2010-03-08 12:42  jorn

	* gui.py/schemas/scenario/: gotm-4.1.0.schema,
	  gotmgui-0.5.0.schema: removed duplicate entries of cl model in
	  gui master schemas

2010-03-08 11:58  hb

	* src/extras/bio/: Makefile, bio.F90, bio_var.F90: Simple maganese
	  model added, see subdir extras/bio/mangan/

2010-02-12 14:31  kb

	* doc/gotm_pub.bib: added Ye et all.

2010-02-12 12:42  kb

	* doc/gotm_pub.bib: added van der Molen

2010-02-11 20:08  kb

	* doc/gotm_pub.bib: fixed typo in Burchard 2009

2010-02-11 15:43  hb

	* doc/gotm_pub.bib: More papers added

2010-02-11 14:35  hb

	* doc/gotm_pub.bib: Two papers by Dan Conley added

2010-02-11 14:17  hb

	* doc/gotm_pub.bib: Two papers by Jones and Monismith (2008) added

2010-01-30 11:56  jorn

	* gui.py/xmlplot/data.py: fixed: nc coordinates attribute is now
	  ignored if set to non-existing variable - Jesper Larsen

2010-01-24 20:03  jorn

	* gui.py/xmlplot/plot.py: updated quiver plot to work with latest
	  stable matplotlib (may break quiver for older matplotlib)

2010-01-21 16:03  jorn

	* gui.py/xmlplot/gui_qt4.py: fixed: removed minimum size of figure
	  canvas to allow size limit on parent window

2010-01-21 12:20  jorn

	* gui.py/xmlplot/data.py: fixed: pupynere no longer opens NetCDF
	  files twice, no longer uses mmap because of problems on Windows

2010-01-20 17:57  jorn

	* src/extras/bio/bio_0d.F90: clean-up: removed unused variables

2010-01-20 17:52  jorn

	* gui.py/gotm.py: added command line switch for user selection of
	  NetCDF module

2010-01-20 17:50  jorn

	* gui.py/xmlstore/util.py: fixed: comment nodes in XML values files
	  are now ignored during copying

2010-01-13 16:13  jorn

	* gui.py/: batch.py, visualizer.py, core/report.py, core/result.py,
	  core/settings.py, schemas/outputtree.schema,
	  schemas/outputtree.xml, schemas/report/gotmgui.schema,
	  schemas/report/gotmgui.xml, visualstudio/2005/gotmgui.sln,
	  xmlstore/xmlstore.py, schemas/result/gotmgui.schema,
	  schemas/result/gotmgui.xml, schemas/scenario/gotm-3.2.4.schema,
	  schemas/scenario/gotm-3.3.2.schema,
	  schemas/scenario/gotm-4.0.0.schema,
	  schemas/scenario/gotm-4.1.0.schema,
	  schemas/scenario/gotm-3.2.4.xml,
	  schemas/scenario/gotmgui-0.5.0.schema,
	  schemas/scenario/gotm-3.3.2.xml, schemas/scenario/gotm-4.0.0.xml,
	  schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml,
	  schemas/settings/gotmgui.schema, schemas/settings/gotmgui.xml:
	  completed switch to .schema extension for all schemas

2010-01-13 15:47  jorn

	* gui.py/: schemas/result/gotmgui.xml,
	  schemas/scenario/gotmgui-0.5.0.xml, schemas/settings/gotmgui.xml,
	  visualstudio/2005/gotmgui.sln, xmlplot/data.py, xmlplot/plot.py,
	  xmlplot/schemas/datafilecache/0001.schema,
	  xmlplot/schemas/datafilecache/0001.xml,
	  xmlplot/schemas/figure/0001.schema,
	  xmlplot/schemas/figure/0002.schema,
	  xmlplot/schemas/figure/0001.xml, xmlplot/schemas/figure/0002.xml,
	  xmlplot/schemas/figure/0003.schema,
	  xmlplot/schemas/figure/0003.xml: improved: switched to .schema
	  extension for schemas in xmlplot

2010-01-13 15:35  jorn

	* gui.py/visualstudio/2005/gotmlib/fortran.vfproj: added
	  chlorination model to Visual Studio project

2010-01-13 15:34  jorn

	* gui.py/schemas/scenario/: gotm-4.1.0.xml, gotmgui-0.5.0.xml:
	  fixed triple appearance of chlorination model

2010-01-13 15:33  jorn

	* gui.py/xmlplot/plot.py: improved: explicit treatment of pcolor
	  border color

2009-12-16 15:45  jorn

	* gui.py/xmlplot/data.py: fixed: elevation mask is now again
	  applied to depth

2009-12-15 15:00  jorn

	* gui.py/xmlplot/data.py: fixed: xx->xc transformation now operates
	  on xx copy to prevent read-only errors

2009-12-15 13:40  jorn

	* gui.py/xmlplot/plot.py: improved: color bar lines follow contour
	  style (if any)

2009-12-15 13:26  jorn

	* gui.py/xmlplot/: plot.py, schemas/figure/0003.xml: minor bug
	  fixes for polar rose plots

2009-12-15 13:12  jorn

	* gui.py/xmlplot/data.py: improved: new exception class for NetCDF
	  errors

2009-12-15 12:41  jorn

	* gui.py/xmlplot/data.py: fixed: auto-generated xc,yc now correctly
	  use existing xx,yx for interfaces

2009-12-15 12:28  jorn

	* gui.py/xmlplot/data.py: added: auto-calculate center Cartesian
	  coordinates xc,yc from GETM interface coordinates xx,yx

2009-12-14 20:43  jorn

	* gui.py/xmlplot/plot.py: fixed: normal plots and wind roses no
	  longer assert if all data are masked

2009-12-11 12:25  jorn

	* gui.py/xmlplot/plot.py: removed redundant code

2009-12-11 12:13  jorn

	* gui.py/xmlplot/plot.py: fixed: radius axis now places ticks
	  correctly when maximum is fixed

2009-12-10 16:10  kb

	* gui.py/schemas/scenario/gotm-4.1.0_gotmgui-0.5.0.converter:
	  BIO/CL GUI fixed - Rennau

2009-12-09 19:26  jorn

	* gui.py/xmlplot/plot.py: fixed polar rose plots with masked data;
	  added control over radius axis

2009-12-09 17:23  jorn

	* gui.py/xmlplot/plot.py: fixed: discrete colorbar colors now match
	  rose bin colors precisely

2009-12-09 16:47  jorn

	* gui.py/: xmlplot/plot.py, xmlplot/schemas/figure/0003.xml,
	  xmlstore/datatypes.py: more configuration options for polar rose

2009-12-09 14:47  jorn

	* gui.py/xmlplot/functions.py: corrected u,v to direction,speed
	  transformation

2009-12-09 14:11  kb

	* gui.py/schemas/scenario/gotm-4.1.0.xml,
	  gui.py/schemas/scenario/gotmgui-0.5.0.xml,
	  src/extras/bio/cl/bio_cl.F90,
	  src/extras/bio/cl/metadata/gui-001.schema,
	  src/extras/bio/cl/metadata/nml-001.defaults,
	  src/extras/bio/cl/metadata/nml-001.schema,
	  src/extras/bio/cl/metadata/nml-001_gui-001.converter: added GUI
	  for BIO/CL model - Rennau

2009-12-09 10:56  jorn

	* gui.py/xmlplot/: plot.py, schemas/figure/0003.xml: added options
	  for wind rose configuration

2009-12-09 10:55  jorn

	* gui.py/xmlplot/functions.py: added function uv2ds for converting
	  u,v to direction,speed

2009-12-09 10:53  jorn

	* gui.py/xmlplot/: common.py, data.py: improved comments

2009-12-08 19:18  jorn

	* gui.py/xmlplot/data.py: replaced var.any() by numpy.any(var) to
	  allow operation on non-numpy objects

2009-12-08 17:18  jorn

	* gui.py/xmlplot/: plot.py, schemas/figure/0003.xml: experimental
	  support for wind rose plots

2009-11-20 09:37  kb

	* src/extras/bio/bio_save.F90: allow compilation excluding 0D BIO
	  framework - set in Rules.make

2009-11-20 09:16  kb

	* src/: Rules.make, extras/bio/Makefile, extras/bio/bio.F90: allow
	  compilation excluding 0D BIO framework - set in Rules.make

2009-11-13 14:49  jorn

	* gui.py/xmlplot/data.py: updated copyVariable to use own internal
	  methods for NetCDF access

2009-11-11 14:08  kb

	* src/extras/bio/: BIO_MODELS.csh, BIO_MODELS.sh, Makefile,
	  bio.F90, bio_var.F90, cl/Makefile, cl/bio_cl.F90,
	  cl/metadata/gui-001.schema, cl/metadata/nml-001.defaults,
	  cl/metadata/nml-001.schema,
	  cl/metadata/nml-001_gui-001.converter: added chlorination model -
	  Rennau

