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3.5 Tool Programming

Introduction           

If you are not familiar with operation of the APCT-3 tool, take time in port or during transit to review these instructions and run bench tests.

Operating system

The data logger is programmed using a desktop or notebook computer running Windows XP. No tests have been run using Windows Vista; limited testing has been performed using Windows 98, but vendor specifications do not include support for this operating system.

Procedure: activate logger and check battery

To activate the tool and check the battery for the APCT-3 tool, follow these steps:

STEP 1: Connect the serial cable to the computer and to the deck box, then connect the deck box to the tool cable, which terminates with the curved connector.

STEP 2: Double click on the WinTemp icon on the computer to open the starting menu (arrow).

STEP 3: Insert the mini-banana plugs on the curved connector into the contacts on the top of the electronics support frame.

STEP 4: Click Yes in the logger window (Fig. 3-1) to see a real-time summary (Fig. 3-2) of digital counts, resistance, and temperature, updated once/second.

STEP 5: Click the Offline button in the Online Data window to return to the main screen.

STEP 6: Select Logger > Battery.

Figure: logger online window

 Figure 3-1.  Logger > Online Logger Window.

Figure: logging data summary

Figure 3-2.  Real-Time Logging Summary of Online Data.

STEP 7: In the WinTemp tool bar menu, select Logger > Online to verify communication has been established.

STEP 8: Click Yes in the Logger window that opens to open the Battery status window.

Note: Collection of this data will be helpful in evaluating tool performance.

STEP 9: Record Battery Voltage and Total Sample Count on the Data Sheet.

Note: If the battery volts are less than 2850mV, replace the battery.

STEP 10: Click Exit in the Battery Status window to return to the main screen.

STEP 11: Go to Clear logger data.

Clear logger data

After activating the tool and checking the battery, select Logger > Clear data to collect new data. There are four possible responses:

• Logger has not been run and no data are present in the window but the program requests user to clear the logger memory. Clck Yes or No.

• Logger has been run, acquisition was stopped, and the program asks if you want to clear the data in the window. Click Yes or No.

• Logger was deactivated and memory cleared. Click OK.

• Logger contains data, program requests user to clear memory before proceeding. Click OK to clear data.

Procedure: data logger setup

To prepare the data logger for a new deployment, perform these steps:

 STEP 1: In the WinTemp tool bar menu, select Logger > Setup to open the setup screen (Fig. 3-3).

STEP 2: Set time to GMT to avoid problems with data interpretation.

Note: If the GMT is not correct, contact the Marine Computer Specialist.

STEP 3: Select the Synchronize Logger to PC Time check box to synchronize the tool real-time clock to the computer clock.

STEP 4: Mark the Data Sheet for GMT (UTC).

Note: Use of GMT (UTM) is standard in marine science observations.

STEP 5: Select ‘Sync Logger to PC time.’

STEP 6: Select max duration.

STEP 7: Select 1 s interval.

STEP 8: Select ‘Start Now.’

STEP 9: A Verification window shows selected parameters, giving the operator a chance to revise the logging plan (Fig. 3-4). The time until logging will begin is displayed above the OK button.

• If WinTemp finds no problem, the OK button will be colored green.
• If the OK button is grayed out, there is a problem with the selected program. Click Back to Setup to return to Setup if needed to revise the sampling plan.

STEP 10: Proceed to Final Tool Assembly for Deployment.

Figure: logger setup screen

 Figure 3-3.  Logger Setup Screen.

Figure: logger setup verification

Figure 3-4.  Logger Setup Verification.

4.0   Tool Deployment

4.1 Overview

Introduction           

The APCT-3 tools have been carefully calibrated on shore at the Metrology Lab, but it is good practice to verify bottom water temperature at each site at least once for each APCT-3 tool used during an expedition. More frequent bottom water measurements may be desirable, particularly when working in shallow water or in other environments where bottom water temperature variations are expected.

See APC pullout and partial penetration for additional information on deployment.

4.2 Final Tool Assembly for Deployment

Procedure: final tool assembly

Finish assembling the tool, coring shoe, and core catcher sub before deploying the tool:

STEP 1: Remove the connector from the top of the support frame after programming the tool.

STEP 2: Insert the Top Ring (with clean, dressed O-rings) above the Electronics Support Frame using the Frame Insertion-Extraction tool.

Note: Always use the Frame Insertion-Extraction tool with the Top Ring, otherwise it may go into the shoe skewed and become jammed or damage the O-rings.

STEP 3: Clean and dress the Core Catcher sub O-rings (Core Tech provides Core Catcher).

STEP 4: Insert the Core Catcher sub into the top of the coring shoe and make it up by hand so that only a few threads remain exposed to limit opportunities for water, dirt, or grease to foul the APCT-3 electronics.

STEP 5: Proceed to Procedure: running a temperature station.

4.3 Running a Temperature Station

Introduction           

The drill pipe is an efficient heat exchanger, so water in the pipe is generally close to bottom water temperature by the time the water reaches the bottom of the pipe, provided the water is sufficiently deep and the surface water is not anomalously warm.

However, depending on the pumping rate and the ambient hydrography, water in the pipe may not equilibrate with bottom water if the pumps are running quickly.

In addition, the complete APCT-3 system is thermally massive, and the best bottom water temperature measurement will be made by holding the tool stationary, a few meters above mudline, for 10-15 min with the pumps off.

When positioning the tool at the mudline, be sure to take into account the length of the core barrel. If the tool is inadvertently held below the mudline, a spurious bottom water temperature will be determined.

Procedure: running a temperature station

To run a temperature station with the APCT-3 tool, perform these steps:

STEP 1: Pass the untightened tool assembly to the Core Tech or a member of the rig crew 20 to 40 minutes before they send the core barrel down the pipe so it will be ready.

Note: The Core Tech or rig crew will tighten the core catcher using a special wrench made for the coring shoe.

STEP 2: The rig crew will make up the coring shoe/Core Catcher Sub to an Inner Core Barrel, then lower the barrel into the pipe on the sand line.

