened (See below).

Window "Moisture and Density Result Viewer"

This window can show details of Moisture and Density measurement (Fig. 3.6.30.2).

Fig. 3.6.30.2 Moisture and Density Result Window.

"Sample information" area shows the measured sample information. "Table" area shows the measured values of Method, Bulk density, Dry density, Grain density, Total volume, Dry volume, Total mass, Dry mass, Mass of salt, Volume of salt, Mass of solids, Volume of solids, Mass of porewater, Volume of porewater, Water content(Wet), Water content(Dry), Porosity, Void ratio, Beaker ID(Measured wet sample), Beaker type(Measured wet sample), Beaker mass(Measured wet sample), Beaker volume(Measured wet sample), Beaker ID(Measured dry sample), Beaker type(Measured dry sample), Beaker mass(Measured dry sample), Beaker volume(Measured dry sample), Comment, Export attachment files, Registered by, Registration time stamp.

about "export"

This function is the same as the Exporting of The Gas Chromatography Result Viewer. Please see that section to learn operation.

3.6.31. Column "CSV File"

This column aims to show it that the values was defined by user in csv file. By pressing the "change csv file..." button , the dialog will be opened (Fig. 3.6.31.1).

Fig. 3.6.31.1 CSV File change dialog.

After selection of a csv file, graphs are shown in the column (Fig. 3.6.31.2).

Fig. 3.6.31.2 CSV File column.

This column is quite similar to the GRA density column. Please see that section to learn operation.

3.6.32. Column "X-Ray Diffractometer"

This column aims to show the horizon of the ingredient analysis result of X-Ray Diffractometer . The described sample IDs are shown by left pointed arrowhead at horizons where sample IDs were taken. This column is similar to the color reflectance horizons column. Please see that section to learn operation.

Fig. 3.6.32.1 Column of X-Ray Diffractometer.

By pressing the "show detail" button , a window will be opened (See below).

Window "X-Ray Diffractometer Result Viewer"

This window can show details of X-Ray Diffractometer measurement (Fig. 3.6.30.2).

Fig. 3.6.31.2 X-Ray Diffractometer Result Window.

"Sample information" area shows the measured sample information. "Resisterd" area shows who registered and when registered about this data. "Data file name" area displays the file name and its contents. File name displays on the title of a frame. It is the file uploaded as a data file from InstrumentalMeasurement (Uploader). The inside of text area displays the contents of the data file.

about "export"

The following files are outputted. The data file currently displayed on text area. The file automatically appended in InstrumentalMeasurement (Uploader). The file appended arbitrarily. When there is no attached file in the target data, only the data file currently displayed on text area is outputted. This function is the same as the Exporting of The Gas Chromatography Result Viewer. Please see that section to learn operation.

about "registration info" button

See Registration Info Dialog for more details.

3.7. Stratigraphy Diagram

3.7.1. fossil occurence diagram column

The fossil occurence diagram column shows fossil occurence data (Fig. 3.7.1.1).

Fig. 3.7.1.1 the "fossil occurence diagram" column

The , and buttons sort taxa on the diagram. sorts taxa by alphabetical, by bottom occurence and by top occurence.

The button shows fossil group chooser (Fig. 3.7.1.2). The diagram shows the chosen fossil group's fossil occurence data on this dialog.

Fig. 3.7.1.1 the "fossil group chooser" dialog.

The button exports the shown fossil occurence data as a Microsoft(R) Excel file. The format of the export file are described in that file.

The button shows the Legend of this diagram (Fig. 3.7.1.3).

Fig. 3.7.1.3 the dialog which shows the legend of the dialog.

This dialog shows the correspondence of the abbreviations specified in the import file to the symbols shown in the diagram.

3.7.2. paleontology microphotos column

The paleontology microphotos column shows the samples which fossil occurence data are recorded (Fig. 3.7.2.1). The depth horizons of the samples are pointed by the left arrowhead triangles.

Fig. 3.7.2.1 the "paleontology microphotos" column

Clicking on the triangle or text chooses (or clear choice) the sample. Triple clicking on the column chooses all shown samples. Note that the sample without photography cannot be chosen. Number of photography is shown in the parentheses.

The button shows the microphotography viewer window which shows microphotographs of the chosen samples (see below).

microphotography viewer window

The microphotography viewer window shows the microphotographs and its information on the fossil occurence data.

Fig. 3.7.2.2 the microphotography viewer window

The chosen samples on the column are listed on the upper left pane. Choosing a sample on the sample list shows microphotograph list on the lower left pane which photographed from the sample. Choosing a microphotograph on the microphotograph list shows the microphotograph and its information on the right pane.

The button prints the chosen microphotographs to the papers.

The button exports all of microphotographs of all samples in this window as HTML files.

3.7.3. age model column

The age model column shows an age model curve related to the shown site, hole, core or section (Fig. 3.7.3.1).

Fig. 3.7.3.1 age model column

Symbols in the diagram are control points. The shape of the symbol is different with its type of age and depth patterns (see Fig. 3.7.3.2).

The depth - age curves are automatically drawn. A line segment is drawn as the slope becomes gentlest.

Break horizons are drawn as horizontal lines.

Fig. 3.7.3.2 Legend of the control points

The button changes the range of age axis (see Fig. 3.6.2.3).

The button exports shown age model as a jcsa file (See the Stratigraphy age model data file format specification format).

The button changes shown age model. Clicking this button shows the age model chooser dialog (Fig. 3.7.3.3).