2009-11-10 16:57  jorn

	* gui.py/xmlplot/data.py: fixed: elevation now follows bathymetry
	  only where original values are masked

2009-11-10 11:27  jorn

	* gui.py/xmlplot/data.py: fixed: single NetCDF file can now also be
	  opened with wildcard expression

2009-11-03 13:32  jorn

	* gui.py/schemas/scenario/gotm-4.1.0.xml,
	  gui.py/schemas/scenario/gotmgui-0.5.0.xml,
	  src/extras/bio/iow/metadata/nml-001_nml-002.converter: completed
	  the integration of IOW model changes into the GUI

2009-11-03 12:27  jorn

	* gui.py/xmlplot/common.py: fixed: compressed now returns original
	  data if no mask is set

2009-11-02 17:37  jorn

	* gui.py/xmlstore/xmlstore.py: fixed: xmlstore now selects correct
	  defaults file if multiple versions are available

2009-11-02 17:37  jorn

	* gui.py/xmlplot/gui_qt4.py: added descriptive title to observation
	  editor dialog

2009-10-30 16:00  jorn

	* gui.py/xmlplot/gui_qt4.py: added text labels to profile editor
	  dialog

2009-10-30 14:03  hb

	* src/extras/bio/: bio.F90, iow/bio_iow.F90: Liss and Merlivat
	  relationship for the piston velocity + Weiss formula for
	  saturation oxygen included into bio_iow by Adolf Stips

2009-10-30 12:04  jorn

	* gui.py/xmlplot/common.py: completed support for compression of 1D
	  masked data, while preserving interface coordinates

2009-10-30 12:02  jorn

	* gui.py/xmlplot/data.py: initial support for Pure Python NetCDF
	  Reader (pupynere) - does not work for all nc files

2009-10-28 15:06  jorn

	* gui.py/xmlplot/data.py: fixed: xmlplot now correctly detects
	  missing NetCDF module

2009-10-28 11:16  kb

	* aa: test

2009-10-27 12:59  jorn

	* gui.py/xmlplot/gui_qt4.py: fixed: observation editor now operates
	  on a copy of the original data to allow reversion

2009-10-21 11:17  kb

	* src/util/time.F90: ooobs - removed test print statements

2009-10-21 11:16  kb

	* src/util/time.F90: fixed initialisation of jul1, secs1 when
	  timefmt=1

2009-10-21 10:33  hb

	* src/extras/bio/iow/metadata/: nml-001.defaults, nml-001.schema:
	  Reversion to earlier version

2009-10-21 10:02  hb

	* src/: extras/bio/bio.F90, extras/bio/bio_var.F90,
	  extras/bio/iow/bio_iow.F90,
	  extras/bio/iow/metadata/nml-001.defaults,
	  extras/bio/iow/metadata/nml-001.schema,
	  extras/bio/iow/metadata/nml-002.defaults,
	  extras/bio/iow/metadata/nml-002.schema, gotm/gotm.F90: Fluff
	  layer resuspension added.

2009-10-15 17:57  jorn

	* gui.py/xmlplot/gui_qt4.py: added: delete key in observation
	  editor removes currently selected rows

2009-10-15 17:30  jorn

	* gui.py/xmlplot/: data.py, gui_qt4.py, plot.py,
	  icons/delete_table_row.png, icons/insert_table_row.png: cleaner
	  and more powerful observation editor; added optional error
	  message to figure panel

2009-10-14 12:53  jorn

	* gui.py/: core/.cvsignore, util/.cvsignore, xmlstore/.cvsignore:
	  updated cvsignore files

2009-10-14 11:34  jorn

	* gui.py/: WiX/.cvsignore, drivers/C#/.cvsignore,
	  xmlplot/schemas/figure/0002_0003.converter: updated cvsignore
	  files; added converter between figure versions 2 and 3

2009-10-14 11:24  jorn

	* gui.py/setup.py: added metadata from src tree to setup;
	  automatically include Visual Studio runtime dependencies

2009-10-14 11:23  jorn

	* gui.py/scenariobuilder.py: simplified error message if only one
	  problem with the scenario exists

2009-10-14 11:22  jorn

	* gui.py/: simulator.py, core/scenario.py, core/simulator.py,
	  xmlplot/common.py, xmlstore/datatypes.py: fixed: errors for
	  observation files with a single profile; use of unicode in
	  namelist variables - Jaime Pitarch Portero

2009-10-14 11:19  jorn

	* gui.py/WiX/: buildmsi.py, gotmgui.wxs: fixed: product code of msi
	  package is now auto-generated; default package name contains
	  version number

2009-10-12 17:58  jorn

	* gui.py/WiX/: .cvsignore, buildmsi.py, exeinfo.wxi, gotmgui.wxs,
	  readme.txt, Binary/DefBannerBitmap.bmp, Binary/NewFldrBtn.bmp,
	  Binary/UpFldrBtn.bmp: added simplified routine for setup package
	  generation, based on Windows Installer XML (WiX) toolkit

2009-09-29 09:28  kb

	* compilers/compiler.IFORT11: ifort v11 specific file

2009-09-14 13:22  jorn

	* gui.py/: core/scenario.py, xmlplot/common.py, xmlstore/util.py:
	  moved unicodechar2ascii function to xmlstore and reduced
	  dependency of scenario module on xmlplot

2009-09-14 11:38  jorn

	* gui.py/: core/result.py, core/scenario.py, xmlplot/common.py,
	  xmlplot/data.py, xmlplot/plot.py, xmlstore/xmlstore.py: fixed
	  namelist routines so they can work with any scenario (not only
	  GOTM) and without target version

2009-09-11 16:37  jorn

	* gui.py/: core/scenario.py, xmlplot/common.py: improved: export to
	  namelists now intelligently replaces unicode symbols where
	  possible

2009-09-11 16:36  jorn

	* gui.py/: schemas/scenario/gotm-3.2.4.xml,
	  schemas/scenario/gotm-3.3.2.xml, schemas/scenario/gotm-4.0.0.xml,
	  schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml,
	  xmlplot/schemas/figure/0003.xml: fixed: now uses correct unicode
	  degree symbol; replaced fasham metadata with links to master file

2009-09-11 14:39  jorn

	* gui.py/xmlstore/xmlstore.py: fixed: hyphen string for units is
	  now interpreted as dimensionless

2009-09-11 14:38  jorn

	* gui.py/xmlstore/xmlstore-base-1.0.xsd: fixed: removed outdated
	  grouponly attribute restriction

2009-09-11 14:00  jorn

	* gui.py/schemas/outputtree.xml: fixed: IOW bio output depended on
	  scenario variable that was moved

2009-09-11 13:51  jorn

	* src/extras/bio/: fasham/metadata/nml-001.defaults,
	  fasham/metadata/nml-001.schema, iow/metadata/nml-001.defaults,
	  iow/metadata/nml-001.schema, npzd/metadata/gui-001.schema,
	  npzd/metadata/nml-001.defaults, npzd/metadata/nml-001.schema,
	  npzd/metadata/nml-001_gui-001.converter,
	  npzd_fe/metadata/nml-001.defaults,
	  npzd_fe/metadata/nml-001.schema, photo/metadata/nml-001.defaults,
	  photo/metadata/nml-001.schema, sed/metadata/nml-001.schema,
	  sed/metadata/nml-001_nml-002.converter,
	  sed/metadata/nml-002.defaults, sed/metadata/nml-002.schema: moved
	  XML metadata to /extras/bio tree

2009-09-11 13:50  jorn

	* gui.py/: batch.py, gotm.py, scenariobuilder.py, setup.py,
	  core/result.py, core/scenario.py, schemas/outputtree.xml,
	  schemas/scenario/gotm-3.2.4.xml,
	  schemas/scenario/gotm-3.2.4_gotm-3.3.2.converter,
	  schemas/scenario/gotm-3.3.2.xml,
	  schemas/scenario/gotm-3.3.2_gotm-4.0.0.converter,
	  schemas/scenario/gotm-4.0.0.xml,
	  schemas/scenario/gotm-4.0.0_gotm-4.1.0.converter,
	  schemas/scenario/gotm-4.1.0.defaults,
	  schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotm-4.1.0_gotmgui-0.5.0.converter,
	  schemas/scenario/gotmgui-0.5.0.xml, util/nml2xml.py,
	  util/xml2nml.py, visualstudio/2005/gotmgui.sln,
	  xmlplot/common.py, xmlplot/data.py, xmlplot/gui_qt4.py,
	  xmlplot/plot.py, xmlplot/schemas/figure/0003.xml,
	  xmlstore/converter-1.0.xsd, xmlstore/gui_qt4.py,
	  xmlstore/xmlstore-base-1.0.xsd, xmlstore/xmlstore.py: ajor
	  revision of xmlstore to allow (1) single directory storage of
	  schemas, converters and defaults, (2) flexible xml-based
	  conversions, (3) distributed schema components with associated
	  defaults and converters; various other bug fixes and minor
	  additions

