Overview
J-CORES is a scientific data management system in order to store and distribute science data taken on Chikyu shipboard.
To access J-CORES' data, proceed to SIO7 Data Center.
Components
Version 1.8 is the latest stable one.
J-CORES consists of the relational database on a host computer and application softwares on client hosts. The applications are divided by their use cases.
CompositeLogViewer
Application ‘CompositeLogViewer’ visualizes multiple data in depth series immediately after data entry to the database by the other applications: They include VCD, fossil occurrences, age models, numerical values measured instrumentally and core recovery in any processed depths. [Manual]
Bulk Export CLI
‘Bulk Export’ function exports all the data on the database. The equal function can be executed by using CompositeLogViewer. [Manual]
D-Tunes
Application ‘D-Tunes’ processes depths. Any number of processed depths can be recorded either from measured depths of core depth (the way to indicate horizons in cores, i.e. site/hole/core/section/interval), drill pipe depth, wireline logging depth, mud logging depth and seismic TWT, or from other processed depths. [Presentation slide] [Manual]
Visual Core Description (VCD)
Shipboard sedimentologists, petrologists and structure geologists perform visual core description (VCD) by using the application ‘VCD’. The application provides ‘digital barrel sheet’ by using stylus pen devices, and helps to summarize descriptions. [Screen shooting movies 1 2 3 4] [Practical instruction of live VCD during CK06-06 cruise, in Japanese] [Manual]
Stratigraphy
Magneto-, bio-, and key-bed stratigraphers process stratigraphy and geochronology onboard by using the application ‘Stratigraphy’; (1) developing expedition-local references of stratigraphic units and horizons, paleontological taxa, and bibliography, (2) recording fossil occurrences by paleontologists, (3) recognizing stratigraphic horizons in holes, and (4) building age models. [Reference example] [Manual]
µBio
Application µBio is for sample contamination and biomass measurements. [Manual]
Uploader
Application ‘Uploader’ parses data files acquired by instrumental measurements and upload them into the database. [Manual]
Operation
The ‘Operation’ application consists of functions related to operator activities. It includes editing the current expedition, sites, holes, surveys and core drillings. [Manual]
Curation
Curators record sections, miscellaneous materials (physical materials recovered from a hole, excluding cores, e.g. mud logging cuttings, side wall micro-cores by a wireline logging tool, in-situ water samples by a downhole tool), sample requests by the ‘Curation’ application. [Manual]
Sample
Samples are taken from a section or a miscellaneous material and are recorded by the ‘Sample’ application. [Manual]
User
The ‘User’ application is for user administration in the system. [Manual]
Parameter Definer
‘Parameter Definer’ is a command-line interface to define ‘User-Defined Parameter’ and to look the definition. [Manual]
Database Synchronizer
‘Database Synchronizer’ is for merging and splitting data between two databases. [Manual]
History
J-CORES development was initiated in 2000. The first version 0.1 (2002-02) contains CompositeLogViewer which connects to Janus clone database. From J-CORES 0.2 (2003-02), it was started to develop VCD, Uploader and Stratigraphy with data model contains a lot of original tables and Janus clone. In J-CORES 0.3 (2004-01), VCD has capability to describe sedimentary, hard rock, and deformation structures, and gradated or alternated lithology. Uploader can load files of magnetometries.
J-CORES 0.4 (2005-04) contains Applications Operation, Curation, Sample and User. The data model became that of J-CORES. Stratigraphy is capable to develop references of chrono-, magneto-, bio-, and lithostratigraphic unit and horizon, and bibliography. Uploader can load files of geochemical measurements. J-CORES 0.5 (2005-08) includes Application D-Tunes, and the capability of Uploader to load extra data in CSV file. Data model of stratigraphic horizon recognition and age model was also built as well as file format specifications. Application µBio is included by version 0.6 (2005-10-03). Version 0.7 (2005-10-31) has the capability to store XRD measurement. CompositeLogViewer of version 0.9 (2006-07-28) has diagram template function and SVG export function. Versions 0.8 (2006-07-26), 0.10 (2006-08-01), 0.11 (2006-08-12) and 0.12 (2006-09-19) are unstable versions whose CompositeLogViewer are fast. Version 1.0 (2006-11-28) has the diagram template and SVG export functions of Version 0.9 and its CompositeLogViewer and VCD are as fast as Version 0.12.
Version 1.1 (2007-08-31) includes the function of ‘Bulk Export’, which exports all the data shown by CompositeLogViewer into a CSV file and some attaching files. The function will be used to provide data to IODP SMCS and SEDIS. In order to co-work with IODP SMCS, Version 1.2 (2007-11-13) is capable to store SMCS' approved sample request ID list, upon which samples are taken. Version 1.3 (2008-03-31) includes Administration Tools ‘Database Synchronizer’ to divide and migrate data between the ship and land databases. Versions 1.4 and 1.5 (2009-04-30) had the following enhancements: 1. Saving the previous view setting in Applications CompositeLogViewer and VCD; 2. Improved VCD human interface and drawing function; 3. Handling measurements outside curated length of core sections by CompositeLogViewer; 4. Visualization of most of parameters of the moisture and density and anisotropy of magnetic susceptibility by CompositeLogViewer; 5. Lock and unlock function for section and miscellaneous material halves from sampling from them. Version 1.6 (2010-05-10) renamed built-in measured and processed depths and their units in accordance with ‘IODP Depth Scale Terminology’ Version 1.1. Version 1.7 (2011-06-30) was an unstable version in order to test the application programs on Java SE 6. By Version 1.8 (2012-05-07) the function to load ‘Extra Scalar’ values in ‘CSV File’ was replaced by a new capability to store ‘User-Defined Parameter’, which accepts numerical values, text values and attachment files for expedition, seismic shot points, sites, holes, cores, miscellaneous materials, sections, samples, horizons and intervals. Application ‘Visual Core Description’ enables to copy & paste lithology-distributions, their boundaries, structures and drilling disturbances within the application.
Ownership and License
Center for Deep Earth Exploration (CDEX), Japan Agency for Marine-Earth Science and Technology (JAMSTEC) owns the J-CORES. Currently, J-CORES is not distributed with any licenses.