STEP 3: Go to the drillers shack with the Data Sheet wearing the appropriate safety gear after the core barrel has been launched and let the driller know how you would like to run the station.

Note: Tell the driller in advance if you would like to stop at the mudline t record a bottom water temperature.

STEP 4: The driller performs the following tasks, after measuring the bottom water temperature:

• Lowers the tool into the bit
• Pressurizes the drill string
• Fires the core barrel into the formation
• Waits 8–10 min for the tool to partly equilibrate with the formation

 STEP 5: The driller pulls the tool out and returns it to the rig floor.

Note: Some researchers like to pause again at the mudline during tool recovery, but the tool equilibrates more slowly at this time because it is thermally more massive than during deployment (because it contains sediment). The best bottom water temperature measurement is made prior to collection of a core.

STEP 6: Mark the Data Sheet to indicate the time of penetration and whether pressure “bled off” normally following APC deployment.

Note: Complete pressure bleed-off generally indicates a normal deployment, with the expectation that the APC coring shoe penetrates ~9.5 m ahead of the bit; actual penetration depth is calculated on the basis of recovery. However, abnormal pressure bleed-off generally indicates an incomplete stroke of the APC, and the driller releases the pressure manually.

STEP 7: Proceed to Procedure: retrieving the tool and core.

4.4 Removing the Core

Introduction           

After the core is retrieved, the APCT-3 tool must be cleaned, data downloaded, tool reprogrammed for the next run, and tool redeployed.

Special wrench     

When the APCT-3 tool comes back on deck the rig crew breaks the coring shoe and core catcher sub connection with a special wrench. Stand and watch every time the rig crew breaks the connection.

Failure to use the special wrench to break the connection between the coring shoe and the core catcher sub could result in a deformed coring shoe or damaged electronic components inside the shoe.

Procedure: retrieving the tool and core

To retrieve the APCT-3 tool, perform these steps:

STEP 1: When the tool is retrieved, ensure the rig crew uses the special wrench to break the connection.

STEP 2: Unscrew the crossover by one thread only so the Heat Flow Catcher Sub/Heat Flow Shoe remain watertight.

Note: Unscrewing by only one thread is vital because if the core technicians need to hammer the sediment from the coring shoe they could drive mud and grease into the cavity above the Top Ring and damage the electronics.

STEP 3: An IODP technician or Downhole Measurement Technician on the catwalk removes soupy or firm core from the watertight Heat Flow Catcher Sub/Heat Flow shoe using a plunger.

STEP 4: The technician labels the core as core catcher sample, and passes the Heat Flow Catcher Sub/Heat flow Shoe unit to the Downhole Measurement Lab (DHML) Technician if an IODP Core Technician removes the core.

STEP 5: The DHML Technician then

• Cleans the tool (Procedure: cleaning the tool)
• Downloads the data (Procedure: data download)
• Redresses the tool for the next deployment (Procedure: redressing the tool)

Procedure: removing stiff sediment

To safely remove stiff sediment, follow these steps:

STEP 1: Wash any mud off of Heat Flow Shoe. Water will not reach the connector inside, as it is protected by the inner and outer wall of the tip housing and sits face up.

STEP 2: Place the APCT Heat Flow Shoe (or tip) in a vise with the shoe pointing upward or hold the shoe and Heat flow Catcher Sub on the workbench.

STEP 3: Swab off any remaining water from the cleaning process.

STEP 4: Unscrew and separate the cutting shoe containing the Electronics Support Frame from the Heat Flow Flow Catcher Sub. With stiff sediment, there should be little or no flowing water. If necessary, the outer part can be sprayed with hot water to remove excess clay.

STEP 5: Once this is completed, it is safe to use the plunger and hammer to recover the core inside the Heat Flow Catcher Sub, as below.

STEP 6: Remove any sediment inside the cutting shoe (or tip) by cutting the clay with a long flat spatula around the inner wall and pushing out.

Caution: Use caution when hammering sediment out of the cutting shoe while the electronics are in the Heat Flow Shoe.

STEP 7: Clean the tool before downloading data as per Procedure: cleaning the tool.

4.5 Cleaning the Tool

Introduction           

After the core is retrieved, clean the tool before downloading data to the PC.

Procedure: cleaning the tool

Clean off the tool and download the data by following these steps:

STEP 1: Place the shoe and crossover sub (still connected) upside-down (with the cutting edge facing up) on the catwalk.

STEP 2: Hose off the inside and outside of the APCT-3 assembly.

Note: Do this outside where there is water and it will not matter if it is messy. If the mud dries it will be tougher to clean off later.

STEP 3: Run a brush or rags through the inside of the coring shoe to remove all mud off after removing the core catcher sub from the coring shoe.

STEP 4: After cleaning, take the shoe and crossover sub to the Downhole Measurement Lab (DML) and set on the counter upside down (cutting edge facing up).

STEP 5: Wipe off the exterior of the coring shoe and sub with a dry rag.

Note: If the sub has water on it when you open the coring shoe cavity, the water could drip down inside and onto the APCT-3 electronics.

STEP 6: Unscrew the coring shoe after drying. Either have someone hold the sub or put it in the vise until you get it unscrewed past the O-rings.

STEP 7: When the coring shoe is free, turn it over and place it on the stand on the counter. The Top Ring should be visible at the top of the coring shoe.

STEP 8: Wipe off grease and mud from around the Top Ring using Kimwipes, Q- tips, and lint-free rags.

STEP 9: Use the Frame Insertion-Extraction tool to remove the Top Ring, then gently wipe any water drops off the top of the Electronics Support Frame before attaching the electrical connector to recover the data.

Note: Do not remove the Electronics Support Frame from the coring shoe unless it requires servicing or inspection. You should be able to collect data from dozens of deployments without removing the support frame from the coring shoe.

STEP 10: While data are downloading (Procedure: data download), (this takes several minutes) wash the Heat Flow Catcher Sub (hot water spray gun or hold it above a wash basin) with clean with hot water.

Note: A strong solution of dish soap can be used if needed.

STEP 11: Ensure the cavity of the Heat Flow Catcher Sub is completely dry.