2009-08-26 09:29  jorn

	* gui.py/xmlstore/datatypes.py: fixed: preparePersist and persist
	  caused errors when called on arrays

2009-08-25 12:05  jorn

	* gui.py/xmlplot/functions.py: improved addgaps function to
	  (optionally) retrieve variable data only

2009-08-25 12:05  jorn

	* gui.py/xmlplot/data.py: added: setProperty and createDimension
	  functions for NetCDF editing

2009-08-24 16:50  jorn

	* gui.py/xmlplot/functions.py: added: addgaps function recognizes
	  gaps in data coordinates and marks these by inserting masked
	  values

2009-08-20 09:16  kb

	* src/Rules.make: added -lnetcdff to support shared library NetCDF
	  linking

2009-08-17 14:18  jorn

	* gui.py/core/scenario.py: removed accidentally introduced BFM
	  references

2009-08-17 13:19  jorn

	* gui.py/core/scenario.py: changed namelist import/export to
	  process grouponly attribute in XML

2009-08-17 11:28  jorn

	* gui.py/: core/scenario.py,
	  schemas/scenario/gotm-3.2.4_gotm-3.3.2.converter,
	  schemas/scenario/gotm-3.3.2_gotm-4.0.0.converter,
	  schemas/scenario/gotm-4.0.0_gotm-4.1.0.converter,
	  xmlstore/util.py, xmlstore/xmlstore.py,
	  schemas/scenario/gotm-4.1.0_gotmgui-0.5.0.converter: introduced
	  xml-based converters for schemas

2009-08-14 11:18  jorn

	* gui.py/drivers/C#/: Form1.Designer.cs, Form1.cs: polished .NET
	  driver by removing hard-coded paths, auto enabling/disabling
	  controls, etc.

2009-08-13 14:31  jorn

	* gui.py/xmlplot/data.py: fixed: warning message for pynetcdf
	  raised an error

2009-08-13 11:56  jorn

	* gui.py/drivers/C#/Form1.cs: added proof-of-concept for retrieving
	  GOTM version from .NET

2009-08-13 09:35  jorn

	* gui.py/: core/simulator.py, drivers/C#/Form1.cs: updated .NET
	  driver and Python interface to allow feedback to bio module.

2009-08-07 16:34  jorn

	* gui.py/xmlplot/data.py: added function for enumeration of all
	  NetCDF modules

2009-08-07 11:37  jorn

	* gui.py/xmlplot/data.py: show more debug info when retrieved
	  NetCDF data has wrong dimensions

2009-08-06 17:56  jorn

	* gui.py/xmlplot/expressions.py: repaired support for numpy
	  functions (mean,min,max,etc) applied across all dimensions

2009-08-06 15:34  jorn

	* gui.py/xmlplot/: common.py, data.py, expressions.py: added:
	  getSlice can now be called without arguments to retrieve all data

2009-08-06 15:22  jorn

	* gui.py/scenariobuilder.py: changed: scenario loading progress
	  dialog now closes only when warning must be shown

2009-07-27 12:40  jorn

	* gui.py/schemas/scenario/: gotm-3.2.4.xml, gotm-3.3.2.xml,
	  gotm-4.0.0.xml, gotm-4.1.0.xml, gotmgui-0.5.0.xml: added labels
	  and default values for adaptive grid variables

2009-07-27 10:37  jorn

	* gui.py/: core/scenario.py, schemas/scenario/gotm-3.2.4.xml,
	  schemas/scenario/gotm-3.3.2.xml, schemas/scenario/gotm-4.0.0.xml,
	  schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml: added support for importing
	  scenarios with (non-functional) adapative grid settings

2009-07-27 10:08  jorn

	* gui.py/: core/scenario.py, gotm.py, scenariobuilder.py: fixed:
	  scenario conversion handles missing data better; progress dialog
	  is closed before conversion warnings are shown

2009-07-24 15:25  jorn

	* gui.py/gotm.py: separated import of gotm module so that failure
	  there is clearly recognizable

2009-07-24 15:25  jorn

	* gui.py/xmlplot/data.py: fixed: opening a combination of NetCDF
	  files caused assert

2009-07-24 15:24  jorn

	* gui.py/xmlstore/datatypes.py: fixed: time delta initialization
	  threw a warning in Python 2.6

2009-07-19 17:59  jorn

	* gui.py/: core/namelist.py, core/scenario.py, xmlplot/gui_qt4.py,
	  xmlstore/datatypes.py, xmlstore/gui_qt4.py: major change: added
	  editors and namelist read/write functions for array data types

2009-07-19 17:50  jorn

	* gui.py/xmlplot/schemas/figure/0003.xml: added maximum to font
	  size to protect against typos

2009-07-19 17:49  jorn

	* gui.py/xmlstore/util.py: fixed: deletion of XML nodes failed if
	  removeChild was called inside loop over childNodes

2009-07-19 17:48  jorn

	* gui.py/xmlstore/xmlstore.py: fixed: validation of node with
	  enumeration value asserted when value was not set.

2009-07-18 20:07  jorn

	* gui.py/xmlplot/data.py: improved: automatically load multiple
	  NetCDF files if path contains wildcards

2009-07-18 19:51  jorn

	* gui.py/xmlplot/data.py: fixed overflow when calculating array
	  size, cosmetic improvements

2009-07-18 12:04  jorn

	* gui.py/xmlplot/data.py: fixed comparison of attributes between
	  NetCDF files

2009-07-16 10:32  jorn

	* gui.py/xmlplot/: plot.py, schemas/figure/0003.xml: added support
	  for custom arrow color in quiver plots

2009-07-15 17:26  jorn

	* gui.py/drivers/C#/: DotNetDriver.csproj, DotNetDriver.sln,
	  Form1.Designer.cs, Form1.cs, Form1.resx, Program.cs, app.config,
	  Properties/AssemblyInfo.cs, Properties/Resources.Designer.cs,
	  Properties/Resources.resx, Properties/Settings.Designer.cs,
	  Properties/Settings.settings: added demo application controlling
	  GOTM-GUI from .NET

2009-07-15 17:13  jorn

	* gui.py/xmlplot/functions.py: added support for
	  linspace/logspace/arange in expressions

2009-07-15 17:13  jorn

	* gui.py/xmlplot/data.py: fixed printing of NetCDF variables if
	  path to nc file is unknown

2009-07-15 17:12  jorn

	* gui.py/xmlplot/expressions.py: added support for selective
	  processing of slices by custom functions

2009-07-15 17:11  jorn

	* gui.py/xmlplot/common.py: fixed linear interpolation within
	  reversed coordinates and scalars

2009-07-14 21:45  jorn

	* gui.py/xmlplot/plot.py: make sure figure and title are always
	  updated during animations

2009-07-14 17:28  jorn

	* gui.py/xmlplot/plot.py: allow animations when the size of the
	  animated dimension is unknown - now also works for expressions

2009-07-14 17:01  jorn

	* gui.py/xmlplot/plot.py: allow animations when the size of the
	  animated dimension is unknown - 2nd try

2009-07-14 16:55  jorn

	* gui.py/xmlplot/plot.py: allow animations when the size of the
	  animated dimension is unknown

2009-07-14 14:45  jorn

	* gui.py/core/settings.py: fallback to environment variable APPDATA
	  if win32com module is not found on Windows

2009-07-07 06:52  jorn

	* gui.py/xmlplot/data.py: made time packing optional when setting
	  NetCDF data

2009-07-06 21:13  jorn

	* gui.py/xmlplot/plot.py: fixed: default dynamic title is now used
	  during animation if no title is configured

2009-07-06 19:04  jorn

	* gui.py/xmlplot/data.py: further support for netcdf4 datatype

2009-07-06 19:02  jorn

	* gui.py/xmlplot/data.py: added support for reading NetCDF datatype
	  with python-netcdf4

2009-07-06 18:58  jorn

	* gui.py/xmlplot/data.py: removed debug string; automatically
	  convert datenums when saving to NetCDF; allow indexing of
	  variables with non-iterable objects

2009-07-05 14:37  jorn

	* gui.py/xmlplot/common.py: fixed: floating point slices now work
	  correctly if coordinates contain the exact start or stop

2009-07-03 08:33  jorn

	* gui.py/xmlplot/plot.py: fixed: convert month identifier to ASCII
	  only after taking the first character

