THE GLACIER BAY FJORD ESTUARINE OCEANOGRAPHIC PROJECT philip_hooge@usgs.gov or letherington@usgs.gov http://www.absc.usgs.gov/glba THIS INFORMATION SUPLEMENTS INFORMATION IN THE WEB DOCUMENTATION, REPORT, AND PROTOCOL CONTENTS -FIXING GIS FILE REFERENCES -GENERAL INFORMATION -KNOWN PROBLEMS WITH THE DATA -KNOWN PROBLEMS WITH OCEANOGRAPHIC ANALYST FIXING GIS FILE REFERENCES: IF YOU OBTAINED THIS ON A CD -This CD contains all needed program files and base layers except for the Seabird software which we cannot put on this CD due to copyright issues. -This CD contains the Oceanographic Analyst Extension. You will need to move the Ocean.Avx file in the GIS/OceanographicAnalyst_Extension/ folder to your ...ARCVIEW/Ext32/ folder. -ArcView's Spatial Analyst is required to use any of the GIS projects and the Oceanographic Analyst Extension. ArcView's 3D analyst is required to use the GIS projects but is not required to use Oceanographic Analyst and the projects could be recreated without any 3D features. -All ArcView GIS projects have fixed links to the directory structure. K:/eco_data/data/glba/ocean/... You can do one of three things: 1. Create a virtual K: drive with these parent folders (/eco_data/data/glba/ocean/) and then place these CD contents into that folder. 2. Open each *.apr file up in a text editor and do a global replace of K:/eco_data/data/glba/ocean with your directory. 3. Create virtual links by opening up each *.apr file in a text editor and then removing the K:/eco_data/data/glba/ocean. GENERAL INFORMATION -The root level of the ocean directory contains 5 folders 1. ANALYSIS Contains written products either reports or publications on the oceanographic data or oceanography at Glacier Bay 2. DATA Contains all the oceanographic instrument data both raw and processed A.PROCESSED All of the processed CNV and GIS projects by year and trip B.RAW_CTD HEX Raw instrument files from each CTD 1. CTD1_RAW 2. CTD2_RAW 3. CTD3_RAW_PIATT Files from the Piatt CTD, (many instrument problems) 4. CTD4_RAW_LAWSON Files from Dan Lawson US Army Corps of Enginers CTD upper Muir Inlet C.TEMP_LOGGERS Simple Temperature logging files D.WEATHER Detailed NOAA weather data by day for all the stations around Glacier Bay. 3. DATASHTS The CTD Cast data sheet used by the Glacier Bay Field Station 4. GIS All the non-CTD-cast GIS coverages including the ArcView project template, Base coverages (in multiple projections), The Oceanographic Analyst software and AVHRR Files 5. PROTOCOL The Glacier Bay Field Station oceanographic protocol, and some information sheets ** See file 'available_data.xls' in folder DATA\processed to get an overview of what data have been collected for the oceanographic project and general problems with particular sensors/parameters. ** -KNOWN PROBLEMS WITH THE DATA & THINGS THAT NEED TO BE DONE TO MAKE ARCVIEW PROJECTS COMPLETE: *********************************************************************************************** 1. Datum problems: Most of the data is in NAD27 UTM with unprojected views. We have plans to convert all the data to DD Nad83. Meanwhile there are views and base coverages for DD Nad83, DD Nad27 and UTM Nad27. The following files are not in UTM Nad27: 199401 possible datum problems (need to figure out what datum these projects that are having problem are in) 199511 possible datum problems 199610 possible datum problems 20005 all points in UTM Nad83 (reproject to DD_Nad83) 20008 the points in dump 28 are in UTM Nad83 All files from the small schooling fish project (labeled ssf) are in DD Nad83 Using Projection Wizard, the datums should be changed in projects already created from Nad27 to Nad83. The newly converted version and the original version of each project should be saved. 2. The Year is incorrect in the Date field from 200003 (March 16) onward due to a Seabird bug. This can be corrected utilizing this formula in the ArcView calculate message box. ([Date.SetFormat ("yyyy.MMdd").AsString.AsNumber + 19000000).AsDate **Edit table, select whole field/column---calculate (make new field, add field that has nothing in it...then fill with reclaculated data?) 3. 1992 projects (199207, 199208, 199211) have not been GIS processed. This is because the raw data files are .dat files as opposed to .hex files. You should be able to go ahead and cnv them. 4. SSF data from 199906 and 200007 need depth integrated chlorophyll and OBS tables generated along with MinMaxValues and PhoticDep. 200008ssf has not been created at all and needs to be done. 5. Much of the SSF data from May through August 2000 were originally processed with the wrong .con file. They were originally labeled, "PCTD...." (indicating that Piatt CTD #3 was used) when in actuality, CTD #2 was used. Therefore, we have renamed these .hex files (e.g., "C2_PCTD...") to indicate that they were taken with CTD #2 and should be processed with the .con file appropriate for this CTD. 6. 1992 through 199307 (maybe others in 1993 or 1994) the bins are pressure bins rather than the standard depth bins. However this does not affect the validity of the data and the depths are displayed correctly. Depth should be in 1m intervals...should be solved. 7. It appears that the PAR sensor (or associated cables) broke during the 199609oceanography trip. The PAR values for this project are only correct for stations 00, 01, 02, 03, 04, 13, 14, 15, and 16. It appears that there was an instrument malfunction with the PAR sensor starting in the middle of the cast for station 17. The PAR data for all stations except the ok ones listed above need to be deleted from the project. Associated with this problem, PAR data is wrong for the following additional projects: 199610oceanography 199705oceanography 199707oceanography 199711oceanography 199802oceanography 8. For 199609oceanography, Station #16 (cast #C2002608) has the wrong coordinates and needs to be fixed. Currently, station #16 cast appears on top of station #17 cast (C2002609). 9. Salinity (SAL) is bad for 199507halibut, 199510ocean, 199511ocean, 199603ocean, 199606. Therefore, density measurements (which are calculated using salinity) are also incorrect for these time periods. These problems are due to a cracked conductivity cell caused by freezing 10. Not sure what project this comment is referring to - Missing Stations: CTDmaster and ProfileMaster are missing stations 13,16,17. Casts 13 & 14 are missing probably due to HEX to CNV processing errors (error files for 13 & 14 exist). These represent two casts for station 13. Casts 17 and 18 are also missing, representing stations 16 and 17 respectively, the raw data exist and are probably good. 11. Check with Jen Mondragon before remaking any ARCVIEW project (.apr file) for the following: 199908FOG 200109MADSPots 12. 199404Oceanography has potential problems. 13. 200105InternalWaves needs time contours done. 14. The ARCVIEW project 'Lawson1994_2000summary' within the processed folder has broken links and needs to be fixed. -KNOWN PROBLEMS WITH OCEANOGRAPHIC ANALYST ******************************************* 1.READ THE PROTOCOL MANUAL AND THE ONLINE DOCUMENTATION - these are essential to using and understanding the Oceanographic Analyst. First try and mimic an analysis on a set of already processed data before attempting to process your own data. 2. The use of oceanographic analyst to process ctd files has only been tested on Seabird 19 and Seabird 26 output files. It will presumably work on all Seabird files. 3. There may be problems running the contouring function on some Windows 98 machines however both NT 4.x and Windows Proffesional do not experience any known bugs, performance on XP is unknown.