From: Phillip Ingram (pingram@laurel.ocs.mq.edu.au)
This file was last updated on 4th July, 1995.

The Web for Earth Sciences Information, Part 2


Part 2: Software and Software Sites


This is part 2 of a 2 part FAQ on using the Web to obtain geosciences information on the Internet. This part deals with software and related data which would be of interest to geosciences.

The chances are, if you use this faq, you will be transferring software from one computer to another for the purpose of running the software. Many of these programs will have been compressed and/or encoded by one or more of several techniques for storage and transfer purposes. The method of compression/encoding is indicated by the file extension - the (usually) three characters after the "." in the file name. The most common compression/encoding schemes are:

Most of these are available from popular ftp sites such as Sumex-aim, oak.oakland etc.

A word of warning for Mac users, Mac binary files are stored differently on a Unix machine than on a Mac (and Dos, VMS etc). Downloading a Mac binary file (.bin, .sit etc) to a unix box which has not been encoded will result in an unusable file. It is something to do with Unix zero filling some of the unused bits in the Mac binary word.

Alterations in June, 1995

  1. - altered some typos
  2. - added ndsu software (Mac)
  3. - added PaleoMag web page
  4. - added SMI
  5. - added Environmental Simulations Inc.
  6. - added Version 3.0 Beta of GMT
  7. - added software searches from All In One Search Engine
  8. - added ArchiePlex at NEXOR
  9. - added GIS Software Listing of Commercial Packages
  10. - added MatLab software site
  11. - added GeoTIFF web site
  12. - added IntelliGIS WWW site
  13. - added Kovach Computing Services
  14. - added Menlo Park ftp site (geophysics)
  15. - added FoldFile Web site
  16. - added Uni. Houston's Anon site for software


0. CONTENTS


1. GENERAL SOFTWARE SITES

This section includes sites that have an assortment of software of interest to geoscientists, and sites with hotlists to other sites.

The Oakland Software Repository has a large collection of MSDos, Windows, Macintosh and Unix shareware utility and specific software.

Shase is the The Virtual Shareware Library to search the OAK repository and other popular archive sites.

Archives of Graphics Software and Databases is a hot-list of graphical software sites.

The IAMG ftp Site has for algorithms and source code of programs published in Computers and Geosciences (ftp://iamg.org/pub/CG) and Mathematical Geology (ftp://iamg.org/pub/MG).

COGS, or Computer Orientated Geological Software archives of MS Dos and Macintosh software, many include source code. Categories include COGS disks, Geochemistry, Geophysics, Graphics, Hydrology, Landsat, MOSS, Mapping, Mineralogy, Mining, Oil & Gas.

GeoGopher Archives of Earth Science software at the University of Texas, El Paso has a collection of Dos based software for the geosciences and connections to other sites.

The Netlib Archives repository at UTK and ORNL carry a very extensive collection of mathematical software. Some of the categories include image, linpak, voronoi, fftpack, scilib, graphics and gnu. It is also possible to do an Attribute/Value Data Base Search of the Netlib repository (http://www.netlib.org/nse/netlib-query.html).

The Windows Shareware Archive by the CSUSM Technical Services is a great site for general Windows applications. Take a browse, there are some software of interest for Geosciences.

The Software Page at the Institute of Geology and Paleontology (EISES) has some Dos/Windows software, some of which are mentioned elsewhere at other sites. Software includes GeoVu (a NGDC Windows GIS/RS data visualisation program), Landscape Explore (Windows program to translate a 2D map into a 3D model), and GeoEAS (the EPA's geostatistical software).

Bill Thoen's and Ted Smith's Data and Software Resources from their on-line ORES for general geology.

Petrotechnical Open software Corporation is a supplier of standard interfaces for technical exploration and production software for the Petroleum industry. It operates as a Not For Profit membership organisation. This site has information.

Some general geology software, mostly for the Mac. Software includes Amphbase, Crystal 2.29 and CrystalView, Emp-amph, Hyperform, Hornblende-plagioclase geothermometry, Image, Latticemaker, Mac Molecule 1.7, MMII, Ortep, Pcwateq, P-T-t programs and Stereonet 4.9a

The All In One Search Engine by William Cross has lists many search engines for various catagories. this connection is for software.

ArchiePlex is an Archie Gateway to the World Wide Web. It can be used to locate files on anonymous ftp sites around the world. This link gives the most upto date list of ArchiePlex servers. There are forms based services and those without forms.