2009-07-02 20:19  jorn

	* gui.py/xmlplot/data.py: added support for opening multi-file
	  NetCDF datasets; fixed error when netcdf4 and recent
	  ScientificPython are both absent

2009-06-30 13:01  jorn

	* gui.py/xmlplot/data.py: added option to read data type of NetCDF
	  variables

2009-06-30 13:00  jorn

	* gui.py/xmlplot/common.py: fixed: interpolation destroyed original
	  data slice

2009-06-30 12:59  jorn

	* gui.py/xmlplot/: plot.py, schemas/figure/0003.xml: added option
	  for rotating text

2009-06-25 10:52  jorn

	* gui.py/xmlplot/: plot.py, schemas/figure/0003.xml: added
	  functionality for adding arbitrary text string to figures

2009-06-25 10:51  jorn

	* gui.py/xmlplot/data.py: fixed: indexed dimensions without
	  associated coordinate variable no longer cause assertion

2009-06-23 15:13  jorn

	* gui.py/xmlplot/data.py: added support for writing NetCDF variable
	  attributes

2009-06-23 15:03  jorn

	* gui.py/xmlplot/data.py: added support for missing values when
	  writing NetCDF data

2009-06-23 14:48  jorn

	* gui.py/xmlplot/data.py: implemented basic support for writing
	  NetCDF files

2009-06-23 10:13  jorn

	* gui.py/: commonqt.py, gotm.py, scenariobuilder.py, visualizer.py,
	  xmlplot/gui_qt4.py: fixed bugs and added features related to
	  controlling GOTM-GUI from external applications

2009-06-22 18:16  jorn

	* gui.py/: gotm-f2pywrappers2.F90, gotmmodule.cpp, f2py/f2py1.bat,
	  f2py/readme.txt: added support for f2py-based access to GOTM bio
	  variables, layer heights from Python

2009-06-22 17:50  jorn

	* gui.py/xmlplot/common.py: improved: removed dependency of base
	  xmlplot module on matplotlib

2009-06-22 17:49  jorn

	* gui.py/xmlstore/xmlstore.py: fixed: min/max checks are now
	  skipped if value is None

2009-06-22 17:47  jorn

	* gui.py/xmlplot/data.py: improved: coordinate-derived data mask is
	  now applied only once

2009-06-22 17:44  jorn

	* gui.py/: batch.py, simulator.py, core/simulator.py: modularized
	  the simulator in order to allow for both fixed and dynamic time
	  step batches

2009-06-15 16:22  jorn

	* gui.py/xmlplot/data.py: added support for writing missing values
	  to tab-separated ASCII

2009-06-15 14:15  jorn

	* gui.py/xmlplot/data.py: improved values for masked vertical
	  coordinates; first code for generic interface coordinate
	  calculation

2009-06-15 14:13  jorn

	* gui.py/xmlplot/: expressions.py, functions.py: clean-up

2009-06-13 12:17  jorn

	* gui.py/xmlplot/expressions.py: added some basic rules for
	  symbolic math for units

2009-06-11 22:57  jorn

	* gui.py/xmlplot/functions.py: added function for calculating
	  coordinate deltas

2009-06-10 16:17  jorn

	* gui.py/xmlplot/: expressions.py, functions.py: [no log message]

2009-06-10 16:09  jorn

	* gui.py/xmlplot/plot.py: fixed error message for plotted variables
	  with >2 dimensions

2009-06-09 16:37  jorn

	* gui.py/xmlstore/gui_qt4.py: fixed: edited strings are now
	  correctly converted to unicode

2009-06-09 14:48  jorn

	* gui.py/xmlplot/plot.py: fixed: plot is now redrawn during
	  animation

2009-06-09 14:40  jorn

	* gui.py/xmlplot/: plot.py, schemas/figure/0003.xml: added option
	  for arrow width in quiver plots

2009-06-09 14:29  jorn

	* gui.py/xmlplot/data.py: repaired support for fully masked or
	  unmasked elevation/bathymetry

2009-06-09 14:12  jorn

	* gui.py/xmlstore/xmlstore.py: fixed bug in node lookup by id

2009-06-09 13:31  jorn

	* gui.py/xmlplot/plot.py: improved: animation now uses custom title
	  from plot properties

2009-06-09 10:34  jorn

	* gui.py/: xmlplot/plot.py, xmlstore/gui_qt4.py: minor cosmetic
	  improvements

2009-06-09 10:33  jorn

	* gui.py/xmlstore/xmlstore.py: added: allow for retrieval of
	  identically named nodes based on id or index

2009-06-08 16:04  jorn

	* gui.py/xmlplot/: expressions.py, functions.py: added support for
	  getting raw data from expressions; added numpy constants (e.g.
	  pi) to expression namespace

2009-06-08 16:02  jorn

	* gui.py/xmlplot/gui_qt4.py: fixed: figure is no longer redrawn
	  during loading of new settings from XML

2009-06-08 10:19  jorn

	* gui.py/xmlplot/: common.py, data.py: introduced generic function
	  for nearest neighbor interpolation of masked edges

2009-06-08 09:09  jorn

	* gui.py/xmlplot/data.py: fixed nearest neighbor elevations in the
	  presence of masks

2009-06-08 08:58  jorn

	* gui.py/xmlplot/data.py: improved: interfaces of elevation near
	  masked areas now use nearest neighbor elevations

2009-06-05 15:15  jorn

	* gui.py/xmlplot/data.py: fixed staggered vertical coordinates with
	  stride>1

2009-06-05 09:49  jorn

	* gui.py/xmlplot/plot.py: fixed: colormap option is now correctly
	  shown for plots with multiple data series

2009-06-04 17:44  jorn

	* gui.py/xmlplot/data.py: yet more fixes for the vertical
	  coordinates

2009-06-04 17:16  jorn

	* gui.py/xmlplot/data.py: another attempt at a mask fix for the
	  vertical coordinates

2009-06-04 16:50  jorn

	* gui.py/xmlplot/data.py: another mask fix for the vertical
	  coordinates

2009-06-04 16:44  jorn

	* gui.py/xmlplot/data.py: added second assertion when dimensions
	  and slices do not match

2009-06-04 16:38  jorn

	* gui.py/xmlplot/data.py: added assertion when dimensions and
	  slices do not match

2009-06-04 16:34  jorn

	* gui.py/xmlplot/data.py: fixed problem with non-empty masks in
	  vertical coordinates

2009-06-04 11:08  jorn

	* gui.py/xmlplot/expressions.py: fixed problem with numpy functions
	  in expressions

2009-06-04 11:00  jorn

	* gui.py/xmlplot/data.py: fixed problem with empty masks in
	  vertical coordinates

2009-06-04 10:55  jorn

	* gui.py/xmlplot/expressions.py: removed slice specifyer for
	  variable units

2009-06-04 10:54  jorn

	* gui.py/xmlplot/data.py: better procedure for obtaining GETM/GOTM
	  depth dimensions, shape

2009-06-03 21:45  jorn

	* gui.py/xmlplot/data.py: fixed: staggered coordinates are now
	  calculated correctly even if center coordinates are masked

2009-06-03 16:59  jorn

	* gui.py/xmlplot/: data.py, expressions.py, functions.py: fixed
	  multilinear interpolation routine

2009-06-03 14:44  jorn

	* gui.py/xmlplot/data.py: fixed slicing of staggered dimensions
	  with strides>1

2009-06-02 15:54  jorn

	* gui.py/xmlplot/: data.py, expressions.py: repaired support for
	  slicing at a single datetime

2009-06-01 15:27  jorn

	* gui.py/xmlplot/data.py: repaired support for stride > 1

2009-05-31 20:39  jorn

	* gui.py/xmlplot/expressions.py: generic support for outsourcing of
	  slicing

2009-05-31 17:47  jorn

	* gui.py/xmlplot/plot.py: added basic animation facilities to plot
	  library

2009-05-31 17:47  jorn

	* gui.py/xmlplot/data.py: further optimization of GETM/GOTM depth
	  coordinate calculation

2009-05-28 16:09  jorn

	* gui.py/xmlplot/data.py: optimization of GETM/GOTM depth
	  coordinate calculation

2009-05-28 09:50  jorn

	* gui.py/xmlplot/data.py: added: option to calculate subsets of
	  depth if the total number of grids points is large

2009-05-27 19:32  jorn

	* gui.py/xmlplot/data.py: added: allow for masked coordinates,
	  translating into value masks

2009-05-27 13:33  jorn

	* gui.py/xmlstore/xmlstore-base-1.0.xsd: improved base schema
	  definition (XSD)

2009-05-27 13:32  jorn

	* gui.py/schemas/: result/gotmgui.xml, settings/gotmgui.xml:
	  updated figure settings version used in results and in persistent
	  settings

2009-05-27 13:31  jorn

	* gui.py/xmlstore/xmlstore.py: improved: unexpected nodes are now
	  ignored with a warning, instead of triggering an assertion

2009-05-27 13:29  jorn

	* gui.py/core/settings.py: fixed: settings are now reset correctly
	  if they fail to load from file.