STEP 12: Redress APCT-3 Tool for next deployment (Procedure: redressing the tool).

4.6 Downloading Data

Introduction           

Download the data to the PC before redressing and redeploying the APCT-3. For more information on modeling see Fisher etc al., 2007(see Bibliography or find document in Cumulus).

Procedure: data download

To download the APCT-3 data, perform these steps:

STEP 1: Insert the electrical connector into the top of the support frame to allow the APCT-3 electronics to communicate with the computer.

STEP 2: Start WinTemp, if it is not already running on the computer.

STEP 3: Select Logger > Read data from the main menu.

STEP 4: A window opens (Fig. 4-2) containing a statement that the logger is active and ask: Do you want to stop acquisition? Click Yes. Figure 4-2 shows the open data file.

Note: The program uses a default calibration file to process the data after clicking Yes. If you want to load a specific calibration file, ask the Downhole Measurements Lab Technician for assistance. For additional assistance, contact the Metrology Lab Lead, Dean Ferrell via ferrell@iodp.tamu.edu.

STEP 5: The file is saved in WinTemp (.wtf) and ASCII (.dat) formats to the Antares directory (Fig. 4-3 and Fig. 4-4).

Note: The file is automatically named with the:

• Tool ID
• Date and time at which the tool started

STEP 6: Complete the Data Sheet, recording any anomalous events or tool behavior.

Note: Data Sheets for the current expedition are kept on a clip board next to the DHML PC.

STEP 7: Pertinent information (i.e., penetration, time, mud line temp, pull out time, unusual activity, etc.) from the data sheets should be added to the comment box in the TP-FIT data when the data is processed. The datasheets may be discarded at the end of the expedition once this is done.

STEP 8: Run another temperature station (see Running a Temperature Station) or store the APCT-3 tool (see Tool Redress).

Figure 4-1.  Logger is Active Window.

 Figure 4-2.  Data File.

 Figure 4-3.  Save Data as *.wtf File.

Figure 4-4.  Export data as *.dat File.

4.7 TPFIT Quick Start

Introduction           

TPFIT software is designed to work with APCT-3, SET, and SETP tool data. TPFIT is a Matlab™ program created for processing APCT-3 data.

This Quick Start guide will provide the novice user steps to do simple data processing. Section 4.8 APCT-3 Data Processing (TP-FIT) provides more detailed information on using TP-FIT.

Additional resources

For advanced users, see the Formation Temperature Analysis User Guide (Heesemann, 2007).

Definitions            

The following symbols are defined as:

• k = sediment thermal conductivity
• pc = heat capacity

Procedure: process data

To process data, perform these steps:

STEP 1: Place APCT-3 data in a working directory with the TPFit.m code (and subdirectories) then

           1. Start Matlab.

           2. Run TPFit.

STEP 2: Select Load Data to load a data file.

STEP 3: Select Edit Meta-Data and enter appropriate values for k and rc only if you are familiar with using TPFIT software and know the values are incorrect.

Note: If you are not a very knowledgeable user of TPFIT, then do not change the k and rc values.

STEP 4: Select Pick and choose the following:

• Tool penetration time (t0)
• Initial data point to fit to the model (Data Start)
• Final data point to fit to the model (Data Stop)

STEP 5: Select Show Fit and examine the Results plot window.

STEP 6: Select Make Report to generate text output for later plotting.

4.8 APCT-3 Data Processing (TP-FIT)

Overview               

This section provides an overview of using the TP-FIT software. TP-FIT is a MatLab program created for processing APCT-3, SET, and SETP data.

Launching            

To launch TP-FIT (tpfit3.exe), perform these steps.

STEP 1: If Matlab is installed on your computer, start Matlab and open the working directory. This directory should contain the main TPFit.m script and subdirectories called RefModels and TP-Fit. It’s best to have a single working directory for an expedition.

Bring data files into this directory for processing and then move the files out of the directory when work is completed.

STEP 2:Launch the GUI: double click the TPFIT3.exe icon on the desktop or the TPFit.m script in the TP-Fit\MatLab directory within Matlab.

STEP 3: The Opening screen is a narrow window with 10 buttons that represent the general TP-Fit workflow process from top to bottom (see Fig. 4-5). This screen remains open throughout the process.

The button commands are:

• Load Data
• Edit Metadata
• Pick
• Show Fit
• Compute Contours
• Explore
• Save Session
• Make Report
• Extras
• Quit

Figure 4-5. TP-Fit Opening Screen before and after loading a data file.

Load Data             

The Load Data button imports a data file for processing (e.g., the APCT-3 file 1329C09H.dat from the test data directory). Once a data file is loaded, the Pick, Compute contours, Load Data, and Edit Metadata buttons turn green (Fig. 4-5).

Edit Metadata       

When a data file is loaded, TP-Fit creates basic metadata. Select the Edit Metadata button to open the Edit Metadata screen (Fig. 4-10).

The information displayed on the Edit Metadata screen becomes the header information for the data record. Initial values are filled in from the data file. Fill in any fields on this screen that are missing information.

File metadata includes the following:

• Expedition, Site, Hole, Core, and Core Type
• Depth (m)
• Tool ID (tool serial number)
• Tool Type (APCT, APCT-3, DVTP, SET)
• Operator
• Initial k (see Initial_k and Initial rC Fields (Heat Mass))
• Initial rc (see Initial_k and Initial rC Fields (Heat Mass))
• Comments

Figure 4-6.  Edit Meta Data Screen

 Enter and review the information on the Edit Metadata screen and then click OK to close the Edit Metadata window.

Initial_k and Initial rC Fields (Heat Mass)

Initial k and Initial rc values are supplied by the program and are standard physical property values used in calculations. Do not change these values unless you know the values for the area.

Part of data processing is evaluating the uncertainty in final temperatures caused by the uncertainty in k and rc values, but it is best to enter a reasonable initial value.

In the last generation of APCT processing software, the user was asked to enter only a value for k, and thermal diffusivity (K = k/rc) was calculated from the empirical relation of Von Herzen and Maxwell [1959]:

K = 3.657 x (k – 0.70)/10–7

where

           k is in W/(m·k) and

           K is in m2/s.