2. GEOLOGY

2.1. Mineralogy/Petrology

Crystal and

CrystalView are both Crystallography software for the MacIntosh by Thomas Kosel.

Daryl Clarke's NewPet Software is a geochemical/igneous petrology data handling program which includes ternary plots. MS-Dos and Shareware. Also here are rose1 (rose plotting Windows prog by Thompson & Thompson), triplot (ternary plotting prog by Baodke and Thompson), quickplot and amphibol.

Mineralogy directory from COGS

Geochemistry directory from COGS

Crystallography software for Windows written by S. Krumm. Programs include Winfit (profile analysis of x-ray reflections), WinStruct (calculation of 001 x-ray patterns, structure factors and LP factors for discrete clay minerals), WinQ-Fac ("Q" descriptor for mixed layer clays), Atterberg and Centrifuge (calculate settling times).

This is an alphabetised hot-list of assorted software available for crystallography. Programs and platforms are varied. Software includes ABSORB, BIOMOL, Ca.R.Ine, CrystalMaker and CrystalView, Diamond, Powder Cell and more.

The geochemical directory from the Environmental Hydrosystems ftp server contains NewPet, QuickPlot, amphibol, ebeam, elements.

Bill Thoen's and Ted Smith's Data and Software Resources from their on-line ORES for geochemistry.

Statpac for Unix and Dos from the USGS

2.2. Structural Geology

Stereo v3.0 is a complete stereonet package for Windows. Get the file stereo30.zip. It is by Per Ivar Steinsund and is shareware.

Rick Allmendinger's structural programs for the MacIntosh are quite well regarded. Included are FaultKin, Stereonet, MacStrat, MacStress, MicroStructure and Structure_Movies.

Mainly geochem prog, but also here is quickplot, a stereonet program for structural geology by van Everdingen and van Gool.

High amplitude folding simulation software by Kenneth Cruikshank.

2.3. Marine Geology

Microdem, includes the MGT subset for teaching marine geophysics, is available from the US Naval Academy's ftp server.

Also available are a group of programs for oceanography including TS-Plot, Waves, Tides, Duck, beach profiles, and marine geology.

2.4. Hydrology

The Hydrology directory from COGS

Environmental Hydrosystems Inc's ftp server has a comprehensive collection of public domain software (Dos, Windows, some Unix) for groundwater, porous media and environmental modelling. Note that this connection can be erratic.

The main directories of interest for hydrology are:

aquifer_analysis directory contains ADEPT demo, PUMPIT, timelag, hydros (classroom use only), taap, luftrisk plus others.

saturated_flow directory contains software such as 2dflow (demonstration), MODFLOW (a modular 3D finite difference groundwater flow model) plus utilities, MFLOP (a flow pattern program), HST3D (a 3D flow, heat and solute transport model), SWIFTII (the Sandia Waste-Isolation Flow and Transport Model for Fractured Media) plus others.

Other directories like /graphics, /groundwater_education could be of special interest.

The Software for Groundwater Modelling and Analysis page by Andrew Piggott has connections to both commercial and non-commercial software sites.

EnviroMod Software Server has environmental and hydrological software connections.

The Groundwater Modelling department at Brigham Young Uni has an extensive list/collection of groundwater modelling software, both commercial and freebies. In the Models section can be found IGWMC (source code for USGS models), CEAM from EPA, USGS Geochem models (Phreaqe and WATEQ4F), 2DFlow, PUMPIT, MCFIT plus others.

In the Pre and Post Processes from BYU can be found links to Femmwater, IRIS Explorer, Flow Analysis Software Toolkit, Khoros, SpyGlass and more.

Source code for several of the USGS models.

Another location for PUMPIT - a Dos program which calculates drawdown, identifies the capture zone and injection fronts etc.

Environmental Simulations Inc. has software, services and information for groundwater modelling. This connection is to their list of groundwater sites.

2.5 Sedimentary Geology

Fuzzim (stored as a binhexed self extracting archive) are Macintosh programs for simulating large scale marginal deposition and erosion for long time spans. It uses "fuzzy logic" for controlling the distribution of sediment. It was written by Ulf Nordland and Magnus Silfversparre of Uppsala University, Sweden.