2009-05-27 12:32  jorn

	* gui.py/xmlplot/data.py: added support for GETM sigma coordinates

2009-05-27 12:31  jorn

	* gui.py/xmlplot/common.py: clean-up of staggering code

2009-05-26 13:05  jorn

	* gui.py/xmlplot/data.py: fixed reversed + enumeration bug

2009-05-26 13:00  jorn

	* gui.py/xmlplot/data.py: fixed: staggered dimensions are now
	  unstaggered when center values are needed.

2009-05-26 11:29  jorn

	* gui.py/xmlplot/: common.py, data.py: fixed: staggered coordinate
	  generation now also works correctly for curvilinear grids

2009-05-26 10:18  jorn

	* gui.py/: core/scenario-1.0.xsd, core/settings.py,
	  schemas/report/gotmgui.xml, schemas/result/gotmgui.xml,
	  schemas/scenario/gotm-3.2.4.xml, schemas/scenario/gotm-3.3.2.xml,
	  schemas/scenario/gotm-4.0.0.xml, schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml, schemas/settings/gotmgui.xml,
	  visualstudio/2005/gotmgui.sln, xmlplot/xmlplot-1.0.xsd,
	  xmlplot/schemas/datafilecache/0001.xml,
	  xmlplot/schemas/figure/0001.xml, xmlplot/schemas/figure/0002.xml,
	  xmlplot/schemas/figure/0003.xml, xmlstore/xmlstore-1.0.xsd,
	  xmlstore/xmlstore-base-1.0.xsd, xmlstore/xmlstore.py: improved
	  schema definitions; further clean-up of existing schemas and
	  related code

2009-05-25 13:44  jorn

	* gui.py/xmlplot/plot.py: fixed: matplotlib 1.3 no longer asserts
	  if only masked values are plotted

2009-05-25 13:43  jorn

	* gui.py/: core/scenario-1.0.xsd, core/scenario.py,
	  schemas/scenario/gotm-3.2.4.xml, schemas/scenario/gotm-3.3.2.xml,
	  schemas/scenario/gotm-4.0.0.xml, schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml,
	  visualstudio/2005/gotmgui.sln, xmlstore/gui_qt4.py,
	  xmlstore/xmlstore-1.0.xsd, xmlstore/xmlstore.py,
	  xmlstore/xmlstore-base-1.0.xsd: added XSD files for our custom
	  schema format; clean-up of existing schemas

2009-05-20 23:52  jorn

	* gui.py/xmlplot/plot.py: workaround: matplotlib only considers
	  contour width if it is of type float

2009-05-19 14:47  jorn

	* gui.py/xmlplot/data.py: changed ranking of NetCDF modules so that
	  old versions of ScientificPython come last

2009-05-19 13:44  jorn

	* gui.py/xmlplot/common.py: added assertion if sizes of source and
	  target dimensions do not match in broadcastSelective

2009-05-19 13:36  jorn

	* gui.py/: commonqt.py, gotm.py, core/common.py, core/namelist.py,
	  xmlplot/common.py, xmlplot/expressions.py, xmlstore/gui_qt4.py,
	  xmlstore/util.py, xmlstore/xmlstore.py: converted to new-style
	  classes

2009-05-19 13:10  jorn

	* gui.py/xmlplot/common.py: added: assertion if dimensions
	  disappear in custom broadcast

2009-05-19 11:53  jorn

	* gui.py/xmlplot/expressions.py: fixed: expressions can now be used
	  in slices

2009-05-18 12:40  jorn

	* gui.py/xmlplot/gui_qt4.py: fixed more reference counting bugs
	  surrounding the editing of data files

2009-05-18 12:00  jorn

	* gui.py/: gotm.py, core/scenario.py, xmlstore/util.py,
	  xmlstore/xmlstore.py: fixed: reference count of open files was
	  not correctedly decreased when writing namelists

2009-05-18 09:38  jorn

	* gui.py/xmlstore/datatypes.py: removed calls to __init__ for types
	  deriving from base types (int, float,etc.)

2009-05-18 07:51  jorn

	* gui.py/: core/namelist.py, core/report.py, core/scenario.py,
	  schemas/scenario/gotmgui-0.5.0.xml, util/nml2xml.py,
	  xmlplot/data.py, xmlplot/gui_qt4.py, xmlplot/plot.py,
	  xmlstore/datatypes.py, xmlstore/util.py, xmlstore/xmlstore.py:
	  major update of xmlstore datatypes; added support for arrays of
	  any type; more intelligent scenario conversion

2009-05-15 11:35  jorn

	* gui.py/core/scenario.py: added: namelists can now be written also
	  if one or more variables lack a value

2009-05-15 10:04  jorn

	* gui.py/xmlplot/plot.py: improved: map are now guaranteed to
	  extend to the plot border, quiver key label now follows arrow
	  length

2009-05-15 10:02  jorn

	* gui.py/: scenariobuilder.py, core/scenario.py: separated code for
	  general (non-GOTM) namelist-based scenarios

2009-05-13 13:52  jorn

	* compilers/vs2005/: driver_0d.vfproj, gotm.vfproj, readme.txt:
	  added Visual Studio readme, changed VS output directory to
	  separate gotm and 0d driver modules

2009-05-11 16:55  jorn

	* gui.py/xmlplot/schemas/figure/0003.xml: added: map ranges now
	  have explicit lower and upper bounds

2009-05-11 16:54  jorn

	* gui.py/: util/nml2xml.py, xmlplot/common.py, xmlplot/data.py,
	  xmlplot/expressions.py, xmlplot/functions.py, xmlplot/gui_qt4.py,
	  xmlplot/plot.py, xmlstore/datatypes.py, xmlstore/gui_qt4.py,
	  xmlstore/util.py, xmlstore/xmlstore.py: changed "==None" and
	  "!=None" to "is None" and "is not None"

2009-05-11 15:57  jorn

	* src/extras/bio/bio_0d_gen.F90: fixed: long line now wraps -
	  Markus Kreus

2009-05-11 15:52  jorn

	* gui.py/: batch.py, commonqt.py, gotm.py, scenariobuilder.py,
	  setup.py, simulator.py, visualizer.py, core/common.py,
	  core/namelist.py, core/report.py, core/result.py,
	  core/scenario.py, core/settings.py, core/simulator.py,
	  util/extractncdata.py, util/mergeobs.py: changed "==None" and
	  "!=None" to "is None" and "is not None"

2009-05-11 15:41  jorn

	* src/extras/bio/bio_types.F90: fixed:
	  type_diagnostic_variable_info is now public as needed by gfortran
	  - Markus Kreus

2009-05-10 20:36  jorn

	* src/extras/bio/npzd_0d/bio_npzd_0d.F90: added: sample NPZD
	  diagnostic variables suggested by Markus Kreus

2009-05-10 20:34  jorn

	* src/extras/bio/: bio_0d.F90, bio_0d_gen.F90, bio_types.F90,
	  driver/driver_0d.F90: added support for diagnostic variables in
	  0d biogeochemical framework

2009-05-08 10:38  jorn

	* gui.py/schemas/scenario/: gotm-4.1.0.xml, gotmgui-0.5.0.xml:
	  synchronized with Fortran codebase: PressHeight is now also used
	  for tide-based external pressure gradients

2009-04-22 09:00  jorn

	* gui.py/xmlplot/: plot.py, schemas/figure/0003.xml: changed font
	  weight to use integer instead of string

2009-04-21 12:36  jorn

	* gui.py/xmlplot/plot.py: better support for running without
	  basemap

2009-04-21 12:21  jorn

	* gui.py/xmlplot/data.py: fixed: error message now displays
	  correctly if NetCDF module is missing.