Other studies have explored relations between k and K, and the advanced user is advised to choose a favored relation initially but to explore the significance of this relation as part of APCT-3 processing (see section Computer Contours and Explore in Heeseman, 2007, available in Cumulus [use TP-FIT in the quick search]).

Pick                      

The next step in processing TP-Fit data is to select the data segments to process. Three data points must be selected:

1. Tool penetration time (t0)
2. Data start (initial data point to fit to the model)
3. Data stop (final data point to fit to the model)

Click the Pick button on the opening screen to open a plot of the data record (Fig. 4-7). As the data are shown in a standard Matlab plotting window, you can zoom in and out and adjust axes.

TP-Fit defaults to a data processing window of 9 min (from 60 s to 600 s after penetration; see boxed area in Fig. 4-7 and expanded area in Fig. 4-8). These times can be adjusted by choosing the appropriate Pick button in the upper right hand side of the screen (t0, Data Start, and Data End; see Fig. 4-7).

Figure: initial data plot screen

Figure 4-7.  Initial Data Plot Screen.

Zoom in on the plot (Fig. 4-9) to define the data interval to process. Include data points before penetration and after penetration, including several minutes of data prior to tool penetration.

Figure 4-8.  Data Plot with t0 (dark vertical dotted line) and Data Start Pick (crosshair cursor).

Select Data Start

Select the data start point following these steps:

STEP 1: Click the Pick button next to Data Start in the Data Plot window (Fig. 4-8).

STEP 2: Move the cursor to the point at which you would like to start processing the data (i.e., a sharp rise in temperature).

STEP 3: Left-click with the mouse to change the cursor to a crosshair to select and move the crosshair to the start time on the Data Plot window (this region is reused in the result plots later).

STEP 4: Refine the pick by selecting an interval in the unshaded region (see Fig. 4-9) of the plot. Pick an area with the most consistent data, but the pick should not be too close to t0.

STEP 5: Select the Data Stop point (Select Data Stop).

Figure 4-9.  Zoom View of Best Data Area.

Select Data Stop

The next step is to pick the end time (which is 600 in Fig. 4-7):

STEP 1: Click the Pick button next to Data Stop in theData Plot window (Fig. 4-8).

STEP 2: Move the cursor to the point at which you would like to stop processing the data.

STEP 3: Left-click with the mouse to change the cursor to a crosshair to and move the crosshair to the stop time on the Data Plot window (this region is reused in the result plots later).

To ensure a good pick it is best to pick the value a little left of the point where the temperature rapidly changes (rapid changes indicate the tool is moving)

STEP 4: Once tool penetration data start and data stop points are selected, click

Done on the Data Plot screen to return to the opening screen.

Show Fit               

The Show Fit button on the opening screen opens the Results screen, which contains four plots (see Fig. 4-10). Plots A and B show actual and extrapolated data points and parts C and D show how equilibrium formation temperature was estimated.

Plot A

• Blue dots = tool measurement stations
• Unshaded region = data selected for processing
• Diamond = last third of the selected data
• Bold red line = reference model corresponding to the physical properties (shown in lower right plot)
• Dashed/dotted lines: extrapolated temperatures

Plot B

This plot shows the difference between data and model and reveals systematic deviations that cannot be recognized in the first plot. The deviations are plotted on a log-scale, as absolute values

• Open symbols = overestimates
• Solid symbols = underestimates

Figure: results screen

Figure 4-10.Results Screen. (MH draft has a better figure)

Plot C

This plot shows a crossplot of measured and modeled temperatures. Early data appear on the upper right corner of the plot and later data appear toward the lower left corner. Extrapolation of the (hopefully) linear trend shown in this plot back to the x = 0 value indicates the interpreted formation temperature at equilibrium (i.e., what the tool would have recorded eventually, if it were left in place long enough).

Two values are indicated:

• Dashed pink line = use of the full data window
• Dotted black line = use of the last third of the data window (see part A)

Plot D

• Black dotted line = standard deviation of the misfit between the model and observations
• Blue open circle (at ~70 s on the x-axis) = optimal time-shift used in the previous plots.
• Click on the axes to see dashed and dotted lines that show the sensitivity of estimated undisturbed formation temperatures to time-shift changes [Author: blue dot, dashed line, dotted line don’t show up well in this jpeg-MG suggested a different data set.]
• Click the time-shift axis to inspect the effect of different time-shifts on all graphs.
• Click the parameter box in the top left corner of part D to open a new window where model parameters k and rc can be changed by moving the crosshair on the displayed graph

Make Report         

The final step in these instructions is to make a report. You can send the results of the fit analysis to a text file for plotting with different software by clicking Make Report in the opening screen.

Make Report creates .eps files of the current result and contour plots in the data directory and generates a simple ASCII report.

4.9 Tool Redress

Introduction           

Notify the electronics technician, lab tech, or lab officer if supplies are needed.

Procedure: redressing the tool

To prepare the tool for redeployment, follow these steps:

STEP 1: Complete Procedure: programming the tool

STEP 2: Remove the electrical connector from the top of the support frame.

STEP 3: Clean and dress the Top Ring O-rings.

STEP 4: Place the Top Ring above the Electronics Support Frame, with threaded holes facing up, using the Extraction -Insertion tool to prevent damage to the APCT-3 tool.

STEP 5: Clean and dress the Core Catcher sub O-rings.

STEP 6: Insert the Core Catcher sub into the top of the Coring Shoe and make it up by hand so that only a few threads remain exposed.

STEP 7: Proceed to Procedure: running a temperature station if more temperature stations are wanted. If the tool will not be used again, see Procedure: cleaning the tool.

4.10 Quickstart Deployment Guide

Overview               

This quickstart guide section assumes the electronics frame is in the shoe, ready for deployment.

Procedure: deploy tool

To deploy the APCT-3 tool, perform these steps:

STEP 1: Turn on computer, launch WinTemp.

STEP 2: Attach curved connector to top of electronics support frame.

STEP 3: Fill out top of Data Sheet.