3. GEOPHYSICS

Thin Plate Finite Element Code developed by Peter Bird at UCLA since 1976 can be used to model the deformation of the lithosphere, form new tectonic hypotheses, estimate long term seismic hazards and study plate rheology. You should also mail Peter (pbird@ess.ucla.edu) to let him know which files you copied and to be placed on the mail- list for updates. Fortran source code is available.

PaleoMag software for the MacIntosh by Craig Jones. It supports orthorhombic, equal area and J/J0 diagrams (total and component) of individual sample demagnetisations, least squares fit of lines, planes, circles to parts of demagnetisation curves. Email Craig (cjones@mantle.colorado.edu) to be placed on the mailing list for updates. Craig has also placed PaleoMag onto a web server, plus an on-line manual.

Seismic CWP/SU Package is geophysical seismic code for Unix machines from the Center for Wave Phenomena.

The World Paeo-Magnetic Database are databases and programs related to paleomagnetism.

Geophysics directory from COGS

Bill Thoen's and Ted Smith's Data and Software Resources from their on-line ORES for geophysics.

The IRIS Software Exchange Library ftp server has geophysical software for pc, mac and sun platforms. Included in the pc directory are SEISMIC (displays hypocenters of earthquakes for various map views from 1960 to the present) and SUDS (Seismic Unified Data System). Under sun are SUDS, Seismo_Display, cc2sac, evt2sac, evalresp, focmec, neic2tf and relish.

Geophysical freeware for Dos written by Gordon Cooper. Includes Mag2dc (magnetic forward modelling), Grav2dc (gravity forward modelling), GeoModel (sim. mag & grav fwd modelling), VES (Schlumberger res modelling and inversion), SignProc (prfile data filtering), PFproc (map data filtering, strike filters, derivatives etc) and GravMap (map data filtering: continuation, polynomial surface fits etc).

Some geophysical programs (for unix/vms) from Menlo Park ftp server. Includes Paleo stress analysis by Andy Michael, 3D velocity model determination and hypocenter location.

4. OCEANOGRAPHY

POM is a sigma coordinate free surface, primitive equation ocean model for Unix. It is distributed free to tertiary institutions for research purposes. The code is available from the following ftp server:

MOM (Unix) is a primitive equation general ocean circulation model for exploring ocean and coupled air-sea applications over a wide range of space and time scales. Source code is available from:

SPEM is a 3D ocean circulation model for a variety of studies. It uses horizontal boundary-fitted orthogonal coordinates, a vertical bathymetry following sigma coordinate and solves 3D primitive equations. Source code is available from:

University of British Colombia has links to assorted numerical models (including the above) for oceanography. Look for the sections On-Line Numerical Models and Source Code for Models Not Mentioned Above. Model include FRAM, ECOM-si, POP, Spectral Element Shallow Water Equation Model, Box Basin and Massively Parallel versions of Miami Isopycnic Coordinate Ocean Model, MOMA, OCCAM/NWO and MICOM.

Bill Thoen's and Ted Smith's Data and Software Resources from their on-line ORES for oceanography.

5. MATHEMATICAL/STATISTICS/GEOSTATISTI CS

Geostatistics software at the Inst. of Mineralogy at the University of Lausanne, carries the US EPA GeoEAS geostatistical program (Dos), a geostatistical tool box (Dos) and VarioWin, a windows set of programs for 2D spatial data analsysis.

GSLIB is the Geostatistical Library souce (F77). It is by Rick Turner and is kriging software and source code from Journel's book. It can run under Linux and on a PC-486. (Note: This site is not allowing anonymous connections. Anyone know of another site carrying GSLIB?)

The StatLib Archives has an extensive collection of statistical software and algorithms. It is divided into a number of catagories based upon the resources origin, eg apstat is for algorithms from Applied Statistics, cmlib is the Core Mathematics Library from NIST which has fortran code for lots of statistical and numerical procedures, griffiths- hill has applied statistics algorithms contained in the book by Griffith Hill, multi has an annotated directory and selected algorithms on multi-variate analysis and clustering.

Numerical Recipes for Pascal are available from the Garbo archive. Get the file nrpas13.zip. Be warned, this is over 300 Kb compressed and 772 Kb uncompressed.

Software for Mathematical Geology at Houston University.

The Sibyl Database is a searchable database of information on statistical software.

The geostatistics directory from the Environmental Hydrosystems ftp server contains software such as GeoEAS (the Geostatistical Environmental Exposure Assessment Software from the US EPA), COSIM (performs unconditional and co-conditional simulations), LOGEN (unconditional simulations), ISIM3D (a 3D multiple indicator conditional simulation program), GCOSIM3D (code for the generation of realisations of multiple variates jointly correlated with a multiGaussian distribution), plus others.