Fig. 3.7.3.3 age model chooser dialog

In this dialog, age models related to the shown site, hole, core or section are listed. Check a radio button and click OK button. The age model shown on the column will be replaced.

The button shows the details of the shown age model. Clicking this button shows the detailed information window (Fig. 3.7.3.4).

Fig. 3.7.3.4 detailed information window. above: Control Points. middle: Interval Functions. bottom: Break Horizons.

The details of the control points, interval functions and break horizons are shown in each tabs on the window. All of the recognitions related to the shown site, hole, core or section are listed in the Control Point tab. The recognitions employed as the control points are checked at the "use" column.

Choosing a control point, interval function or break horizon on this window highlights the chosen target on the age model column, and vice versa. Choosing a control point, interval function or break horizon on the age column chooses the chosen target on the window.

Fig. 3.7.3.5 choosing a control point

The button sets the sizes and colors of the control points on the age model column. Clicking this button shows the control point properties dialog (Fig. 3.7.3.6).

Fig. 3.7.3.6 control point properties dialog

Set the color and size on each groups, then click OK button. And the sizes and colors of the control point symbols will be updated.

3.8. Micro bio Diagram

3.8.1. Columns "Beads Density (⁄g)", "Beads Density (⁄cm³)", "PFC (ng⁄g)", "Cell Density (⁄g)" and "Cell Density (⁄cm³)"

This column aims to show the result of the measurement and the observation of the microorganism sample. These columns are quite similar to the GRA density column. Please see that section to learn operation.

Fig. 3.8.1.1 Columns of Beads Density (⁄g), Beads Density (⁄cm³), PFC (ng⁄g), Cell Density (⁄g) and Cell Density (⁄cm³) (left to right).

The point of "Below detection limit" and point of "Over detection limit" can change the color, shape, and the size with other plot in the series. As for the point of "Below detection limit", plot is always done by the left of the column. As for the point of "Over detection limit", plot is always done in the right of the column. If "Confidence lower detection limit" is registered, it becomes a line and is displayed in the column. There are some differences in each column. (See "Feature of column")

Feature of column.

Detailed information window

The button shows the details of the shown micro bio data. Clicking this button shows the detailed information window (Fig. 3.8.1.2).

Fig. 3.8.1.2 Micro bio columns detail viewer.

Microscope photo viewer

The "View" button shows the microphotographs used for the biomass measurement. Clicking this button shows the Microscope photo viewer window (Fig. 3.8.1.3).

Fig. 3.8.1.3 Microscope photo viewer.

Choosing a sample on the sample list shows microphotograph list on the left pane which photographed from the sample. Choosing a microphotograph on the microphotograph list shows the microphotograph and its information on the right pane.

The button prints the chosen microphotographs to the papers.

The button exports all of microphotographs of all samples in this window as HTML files.

Appendix A: Counts Expressions of Data Columns

Appendix B: Data Columns and Their Availability

Appendix C: Depth correction rules for Depth DSF, MSF, WSF and CSF

Composite log viewer has "Depth DSF, MSF, WSF and CSF" depths as pre-defined processed depths. They can be chosen as a shown depth in any site / hole / core / section. They are composite depths of DSF, MSF, WSF and CSF, which origin are sea floor. In those depths, depth at a section (aka. Core Depth []) will be converted to the CSFs. There are 8 different rules to convert to CSFs. 2 are defined on the IODP Depth Scale Terminology, and 6 are kinds of CSF-C.

(1) CSF-A and CSF-B

Depth conversion rules for CSF-A and CSF-B are shown on Fig. C1. They are defined in the IODP depth scale terminology. CSF-A adds sum of section curated lengths to the core top depth. If the sum of section curated lengths is longer than the core advancement length, CSF-A lets it out and overlaps next core.

CSF-B is same as the CSF-A when the sum of the curated lengths is shorter than than or same to the core advancement length. If the sum of section curated length is longer than core advancement length, CSF-B compresses its length to fit to core advancement length.

Fig. C1 Depth correction paths for CSF-A and CSF-B

(2) CSF-C, SV and CSF-C, SV-CMP

Depth conversion rules for CSF-C, SV and CSF-C, SV-CMP are shown on Fig. C2. CSF-C, SV is sum of section curated lengths which are subtracted void intervals, and adds it to the core top depth. If the sum of void-subtracted section curated lengths is longer than the core advancement length, CSF-C, SV lets it out and overlaps next core.

CSF-C, SV-CMP is same as the CSF-C, SV when the sum of the void-subtracted curated lengths is shorter than than or same to the core advancement length. If the sum off the void-subtracted section curated length is longer than core advancement length, CSF-C, SV-CMP compresses its length to fit to core advancement length.

Fig. C2 Depth correction paths for CSF-C, SV and CSF-C, SV-CMP

(3) CSF-C, SE and CSF-C, SE-CMP

Depth conversion rules for CSF-C, SE and CSF-C, SE-CMP are shown on Fig. C3. They are quite similar to the depths CSF-C, SV and CSF-C, SV-CMP but are subtracted exotic materials intervals instead of void intervals.

Fig. C3 Depth correction paths for CSF-C, SE and CSF-C, SE-CMP

(4) CSF-C, SVE and CSF-C, SVE-CMP

Depth conversion rules for CSF-C, SVE and CSF-C, SVE-CMP are shown on Fig. C4. They are also similar to the depths CSF-C, SV and CSF-C, SV-CMP but are subtracted exotic materials intervals in addition to void intervals.

Fig. C4 Depth correction paths for CSF-C, SVE and CSF-C, SVE-CMP