STEP 4: Select Logger > Battery; record Voltage and Total Sample Count on Data Sheet.

STEP 5: Select Logger > Clear data.

STEP 6: Select Logger > Setup. Select Synchronize Logger from PC Time check box.

STEP 7: Set:

• Start time
• Logging duration
• Logging interval

STEP 8:  Click Activate and confirm plan, click OK.

STEP 9: Disconnect connector from top of support frame.

STEP 10: Insert Top Ring using Insertion-Extraction tool.

STEP 11: Make up Core Catcher sub and hand to rig crew.

Procedure: data recovery

This procedure assumes the coring shoe is clean and open, and the electronics frame is accessible.

STEP 1: Launch WinTemp.

STEP 2: Attach curved connector to top of electronics support frame.

STEP3: Enter time on Data Sheet.

STEP 4: Select Logger > Read Data. Confirm you wish to stop logging, if necessary.

Note: The file is automatically saved asWinTemp (.wtf) and ASCII (.dat) formats to the Antares directory.

STEP 5: Copy and/or backup data to archive and working directories.

5.0 Tool Disassembly

5.1 Overview

Introduction           

To preserve the life of the APCT-3 tool, it needs to be cleaned thoroughly after all tests are completed for a hole or site and stored in the cylindrical plastic holder with a screw-on top.

Disassembly and maintenance procedures for the APCT tool include:

• Disassembling and cleaning the tool components.
• Inspecting the Heat Flow Shoe for deformation

5.2 Tool Disassembly

Introduction           

The Downhole Measurement Lab houses heavy, dirty, wet equipment from expedition to expedition. To keep the APCT-3 tools in good condition so they will last many years, clean up the tools and work area when all temperature measurements for a hole or site are completed.

Procedure: disassembling the tool

When all temperature measurements are completed, perform these steps:

STEP 1: Use the Frame Insertion-Extraction tool to remove the Electronics Support Frame from the Coring Shoe.

STEP 2: Make sure that the central piston and shaft in the extraction tool is backed out ~3 cm by turning the large wing-nut counter-clockwise.

STEP 3: Lower the insertion-extraction tool onto the top of the Electronics Support Frame and turn the thumb-knobs to engage the threaded holes in the top of the frame.

STEP 4: Make up the screws snug, but not too tight, so that you don't strip the threads in the frame.

STEP 5: If the insertion-extraction tool will not fit completely down on top of the frame, back out the central piston and shaft by turning the wing-nut.

STEP 6: When the extraction tool is fully secured to the frame, turn the wing-nut clockwise. This moves the central piston downward and pushes against the inner wall of the coring shoe.

STEP 7: Continue turning the wing-nut until the support frame becomes loose, then raise the handle on the insertion-extraction tool and gently lift the support frame vertically out of the coring shoe.

STEP 8: If there is difficulty in removing the Electronics Support Frame from the Heat Flow Shoe, inspect the shoe by rolling it on a flat surface to see if any wavelike deformations are on the surface. See Heat Flow Shoe Deformation.

Procedure: cleaning the Electronics Support Frame

When the tool has been disassembled, perform these steps to clean and store the Electronics Support Frame:

STEP 1: Clean the surface of the electronics gently with a dry cloth.

STEP 2: Wipe off excess grease or heat sink compound (especially the prong).

STEP 3: Lower the clean electronics frame into the plastic cylindrical storage holder and screw on the cap.

STEP 4: Put the storage cylinder in a drawer or on the shelf.

STEP 5: Clean off the Heat Flow Shoe and Heat Flow Catcher Sub per Procedure: cleaning the Heat Flow Shoe and Procedure: cleaning the Heat Flow Catcher Sub.

STEP 6: Put the deck box, cables, batteries and parts in Ziploc bags and place these in their boxes and/or on the shelf.

STEP 7: Tell the ET, lab tech, or Lab Officer if supplies are needed.

Procedure: cleaning the Heat Flow Shoe

Once the Heat Flow Shoe and electronic components are removed, follow these steps for cleaning the shoe:

STEP 1:Place the Heat Flow Shoe in a wash basin with hot water.

Note: A strong solution of dish soap may be used.

STEP 2: Use a big bottle brush and a stiff straight brush to scrub the Heat Flow Shoe thoroughly inside and out to remove all grease and grit from the grooves and surface.

STEP 3: Rinse in clean warm flowing water.

STEP 4: Blow dry with high air pressure available in the laboratory.

STEP 5: Use a clean dry cloth to finish drying the unit.

STEP 6: Place the Heat Flow Shoe in storage in the Downhole Measurement Laboratory.

Procedure: cleaning the Heat Flow Catcher Sub

To clean the Heat Flow Catcher Sub, perform these steps:

STEP 1: Wash the Heat Flow Catcher Sub with a hot-water spray gun or hold the unit above a wash basin and clean with hot water.

Note: A strong solution of dish soap can be used if desired.

STEP 2: Use a clean dry cloth to dry the sub.

STEP 3: Place the Heat Flow Catcher Sub in storage in the Downhole Measurement Laboratory.

5.3 Heat Flow Shoe Deformation

Introduction           

The Heat Flow Shoe can become deformed or damaged during deployment. Inspect the Heat Flow Shoe after use, particularly if the Electronics Support Frame is difficult to remove from the shoe. Heat Flow Shoe deformation can damage the electronics.

Downward force applied to a damaged Heat Flow Shoe can case seal failure and leaks, drowning the electronics.

Heat Flow Shoe deformation

There are two main types of Heat Flow Shoe deformation:

5.4 LORE Report

The tables show the LIMS table that the parameter comes from, its database name, and the "About" text that explains the meaning of the field.

6.0 Key Documents, Tools, References

6.1 Overview

Introduction       

Information related to the tool but not part of the assembly/disassembly instructions (e.g., specifications) is included in this chapter.

Missing drawings

If an assembly drawing is missing from this manual, print out a new one from Cumulus or from the ship server.

6.2 Parts Lists

Overview               

The APCT-3 parts lists are grouped by the following assemblies.

Note: The Electronics Sub assembly drawing number OM0720 was assigned but currently no drawings have been provided by Antares.