2009-04-20 09:49  jorn

	* gui.py/xmlplot/: gui_qt4.py, plot.py: added caching of basemap
	  between redraws; colorbar height now correctly follows axes if
	  aspect ratio is fixed

2009-04-20 08:27  jorn

	* gui.py/xmlplot/: plot.py, schemas/figure/0003.xml: added:
	  extensive support for font configuration and basemap options

2009-04-20 08:26  jorn

	* gui.py/xmlplot/expressions.py: fixed: slices based on datetime
	  objects display correctly

2009-04-20 08:22  jorn

	* gui.py/xmlstore/: datatypes.py, gui_qt4.py: added support for
	  color=none

2009-04-17 15:58  jorn

	* gui.py/xmlplot/: plot.py, schemas/figure/0003.xml: added pivot
	  option for quiver; fixed plot type for plots with multiple 3D
	  variables

2009-04-17 15:57  jorn

	* gui.py/xmlplot/data.py: fixed: slice indexing with datetime
	  objects works again

2009-04-17 14:55  jorn

	* gui.py/xmlplot/: plot.py, schemas/figure/0003.xml: added several
	  new options for quiver plots

2009-04-17 11:05  jorn

	* gui.py/xmlplot/: plot.py, schemas/figure/0003.xml: added option
	  for axes background color

2009-04-16 16:39  jorn

	* gui.py/xmlplot/expressions.py: clean-up

2009-04-16 12:34  jorn

	* gui.py/xmlplot/expressions.py: several fixes related to the
	  combination of differently shaped variables in expressions

2009-04-15 13:17  jorn

	* gui.py/xmlplot/functions.py: fixed: interp function now correctly
	  reduces the number of reported dimensions

2009-04-15 13:16  jorn

	* gui.py/xmlstore/xmlstore.py: fixed: saving xml now also works if
	  values contains unicode

2009-04-14 14:08  jorn

	* gui.py/xmlplot/plot.py: fixed: color range now also uses suitable
	  default if all values are equal in masked array

2009-04-14 13:57  jorn

	* gui.py/xmlplot/plot.py: fixed: plot properties now are now always
	  converted when possible (e.g. in multiplot)

2009-04-14 11:45  jorn

	* gui.py/: core/result.py, core/scenario.py, core/settings.py,
	  visualstudio/2005/gotmgui.sln, xmlplot/common.py,
	  xmlplot/data.py, xmlplot/gui_qt4.py, xmlplot/plot.py,
	  xmlplot/schemas/figure/0003.xml, xmlstore/datatypes.py,
	  xmlstore/gui_qt4.py, xmlstore/xmlstore.py: new schema for plots,
	  with support for conversion from older schemas; changes to
	  xmlstore to support more data types and conversions

2009-04-08 16:08  jorn

	* compilers/vs2005/: driver_0d.vfproj, gotm.sln, gotm.vfproj,
	  version.h: added support for compilation with Visual Studio 2005

2009-04-07 09:53  jorn

	* gui.py/visualstudio/2005/gotmgui.sln: added new files to Visual
	  Studio project

2009-04-07 09:52  jorn

	* gui.py/xmlstore/datatypes.py: clean-up of data type module in
	  xmlplot

2009-04-07 09:51  jorn

	* gui.py/xmlplot/plot.py: workaround for quiver in combination with
	  masked arrays

2009-04-07 09:51  jorn

	* gui.py/xmlplot/: data.py, expressions.py: added: support for
	  steps other than 1 in integer-based slices

2009-03-27 15:41  jorn

	* gui.py/: util/extractncdata.py, xmlplot/plot.py: cosmetic
	  improvements

2009-03-27 15:41  jorn

	* gui.py/xmlplot/common.py: improved: interpolation now works for
	  arrays with descending values

2009-03-27 13:33  jorn

	* gui.py/util/extractncdata.py: extra debug string

2009-03-27 13:24  jorn

	* gui.py/xmlplot/plot.py: fixed: non-filled contour plot works
	  again, contour plots respect customized color ranges

2009-03-27 10:41  jorn

	* gui.py/xmlplot/plot.py: fixed: manual color bar limits are
	  respected if data have all the same value

2009-03-26 12:48  jorn

	* gui.py/visualstudio/2005/gotmlib/fortran.vfproj: updated GOTM
	  library for GUI to use new bio files

2009-03-26 12:48  jorn

	* gui.py/util/: __init__.py, extractncdata.py: extractncdata can
	  now be imported as a module and supports extraction from a series
	  of nc files

2009-03-26 12:45  jorn

	* gui.py/xmlplot/data.py: better documented code and error strings

2009-03-26 12:43  jorn

	* gui.py/xmlplot/functions.py: added: interp function for variable
	  expressions

2009-03-26 12:42  jorn

	* gui.py/xmlstore/datatypes.py: removed debug string that was
	  written to stdout

2009-03-26 12:41  jorn

	* gui.py/gotm.py: increased width of main dialog to fit figure
	  buttons

2009-03-23 11:00  lars

	* src/observations/get_ext_pressure.F90: compute h_press also for
	  method=1

2009-03-22 08:32  jorn

	* src/airsea/airsea.F90: made swr clean-up independent of use of
	  meteo data

2009-03-19 11:27  jorn

	* src/extras/bio/bio_0d_gen.F90: spread long error messages over
	  multiple lines

2009-03-19 10:38  kb

	* src/extras/bio/: bio_0d.F90, bio_0d_gen.F90: shortend lines to
	  compile with gfortran

2009-03-19 10:36  kb

	* src/observations/get_bio_profiles.F90: also work with BIO=false

2009-03-18 15:20  jorn

	* gui.py/xmlplot/data.py: improved: retrieval of nc variable
	  attributes can now use "ncattrs" from NetCDF4

2009-03-18 10:56  jorn

	* gui.py/xmlplot/data.py: fixed: true depth variable was not
	  visible for GETM NetCDF files

2009-03-18 10:55  jorn

	* gui.py/schemas/outputtree.xml: improved: re-sorted GOTM-GUI
	  output tree so that containers come first

2009-03-18 10:54  jorn

	* gui.py/: gotm.py, scenariobuilder.py, visualizer.py: improved:
	  "waiting" mouse cursor now disappears even if exceptions occur

2009-03-18 10:24  kb

	* src/Rules.make: Support for choosing between NetCDF and NetCDF4

2009-03-13 09:02  jorn

	* gui.py/core/result.py: fixed: problems viewing certain variables
	  in saved result

2009-03-11 17:02  jorn

	* gui.py/xmlplot/data.py: fixed: NetCDF value transformations
	  failed for non-float data types

2009-03-11 10:03  jorn

	* gui.py/xmlplot/: data.py, plot.py: fixed: problems with GETM
	  depth coordinates, closing files in pyncview

2009-03-09 19:34  jorn

	* gui.py/xmlplot/data.py: clean-up: NetCDF data retrieval now takes
	  place in one single function

2009-03-09 18:36  jorn

	* gui.py/xmlplot/data.py: fixed: getVariable now only used for
	  scalar NetCDF variables

2009-03-09 17:48  jorn

	* gui.py/xmlplot/data.py: added: experimental support for netCDF4
	  module

2009-03-02 16:39  jorn

	* gui.py/xmlplot/plot.py: changed: xmlplot now always checks
	  default font against MatPlotLib defaults, and resets it if not
	  available

2009-03-02 16:01  jorn

	* gui.py/xmlplot/plot.py: workaround: non-ASCII font names are
	  reset to MatPlotLib default so MatPlotLib does not choke on
	  non-Western systems

2009-03-02 16:00  jorn

	* gui.py/xmlstore/gui_qt4.py: added: data types can now allow
	  arbitrary values plus a fixed set of options

2009-03-02 15:58  jorn

	* gui.py/xmlstore/datatypes.py: removed: debug messages in console
	  when saving scenario or result

2009-03-02 15:57  jorn

	* gui.py/xmlplot/gui_qt4.py: changed: double-clicking observations
	  in advanced options now directly opens dialog

2009-03-02 15:55  jorn

	* gui.py/visualizer.py: added progress indicator during the saving
	  of a result

2009-02-26 16:23  jorn

	* gui.py/: core/scenario.py, xmlplot/data.py, xmlplot/gui_qt4.py:
	  improved handling of empty observation data series

2009-02-26 15:34  jorn

	* gui.py/xmlplot/gui_qt4.py: fixed: crash when trying to import
	  invalid observations file

2009-02-26 12:10  jorn

	* gui.py/xmlplot/: data.py, gui_qt4.py: fixed: observations are no
	  longer overwritten with new data if the user clicks cancel

2009-02-26 10:57  jorn

	* gui.py/batch.py: fixed: batch script finally uses new GOTM-GUI
	  code tree

2009-02-26 10:54  jorn

	* gui.py/: setup.py, xmlplot/common.py: updated setup script to
	  handle PyQt4 change, icon directories, xmlplot data files

2009-02-26 10:52  jorn

	* gui.py/xmlplot/gui_qt4.py: fixed: new MatPlotLib versions store
	  font list at a different place

2009-02-25 10:21  jorn

	* gui.py/xmlplot/gui_qt4.py: fixed: error when retrieving Windows
	  font substitute for unicode fontname

2009-02-16 12:16  lars

	* src/gotm/gotm.F90: bug fix in bioprofs allocation

2009-01-07 09:34  jorn

	* src/extras/bio/bio_types.F90: fix: derived types that are used as
	  member of public types are now public as well

2009-01-07 08:25  kb

	* src/: util/lagrange.F90, airsea/fairall.F90, gotm/gotm.F90,
	  observations/observations.F90: fixed various compilation warnings
	  found by gfortran