The ANON Web site at the University of Houston is for those interested in mathematics, computers and geosciences. This link is their software and modelling resources page with many connections.

6. GIS and Mapping

Sections 6.3, 6.4 and 6.5 mainly deal with specialised mapping and GIS techniques and software, of which I know very little. Consequently, I took the reference to these sites from Bill Thoen's ORES, figuring that his judgement will be better than mine on these subjects.

6.1. Mapping

An assortment of Dos software for GIS and mapping, cartographic transformations, raster to vector conversions and so on. It includes programs like skmoss (replaces 4 programs in pcmoss), gctpc (Dos version of general cartographic transformations), las (land analysis system), pcglis (pc version of glis), dcw2dxf (dcw to dxf conversions) topo and xglis. The site is maintained by Sol Katz.

Generic Mapping Tools is Unix software located at the Satellite Oceanography Lab, SOEST, University of Hawaii, Manoa. It was developed by Paul Wessel for map projections, spatial interpolation, contouring, 3D perspective, raster processing. Source code is in C and is designed for Unix machines.

- Version 3.0 Beta of GMT is available, for information see:

Topographic Analysis fortran source code.

VPFView 1.1 is Unix software to view DCW data from the DMA's Digital Chart of the World CD-ROM data set.

GRASS GIS is a public domain GIS and image processing system for Unix developed by the US Army Corps of Engineers.

MAPGEN/PLOTGEN is the code for a public domain graphics system. The files are compressed-tar source files. Files include: graphics-?.?.tar.Z: device independent vector graphics system employed by the Mapgen/Plotgen system; mapgen.?.?.tar.Z is the mapgen/plotgen system for plotting geographic and other data (requires pre- installed 'proj' and 'graphics'); xzoom.?.?.tar.Z is the previewer of mapgen/plotgen graphic data.

The National Geophysical Data Center ftp server has a number of Dos based generic data analysis, display, compression, archival and retrieval tools. Software includes FREEFORM, GeoVu and GeoDas.

The USGS Cartographic Software by the National Mapping Division of the USGS provide data and supporting software for the national series of base cartographic data. The software are for a variety of platforms.

The Landsat directory from COGS

The Moss directory from COGS

The Mapping directory from COGS

A crude but quick contouring program for Dos using delauny triangulation of x-y-z data is here as delauny.zip.

The Mapping directory of the Simtel mirror at Oakland contains various mapping software for Dos. Included are topo300.zip (3-D topographic map plotting program), emap100*.zip (the EPI Map program with utilities, and USA coverage by counties), coordchg.zip (convert map coords dd.mm.ss< -> dd.###) and ozd101?.zip (OzGIS is a Dos Mapping program of census/GIS data).

The GIS Data and Software page from Bill Thoen's and Ted Smith's On-Line ORES.

Arcview 1.0 for Windows by ESRI is available from this ftp site. Be sure to read the licence agreement.

6.2. Cartographic Converters and Transformations

The General Cartographic Transformation Package is the c code for various various cartographic conversions such as Lat/Long< ---> UTM. The C code was originally written for Unix.

The older version, GCTP-II, is also available.

PROJ is a Dos program for various cartographic conversions (lat/long-UTM).

Postscript documentation is available as *.ps.Z files (unix compressed). The Unix version of PROJ is also here.

The U.S. EPA's dbf utility package (v5.5) is a set of programs for converting between INFO and DBF as well as INFO and ASCII, DBF to point coverage. They are programs tested on a number of Unix platforms, and run with Arc/Info 6.1.1 or 7.0.2. The complete source code is also available.

Another site for UTM_Lat/Long conversions, but this software supposedly allows for batch processing.

The geostatistics directory from the Environmental Hydrosystems ftp server contains the BLMGIS program for Dos. This performs coordinate conversions between Geodetic (Lat/Long) and State Plane coordinate (SPC) systems based on the North American Datum of 1927.

6.3. Arc/Info AML Code

AMLs for ARC/INFO 5.0, 6.11

AMLs for GIRAS data.

Another AML site.

AML for PC Arc/Info.

AMLs and SMLs from ESRI's ftp server

6.4. Digital Elevation Models (DEMs)

MicroDEM, Pascal programs to do things with DEM data (shareware).