OM0800                

The APCT-3 tool assembly consists of the following parts:

OM0720                

The Electronics sub assembly has these two parts, which are the same parts in the APCT (see OM0801 in the ODP APCT Operations Manual). OM0720 is incomplete as Antares has not provided drawings. :

 Figure 6-1.  APCT-3 Components with Part Numbers

6.3 Specifications

Measurement temperature range

The APCT-3 tool’s typical temperature measurement range is about –5°C to +50°C (nominal temperature resolution of the complete instrument is<2.5 mK over a range from –6° to +55°C, and 1.0 mK at temperatures<25°C.).

The components of the tool have different temperature ranges:

• Two coin cell lithium batteries in the APCT-3 tool are rated to an absolute maximum of 50°C.
• Thermistor has a high temperature coefficient (~4% per degree change in temperature) from -80° to 100°C.
• Electronics can safely be operated at ambient temperatures from -10° to 60°C.

APCT-3 specifications

APCT-3 tool specifications are as follows:

• ATMEL 8 bit Microcontroller (AT90S2313)

          —    2 Bytes of In-System Programmable Flash

          —    128 Bytes of SRAM

          —    128 Bytes of In-System Programmable EEPROM

          —    Programming Lock fo Flash Program and EEPROM Data Security

• Lithium batteries provide 600,000 readings (i.e., continuous operation for ~1 week at a sampling rate of 1 s)
• Nonvolatile memory for as many as 65,000 readings, which preserves the recorded data even if there is a total loss of battery voltage
• Real-Time Clock
• 16-bit A/D converter (AD7705BR)
• Aged, glass-encapsulated thermistor (Model YSI 55032)

Limitations           

The APCT tool has these limitations:

• Can only be used in soft sediments appropriate for piston coring.
• Can only be used in relatively stable sediments where danger of hole collapse is minimal.
• The upper temperature limit of the tool is 50° C.
• The tool is limited to depths at which the force required on pullout is within safe limits, usually the upper 120 m. This depth limit is somewhat less than the limit for regular APC coring because the sediments will “grip” the corer more tightly during a 10-15 minute temperature measurement than during the much shorter time required to collect a core.
• Cannot be used when high overpulls indicate a risk of losing the tool if the shoe remains in the sediment for a prolonged time.

6.4 Calibration Summary

Overview               

All temperature calibrations preformed in the IODP-USIO Metrology Lab are comparison calibrations. This means that a very stable and uniform temperature source is applied to both the unit under test (UUT) as well as a temperature standard which has been calibrated and is traceable to an NIST (National Institute for Standards and Testing) temperature standard. The output of the UUT is compared to the output of the standard at several different set temperature points throughout the UUT operational or limited range. These data are collected and archived as the primary calibration data, which may be used to calculate coefficients for various curve fitting equations such as the Steinhart and Hart equation.

Temperature standard

For the APCT-3 tool, the temperature standard is the standard thermistor read with a BlackStack thermometer readout and the temperature source is the 7012 High Precision Bath.

Process            

• The APCT-3 is installed in the APC Heat Flow Shoe with an adapter that seals the electronics chamber but allows data communication with the APCT-3 tool
• This assembly is then submersed completely in an oil bath.
• The standard thermistor is submersed in the bath in close proximity to the APCT-3 Probe.
• Ten temperature point data sets are logged and compared between the APCT-3 resistance measurements and the standard across the range of tool operation (0ºC to 60ºC at near 5ºC intervals) but no attempt is made to hold these intervals exactly (i.e. the 5ºC point may actually be 4.895ºC)
• These data are curve fitted to the Steinhart and Hart resistance to temperature equation and coefficients are calculated.

Additional information

For more information about Calibration contact Dean Ferrell at ferrell@iodp.tamu.edu.

6.5 Development History

Overview               

The APCT-3 tool is a third generation temperature tool. Measurements of in situ temperature have been made in oceanic sediments during scientific drilling since before the Deep Sea Drilling Project (DSDP) began (Von Herzen and Maxwell, 1964).

New tools were developed and modified during DSDP (Horai, 1985; Uyeda and Horai, 1980]) and during the Ocean Drilling Program (ODP) (Davis et al., 1997; Fisher and Becker, 1993; Shipboard Scientific Party, 1992a), the successor to DSDP.

In some cases, temperature tools were run during drilling programs to resolve specific geothermal, hydrogeologic, or paleoceanographic questions, butin other cases, data were collected during routine operations even though they were not central to primary expedition goals (see summaries of DSDP and ODP thermal studies: Erikson et al., 1975; Hyndman et al., 1987; Pribnow et al., 2000).

Advanced Piston Corer Temperature Tool

Temperature measurement tools in scientific ocean drilling comprise a subset of third-party tool developments (designed, built, and tested independent of the primary scientific operator or its subcontractors) that have contributed to both the success and the enduring legacies of these programs.

One of the most innovative downhole tool developments in the latest years of DSDP was a piston coring shoe with temperature- measurement capability (Horai, 1985; Horai and Von Herzen, 1985; Koehler and Von Herzen, 1986).

This tool allowed DSDP (and later, ODP) personnel to determine in situ temperatures within the undisturbed formation well ahead of the drilling bit without making a dedicated tool run.

These tools have been used successfully in many geological environments to evaluate thermal conditions within subseafloor sediments and in open boreholes. Although the piston coring system in DSDP was initially referred to as the HPC, subsequent improvements created an advanced piston coring (APC) capability. A temperature tool run with this system is herein referred to as an “APCT tool.” For more information on the APCT, go to the ODP Legacy manual Advanced Piston Corer Temperature (APCT) Tool Operations Manual.

Eight APCT tools based on the design introduced during DSDP were purchased by the ODP science operator (Texas A & M University [TAMU]) in 1984 and were used extensively during the early years of the new program.

All of these tools were eventually lost or damaged over time, and by ODP Leg 117, it was necessary to begin building a new set of instruments. Second-generation APCT tool development was completed

in 1991. This tool system was designed and built on contract by a commercial engineering company, under the supervision of ODP personnel. The new tools were placed on the R/V JOIDES Resolution for use during Leg 139 and operated for more than 15 years. The second- generation APCT tools differed from first-generation tools in several important ways.