2009-01-05 11:55  jorn

	* gui.py/: commonqt.py, core/report.py, core/scenario.py,
	  core/settings.py, xmlstore/xmlstore.py: fixed crash when settings
	  fail to load; fixed loading of schemas from relative paths; added
	  function for generating HTML description of schemas

2008-12-16 14:01  jorn

	* gui.py/xmlplot/plot.py: fixed: labels and line types for plots
	  with multiple data series now cycle correctly

2008-12-16 11:32  jorn

	* gui.py/xmlplot/data.py: fixed: explicit conversion of coordinate
	  arrays to NumPy ndarray

2008-12-07 22:27  jorn

	* gui.py/xmlplot/plot.py: delayed import of parts of matplotlib

2008-12-07 18:22  jorn

	* gui.py/: core/result.py, core/scenario.py, xmlplot/plot.py,
	  xmlstore/xmlstore.py: added support for custom data types used by
	  plots (e.g., colormaps) to result properties

2008-12-07 17:21  jorn

	* gui.py/xmlplot/gui_qt4.py: hide experimental function tab in
	  observation editor

2008-12-07 17:14  jorn

	* gui.py/xmlplot/common.py: fixed: updated variable copy to use new
	  CustomVariable initialization arguments

2008-12-07 17:09  jorn

	* gui.py/xmlplot/gui_qt4.py: fixed: prevent crash under Qt < 4.3
	  without QLayout.setContentsMargins

2008-11-20 12:00  jorn

	* src/extras/bio/: bio_0d.F90, bio_0d_gen.F90, bio_types.F90,
	  npzd_0d/bio_npzd_0d.F90: removed ability of 0d BGC models to use
	  background light extinction that differs from that used by the
	  physical side; moved opening/closing of namelist files from
	  individual 0d BGC models to the 0d framework

2008-11-20 11:57  jorn

	* src/extras/bio/driver/: driver_0d.F90, main.F90: changed
	  namelists for 0d biogeochemical driver

2008-11-20 11:55  jorn

	* gui.py/xmlplot/plot.py: default settings for data series are now
	  created before the series itself

2008-11-20 11:54  jorn

	* gui.py/xmlplot/gui_qt4.py: made parent argument for FigureDialog
	  optional

2008-11-20 11:53  jorn

	* gui.py/xmlplot/expressions.py: fixed: slice specifications were
	  always transferred to lowest level in an expression, even higher
	  levels did not support this

2008-11-20 11:51  jorn

	* gui.py/xmlplot/common.py: added function for multidimensional
	  linear interpolation; fixed bugs in custom data object
	  (CustomVariable) for plots

2008-11-20 11:49  jorn

	* gui.py/xmlplot/data.py: added function for loading GOTM
	  observations directly from file

2008-11-20 11:48  jorn

	* gui.py/xmlstore/xmlstore.py: fixed crash when an optional,
	  unnamed child node is added

2008-11-20 11:46  jorn

	* gui.py/util/mergeobs.py: new tool for merging GOTM observation
	  files that describe different variables

2008-11-20 11:45  jorn

	* gui.py/util/extractncdata.py: new tool for extracting data series
	  from NetCDF and saving these as GOTM observation file

2008-11-18 13:41  jorn

	* src/extras/bio/Makefile: fixed bio Makefile: compilation failed
	  due to dependency of bio_save on bio_0d_gen

2008-11-12 15:37  jorn

	* gui.py/xmlplot/: common.py, data.py, expressions.py: improved
	  support for variable slices (added Ellipsis, float-based slices);
	  complete support for GOTM/GETM depth specification

2008-11-12 15:36  jorn

	* gui.py/xmlplot/plot.py: made squeezing of singeleton dimensions
	  in plotted data optional

2008-11-11 14:40  jorn

	* src/extras/bio/: bio.F90, bio_0d.F90, bio_0d_gen.F90,
	  bio_save.F90, bio_types.F90, driver/driver_0d.F90,
	  npzd_0d/bio_npzd_0d.F90: major revision of 0d biogeochemical
	  framework; added output of depth-integrated conserved BGC
	  quantities; added support for running multiple BGC models
	  side-by-side

2008-11-06 16:04  jorn

	* src/extras/bio/: Makefile, bio_0d.F90, bio_0d_base.F90,
	  bio_0d_gen.F90, bio_types.F90, driver/driver_0d.F90,
	  npzd_0d/bio_npzd_0d.F90: renamed bio_0d_base to bio_types

2008-11-06 14:42  jorn

	* src/extras/bio/: bio.F90, bio_0d.F90, bio_0d_base.F90,
	  driver/driver_0d.F90, npzd_0d/bio_npzd_0d.F90: several changes to
	  0d framework for biogeochemical models; added explicit support
	  for time- and space-varying sinking and light extinction

2008-11-06 14:41  jorn

	* src/extras/bio/: Makefile, bio_0d_gen.F90: added generic 0d
	  biogeochemical model: the only entry point into the library of 0d
	  models

2008-11-05 14:12  jorn

	* src/extras/bio/driver/: driver_0d.F90, main.F90: added CVS
	  identifier lines; corrected namelist name for independent driver

2008-11-05 14:08  jorn

	* src/extras/bio/driver/Makefile: fixed errors in makefile for 0d
	  biogeochemical driver

2008-11-05 13:51  jorn

	* src/extras/bio/: bio.F90, bio_0d.F90, bio_0d_base.F90:
	  restructured 0d biogeochemical framework; added experimental
	  support for self-shading in 0d-based particle models

2008-11-05 13:39  jorn

	* src/extras/bio/driver/: Makefile, driver_0d.F90, main.F90: first
	  version of independent 0d driver for biogeochemical models

2008-11-04 12:42  jorn

	* gui.py/xmlstore/xmlstore.py: fixed assertions when locating nodes
	  during conversion

2008-11-04 12:40  jorn

	* gui.py/: core/scenario.py, schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml: added new nprop and ntype
	  members to bio_sed namelist

2008-11-03 13:57  jorn

	* src/extras/bio/: bio.F90, bio_0d.F90, bio_0d_base.F90: added
	  support for 0D biogeochemical models in Lagrangian mode

2008-11-03 13:56  jorn

	* src/util/lagrange.F90: fixed: particles are now reflected
	  multiple times if needed

2008-10-31 14:22  kb

	* src/extras/bio/Makefile: fixed compile order for 0D bio modules

2008-10-31 12:10  jorn

	* src/extras/bio/: Makefile, bio.F90, bio_0d.F90, bio_0d_base.F90,
	  npzd_0d/Makefile, npzd_0d/bio_npzd_0d.F90: first version of bio
	  framework for 0D models and 0D NPZD test case

2008-10-31 10:54  jorn

	* gui.py/xmlplot/common.py: make sure unit string is unicode before
	  inserting unicode symbols

2008-10-31 10:36  jorn

	* gui.py/xmlplot/plot.py: fixed bug in xmlplot that broke plotting
	  in GOTM-GUI

2008-10-29 15:59  jorn

	* gui.py/xmlplot/data.py: fixed detection of NetCDF produced by
	  GOTM

2008-10-29 15:27  jorn

	* gui.py/: visualstudio/2005/gotmlib/fortran.vfproj,
	  xmlplot/common.py, xmlplot/data.py, xmlplot/expressions.py,
	  xmlplot/plot.py: several minor changes to xmlplot expression
	  framework, variable hierarchy, basemap use

2008-10-20 20:49  jorn

	* gui.py/xmlplot/: common.py, data.py, expressions.py,
	  functions.py: updated expression framework for handling objects
	  in keyword arguments and slices; added option of using floating
	  point bounds in slices

2008-10-20 20:47  jorn

	* gui.py/xmlplot/gui_qt4.py: added functionality in GUI for
	  loading/saving figure properties

2008-10-20 20:45  jorn

	* gui.py/xmlplot/plot.py: fixed errors with log scale and
	  non-positive values; prevented erroneous axis reversal

2008-10-20 20:44  jorn

	* gui.py/xmlstore/gui_qt4.py: added Load/Save/Reset buttons to
	  generic property dialog (used e.g. for figure properties)

2008-10-20 20:43  jorn

	* gui.py/xmlstore/xmlstore.py: fixed crash in TypedStore.setStore
	  if multiple interfaces are listening

2008-10-17 10:50  lars

	* src/extras/bio/bio_fluxes.F90: changed documentation label

2008-10-17 10:48  lars

	* src/extras/bio/photo/bio_photo.F90: fixed bug in carbon time
	  stepping

2008-10-13 14:57  jorn

	* gui.py/xmlplot/icons/agt_multimedia.png: added generic icon for
	  animations

2008-10-13 12:52  jorn

	* gui.py/xmlplot/schemas/figure/0002.xml: fixed typo

2008-10-13 12:03  jorn

	* gui.py/xmlplot/data.py: added internal option to disable
	  CF-convention masking of values outside NetCDF variable range
	  (valid_min,valid_max,valid_range)