Splat at Indiana or

Splat at NIC:

SPLAT is contouring software. Get the file SPLATSFX.EXE which is a self-extracting archive.

GRIDPAK is 3D gridding software for unix. Written in C, with makefiles and uses mud2 version 3. Other applications include XCOAST2, an X-application for drwaing grid boundaries of the (?US) coastline, and fine & coarse resolutioncoastlines for xgrid, plus etopo5 bathymetry/topography data.

6.5. Specialised GIS/Mapping Techniques

Point in Polygon, Fastest Point on Polygon test by Eric Haines, in Ray Tracing News, v5, no.3, Sept, 1992.

Voroni Tesselations source code in article Spatial Data and the Voroni Tesselations in Dr. Dobbs Journal, Dec. 1992.

Linear Time Algorithm Program, the DOS executable of the code published in IJGIS, 1993, Vol. 7, No. 6. Retrieve the file CHITVD.ZIP. Documentation in CHITVD.DOC.

Theissen Polygons, C source code for calculating the vectors for Theissen Polygons.

s.voroni: the GRASS module.

MinMaxer from NCSA is a triangulation method that does the Delauny Triangulation.

QUAD.ASC is source code for image processing using quadtrees. It includes unpublished source code and input data which accompany's Ray Dash's article on using quadtrees for raster-image processing.

ImgStar is a set of image processing tools written in c (?for Unix). It is intended to be used in conjuntion with Jef Poskanzer's pbmplus toolkit for coordinate/file conversions.

GeoTIFF file format and specifications, plus Beta GeoTIFF software using the public domain LIBTIFF package. GeoTIFF is a collaborative effort by a number of remote-sensing and cartographic raster data providers and software vendors to establish a standard for geographically-orientated raster-format data interchange using a standard TIFF tag extension.

7. MAP DATA

Xerox's ftp site is described by Bill Thoen as a goldmine for Map Datasets for DEM, DTM, TIGER data exchange for all kinds of public domain map data.

The EROS Data Center has 1:100,000 and 1:2,000,000 Digital Line Graph land use/land cover and 1:250,000 Digital Elevation Models of the U.S.A. There are also numerous Arc/Info coverages and AML's.

8. GRAPHING/PLOTTING

This directory on the Oakland software ftp repository has plotting programs for geoscientists. Included are: grphc27.zip - Graphica scientific graphing program is great; For piper and ternary plot programs get the files piper10.zip and triplt22.zip. Try searching for these at Oakland's Web server (see above).

A general binary and ternary plotting program for Dos is available as gcplot30.zip.

9. COMMERCIAL DEVELOPERS

This section contains the software developed at organisations which are relatively low priced and descriptions/demonstrations are available on the net.

Rockware Inc. is a retailer of software for the geosciences. They have placed their catalog description on the web, at:

Watermark Computing's web page has a description of its PEST software suite for model-independent non-linear parameter estimation. There are also links to MODFLOW utilities.

Jim Nelson has been developing Basin Delineation software since 1990. It runs under Unix or Windows. There is a free demo version.

Silverplatter Products on the Internet. Silverplatter market a number of databases on CD-ROM. One of these, Geo- REF, is of interest to geoscientists. You can download trial versions of their products or get a guest account. See American Geological Institute in part 1 for GeoRef Newsletter.

Statistical Analysis of Natural Resource Data (SAND) specialises in software for geostatistical analysis for reservoir evaluation and delineation. Software includes CONTSIM, HAVANAH, SEQUENCE and HORIZON. Has links to other sites in geostatistics, statistics and stochostic models.

Strategic Mapping Inc. (SMI) develops and markets the Atlas range of GIS products for Dos and Windows. A demo version of the Windows package can be downloaded. Info on the AGIS-L Internet Atlas GIS user group. Also links other GIS resources.

The GIS Software Listing of Commercial Developers by Oliver Weatherbee. Does contain some shareware locations.

MatLab is Visualisation Software from Mathworks. The site includes news, notes, faq, technical questions and user contributed M/MEX files. The software apparently is used quite alot by oceanography researchers.

IntelliGIS Inc. is a provider of GIS products for the petroleum industry. Software is Unix and Windows based.

Kovach Computing provide low cost Dos and Windows statistical software. Shareware versions exist. Products include Oriana (for circular analysis, rose diagrams and the like) and MVSP (multi-variate statistics).


The end of part 2