First- generation APCT tools

The first-generation tools were based on custom-designed and custom- constructed electronics, bonded with epoxy into a form about the size of a small package of chewing gum (Fig. 6-2; first-generation tool developed for use during DSDP and used in the first several years of ODP [Horai, 1985; Horai and Von Herzen, 1985; Koehler and Von Herzen, 1986]). A metal probe containing a thermistor extended from the base of the tool, and a separate battery pack was attached with a small connector. Both the tool and battery pack fit into slots milled into the wall of a conventional APC coring shoe.

These first-generation APCT tools were a marvel of technology, especially considering that they were created in the early 1980s, but they were fragile instruments (particularly the connectors) and had to be removed from the coring shoe after each deployment in order to recover data.

Figure 6-2.  First Generation Temperature Tool. The logger electronics are on the outside and the battery pack is on the inside of each photograph..

Second- generation APCT tools

The second-generation tools were first deployed during ODP Leg 139 (Shipboard Scientific Party, 1992a) and were designed around a cylindrical tool frame that fit into an annular cavity in the base of a redesigned APC coring shoe (Fig. 6-3).

Two prongs extended from the base of the tool frame, one of which contained a platinum resistance-temperature device (RTD); the other prong helped to “register” the tool frame as it was lowered into the annular cavity.

Batteries were contained in two separate packs that fit into the tool frame, and the tool could be programmed, deployed, and downloaded without removing the tool from the coring shoe.

As of winter 2003, many of these second-generation tools had been lost or damaged, and the company (Adara) that had built and serviced these tools had gone out of business. These tools were called the Adara Temperature tool on the ship and by ODP staff. When the company went out of business, ODP changed the name to the APC Temperature (APCT) tool.

 Figure 6-3.  Second-generation APCT tool.

Third- generation APCT tools

Development of a new generation of APCT tools began simultaneously at ODP and by scientists interested in obtaining downhole temperatures.

The ODP version was not finished, but the version that began in 2003, with support provided by the German Science Foundation (to H. Villinger, University of Bremen) and the U.S. National Science Foundation (to A. Fisher, University of California, Santa Cruz) was completed in close collaboration with Fa. Antares (Stuhr, Germany) and was called the APCT- 3.

Fa. Antares had previously collaborated with H. Villinger and colleagues on development of a Miniaturized Temperature Logger (MTL) project for use with collection of thermal data during conventional gravity- and piston- coring operations (Pfender and Villinger, 2002; Jannasch et al., 2003).

In an attempt to differentiate between the discontinued ODP design and the Antares-Villinger-Fisher versions, the ODP version was called the APCT-2.

Hardware designs

Hardware designs were discussed through 2003 and into 2004, and it was decided to retain as much as possible of the form and function of the second-generation tools, which had proven to be robust and easy to operate. Designs for coring components were prepared by engineers working with the U.S. Implementing Organization (USIO) to IODP, and new coring components were built by an established vendor.

Antares personnel created a series of prototype tool frames so that the fit into the coring components could be confirmed and produced a working prototype tool in advance of IODP Expedition 311 (Cascadia margin gas hydrates). APCT-3 tool project co-primary investigators and colleagues worked closely with Expedition 311 researchers, who calibrated and field- tested the prototype tool, which worked extremely well and generated useful thermal data (Heesemann et al., 2007).

Post Expedition 311 design changes

On the basis of this experience, project researchers requested several important design and functional changes to the APCT-3 electronics, and Antares personnel responded by producing redesigned tools in Spring 2006. These instruments were taken to the Hydraulics Laboratory at the Scripps Institution of Oceanography in summer 2006 and calibrated across a working range of 0°–45°C (see Metrology Lab Operations Manual-in process) for a discussion of calibration procedures and examples of results from the 2006 calibration effort).

Dual deployment (OM0700)

The APCT-3 tool was originally designed to deploy two sets of electronics, with a sensor-to-sensor spacing of approximately 57.2 cm (22.5 in). The upper Electronics Support Frame is housed in the the Upper Thermistor Housing (OM0702), which Fisher et al. (2007) calls the Upper Tool Sub.

Although the annular cavities of the Upper Thermistor Housing (OM0702) and Heat Flow Coring Shoe are identical (allowing the same Electronics Support Frames to be deployed in either location), other geometries of these components are significantly different (see Fisher et al., 2007). IODP has not used the tool with this configuration as of Nov. 2010; drawing OM0700 shows the dual deployment configuration (see Drawings in Cumulus).

6.6 Failure Reports

Overview               

This chapter provides a list of APCT-3 failures during IODP.

Expedition 315      

NanTroSEIZE Stage 1 on the Chikyu, Nov. to Dec. 2007.

6.7 Vendors

Ancillary parts, seals, fasteners, and supplies (OD)

Vendors and contact information for tools with ODP category OD are:

Core bits (OC)      

Vendor contact information for core bits (ODP category OC) is:

Core liner (OP3400)

Vendor information for core liners (ODP category OP3400) is:

Springs                 

Vendor information for springs (variable ODP categories) is:

Machine shop tools (OP/OJ)

Vendors and contact information for tools with ODP categories OP and OJ are:

Welding and fabrication (OH/ OJ)

Vendors and contact information for tools in ODP categories OH and OJ (funnels and reentry cones) are:

APCT-3                 

Vendor Information for the APCT-3 system is:

Hammer drill        

Vendor information for the Hard Rock Reentry System Hammer Drill is:

6.8 References

Technical Notes

Graber, K.K., Pollard, E., Jonasson, B., and Schulte, E. (Eds.), 2002. Overview of Ocean Drilling Program engineering tools and hardware.ODP Tech. Note, 31 [Online]. Available from World Wide Web: <http://www- odp.tamu.edu/publications/tnotes/tn31/INDEX.HTM>.

APC Operations Manual

Ocean Drilling Program, Development Engineering Department, 1984.

Advanced Piston Corer - Mod. II, Operation and Maintenance Manual.

Bibliography         

Most of these references come from Fisher et all, 2007.

Bullard, E.C., 1954. The flow of heat through the floor of the Atlantic Ocean. Proc. Royal Soc. Lond, Ser. A, 222:408–429.

Davis, E.E., Villinger, H., Macdonald, R.D., Meldrum, R.D., and Grigel, J., 1997. A robust rapid- response probe for measuring bottom-hole temperatures in deep-ocean boreholes. Mar. Geophys. Res., 19:267–281.

Erikson, A.J., Von Herzen, R.P., Sclater, J.G., Girdler, R.W., Marshall, B.V., and Hyndman, R., 1975. Geothermal measurements in deep-sea drill

holes. J. Geophys. Res., 80:2515–2528.

Fisher, A.T., and Becker, K., 1993. A guide for ODP tools for downhole measurements. ODP Tech Note, 10. doi:10.2973/odp.tn.10.1993.

Fisher, A.T., Villinger, H., and Heesemann, M., 2007. DRAFT: User Manual for the Third-Generation, Advanced Piston Corer Temperature tool (APCT-

3) (in Cumulus).

Hartmann, A., and Villinger, H., 2002. Inversion of marine heat flow measurements by expansion of the temperature decay function.Geophys. J. Int., 148(3):628–636.

Heesemann, M., Villinger, H., Fisher, A.T., Trehu, A.M., and White, S., 2006. Data report: testing and deployment of the new APCT-3 tool to determine in situ temperature while piston coring. In Riedel, M., Collett, T.S., Malone, M.J., and the Expedition 311 Scientists. Proc. IODP, 311: Washington, DC (Integrated Ocean Drilling Program Management International, Inc). doi:10.2204/iodp.proc.311.108.2006.

Horai, K., 1985. A theory of processing down-hole temperature data taken by the hydraulic piston corer (HPC) of DSDP. Tech rep., Lamont-Doherty Geological Observatory, Palisades, NY.

Horai, K., and Von Herzen, R.P., 1985. Measurement of heat flow on Leg 86 of the Deep Sea Drilling Project. In Heath, G.R., Burckle, L.H., et al., Init. Repts., DSDP 86: Washington, D.C. (U. S. Govt. Printing Office), 759– 777.Hyndman, R.D., Langseth, M.G., and Von Herzen, R.P., 1987. Deep Sea Drilling Project geothermal measurements: a review. Rev. Geophys.,25:1563–1582.

Jannasch, H., Davis, E., Kastner, M., Morris, J., Pettigrew, T., Plant, J.N., Solomon, E., Villinger, H., and Wheat, C.G., 2003. CORK-II: long-term monitoring of fluid chemistry, fluxes, and hydrology in instrumented boreholes at the Costa Rica subduction zone. In Morris, J.D., Villinger, H.W., Klaus, A., Proc. ODP, Init. Repts., 205, 1–36.

Koehler, R., and Von Herzen, R.P., 1986. A miniature deep sea temperature data recorder: design, construction, and use. Woods Hole Oceanographic Institution, Woods Hole, MA.

Langseth, M.G., 1965. Techniques of measuring heat flow through the ocean floor. In Lee, W.H.K. (Ed.), Terrestrial Heat Flow,Am. Geophys. Union, 58–77.

Pfender, M., and Villinger, H., 2002. Miniaturized data loggers for deep sea sediment temperature gradient measurements. Mar. Geol., 186:557–570. doi:10.1016/S0025-3227(02)00213-X

Pribnow, D.F.C., Kinoshita, M., and Stein, C.A., 2000. Thermal data collection and heat flow recalculations for ODP Legs 101–180. Institute for Joint Geoscientific Research, GGA, Hanover, Germany. <http://www- odp.tamu.edu/publications/heatflow/>

Shipboard Scientific Party, 1992a. Explanatory notes.In Davis, E.E., Mottl, M.J., Fisher, A., et al., Proc. ODP, Init. Repts., 139: College Station, TX (Ocean Drilling Program), 55–97.

Shipboard Scientific Party, 1992b. Site 858. In Davis, E.E., Mottl, M.J., Fisher, A., et al., Proc.ODP,Init.Repts.,139: College Station, TX (Ocean Drilling Program), 431–572.

Uyeda, S., and Horai, K., 1982. Heat flow measurements on Deep Sea Drilling Project Leg 60. In Hussong, D.M., Uyeda, S., et al., Init. Repts. DSDP, 60: Washington (U.S. Govt. Printing Office), 789–800.

Villinger, H., and Davis, E.E., 1987. A new reduction algorithm for marine heat-flow measurements. J. Geophys. Res., 92:12846–12856.

Von Herzen, R.P., and Maxwell, A.E., 1959. The measurement of thermal conductivity of deep-sea sediments by a needle probe method. J. Geophys. Res., 64:1557–1563.

Von Herzen, R.P., and Maxwell, A.E., 1964. Measurements of heat flow at the preliminary Mohole site of Mexico. J. Geophys. Res., 69:741–748.

6.9 APCT-3 Assembly Drawings

Overview               

The following assembly drawings are available in Cumulus (TechDoc > Engineering > IODP Operations Manuals > APCT-3 >APCT-3 Drawings):

• OM0800 APCT-3 assembly
• OM0830 Frame Extraction-Insertion tool
• OM0720 Electronics Support Frame
• OM0700 Dual Deployment Configuration (title is Assy-Heat Flow Catcher Sub-APCT-3)

Note: Antares has not released the Electronics Support Frame assembly.

7.0 APCT-3 Revision Log

Revisiondata        

Revisions to the manual are recorded in this table. Please include the page, section, or Chapter number(s) in the Revision Details:

Credits

This document originated from APCT-3 Operations Manual 374.pdf (see Archived Versions below for a pdf copy) that was written by D. Ferrell  (3/24/2010). Credits for subsequent changes to this document are given in the page history.

Archived Versions

• APCT-3 Operations Manual 374.pdf Original source file written by D. Ferrell  (3/24/2010).
• APCT-3 OperationsManual.pdf - Feb. 24, 2020