2008-10-13 12:00  jorn

	* gui.py/xmlplot/: plot.py, schemas/figure/0002.xml: added option
	  to control padding of figures

2008-10-13 10:46  jorn

	* gui.py/xmlplot/: data.py, plot.py, icons/camera.png,
	  icons/player_end1.png, icons/player_pause.png,
	  icons/player_play.png, icons/player_start.png: added framework
	  for supporting different NetCDF conventions; added MOM4
	  curvilinear coordinate convention; added icons for animation
	  toolbar

2008-10-10 17:24  jorn

	* gui.py/xmlplot/plot.py: changed dimension name separator from
	  comma to semi-colon to prevent problems with slices

2008-10-10 13:20  jorn

	* gui.py/xmlplot/: common.py, expressions.py: Increased efficiently
	  of slicing custom expressions of NetCDF variables

2008-10-10 12:31  jorn

	* gui.py/xmlplot/data.py: added function for intelligently
	  assigning coordinate variables to nc dimensions

2008-10-10 12:14  jorn

	* gui.py/xmlplot/data.py: Added function that returns dimensions of
	  NetCDF file in correct order

2008-10-10 11:06  jorn

	* gui.py/xmlplot/data.py: prevent re-assignment of NetCDF
	  dimensions for the associated original coordinate variables

2008-10-10 10:18  jorn

	* gui.py/xmlplot/data.py: small bug fixes in new NetCDF code

2008-10-09 17:42  jorn

	* gui.py/: commonqt.py, logo.png, xmlplot/common.py,
	  xmlplot/data.py, xmlplot/gui_qt4.py, xmlplot/plot.py: first
	  (unfinished) support for providing observations as analytical
	  function; much improved support for CF NetCDF
	  convention/curvilinear coordinates/GETM output

2008-08-28 16:49  jorn

	* gui.py/xmlplot/plot.py: fixed broken contour plotting

2008-08-28 16:42  jorn

	* gui.py/xmlplot/plot.py: hide axis labels, units, tickmarks by
	  default if a map projection is used

2008-08-28 16:31  jorn

	* gui.py/: xmlplot/plot.py, xmlplot/schemas/figure/0002.xml,
	  xmlstore/gui_qt4.py: divided plot construction in data retrieval
	  and plotting code; added support for basemap projections

2008-08-28 16:30  jorn

	* gui.py/xmlplot/data.py: more efficient masking of parts of NetCDF
	  variables

2008-08-28 16:29  jorn

	* gui.py/schemas/scenario/gotmgui-0.5.0.xml: added descriptions for
	  extinction variables

2008-08-27 11:49  jorn

	* gui.py/xmlplot/gui_qt4.py: faster display of colormap list

2008-08-27 11:38  jorn

	* gui.py/: batch.py, gotm.py, scenariobuilder.py, core/result.py,
	  core/scenario.py, schemas/scenario/gotm-3.2.4.xml,
	  schemas/scenario/gotm-3.3.2.xml, schemas/scenario/gotm-4.0.0.xml,
	  schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml,
	  visualstudio/2005/gotmgui.sln, xmlplot/data.py,
	  xmlplot/gui_qt4.py, xmlplot/plot.py,
	  xmlplot/schemas/figure/0001.xml, xmlplot/schemas/figure/0002.xml,
	  xmlstore/gui_qt4.py, xmlstore/datatypes.py, xmlstore/xmlstore.py:
	  complete overhaul of xmlstore; dropped "select" data type in
	  favor of generic enumeration support; added all
	  matplotlib/basemap colormaps

2008-08-24 17:05  jorn

	* gui.py/xmlplot/: plot.py, schemas/figure/0002.xml: hide basemap
	  options if x cannot be longitude or y cannot be latitude

2008-08-24 16:54  jorn

	* gui.py/: schemas/result/gotmgui.xml,
	  schemas/settings/gotmgui.xml, xmlplot/plot.py,
	  xmlplot/schemas/figure/0002.xml: revised XML schema for figures;
	  added first support for basemap

2008-08-24 12:47  jorn

	* gui.py/xmlplot/gui_qt4.py: fixed broken figure printing; printed
	  figures are now centered on page

2008-08-23 19:54  jorn

	* gui.py/xmlplot/plot.py: auto-show grid for plots with 1
	  coordinate dimension

2008-08-23 10:24  jorn

	* gui.py/xmlstore/xmlstore.py: XML nodes with both children and a
	  value now store the value in a separate child node (with the name
	  of its parent)

2008-08-23 10:22  jorn

	* gui.py/xmlplot/expressions.py: fixed: units were missing in plots

2008-08-22 14:41  jorn

	* gui.py/xmlplot/schemas/figure/0001.xml: fixed: marker color
	  property was not available for some symbols

2008-08-22 14:40  jorn

	* gui.py/: xmlplot/common.py, xmlplot/data.py, xmlplot/gui_qt4.py,
	  xmlplot/plot.py, xmlstore/gui_qt4.py: restructured observation
	  editor

2008-08-21 17:43  jorn

	* gui.py/Makefile: fixed error in documentation

2008-08-21 17:11  jorn

	* gui.py/Makefile: fixed bug causing F2PYDIR not to be set

2008-08-21 16:46  jorn

	* gui.py/Makefile: fixed typo

2008-08-21 16:44  jorn

	* gui.py/Makefile: improved: Makefile now guesses Python and NumPy
	  paths from PYTHONVERSION variable

2008-08-21 14:37  jorn

	* gui.py/: commonqt.py, xmlplot/gui_qt4.py, xmlstore/gui_qt4.py,
	  icons/exit.png, xmlplot/icons/exit.png: moved exit icon to
	  xmlplot

2008-08-21 14:24  jorn

	* gui.py/: core/scenario.py, xmlplot/data.py, xmlplot/gui_qt4.py,
	  xmlstore/util.py, xmlstore/xmlstore.py: removed dependency on
	  datetime.strftime (which cannot handle year<1900); collected
	  figure buttons in toolbar

2008-08-21 11:42  jorn

	* gui.py/: commonqt.py, gotm.py, icons/advanced.png,
	  icons/back.png, icons/exit.png, icons/gohome.png,
	  xmlplot/schemas/figure/0001.xml, icons/next.png,
	  icons/readme.txt: added subset of LGPL-licensed Crystal Project
	  icons to GUI

2008-08-21 11:04  jorn

	* gui.py/xmlplot/plot.py: added function for normalization of
	  expressions in the context of a figure

2008-08-21 11:03  jorn

	* gui.py/: xmlplot/gui_qt4.py, xmlplot/icons/configure.png,
	  xmlplot/icons/fileprint.png, xmlplot/icons/filesaveas.png,
	  xmlplot/icons/new_window.png, xmlstore/gui_qt4.py,
	  xmlplot/icons/readme.txt, xmlplot/icons/viewmag.png,
	  xmlplot/icons/viewmagfit.png: added subset of LGPL-licensed
	  Crystal Project icons to xmlplot

2008-08-15 16:47  jorn

	* gui.py/: xmlplot/gui_qt4.py, xmlplot/plot.py,
	  xmlplot/schemas/figure/0001.xml, xmlstore/xmlstore.py: added
	  Height and Width properties to figure

2008-08-15 16:47  jorn

	* gui.py/: core/scenario.py, schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml,
	  visualstudio/2005/gotmlib/fortran.vfproj: incorporated changes in
	  bio_nml namelist

2008-08-13 15:01  jorn

	* gui.py/xmlplot/common.py: fixed errors in GOTM-GUI due to
	  reorganized xmlplot

2008-08-13 15:01  jorn

	* gui.py/xmlstore/xmlstore.py: added support for initializing
	  Schema objects from string containing XML

2008-08-08 17:29  jorn

	* gui.py/: core/result.py, visualstudio/2005/gotmgui.sln,
	  xmlplot/common.py, xmlplot/data.py, xmlplot/expressions.py,
	  xmlplot/functions.py, xmlplot/plot.py: reorganized xmlplot; added
	  support for NumPy dimension-reducing functions in expressions
	  (e.g. min,max,sum); added custom functions (statistics, flatten)

2008-08-04 14:45  jorn

	* gui.py/xmlplot/plot.py: restored support for plotting from
	  multiple sources

2008-08-04 11:52  jorn

	* gui.py/xmlplot/plot.py: fixed: error if sliced variable is used
	  more than once in expression

2008-08-01 09:33  lars

	* src/util/eqstate.F90: modified documentation

2008-08-01 09:32  lars

	* src/output/ncdfout.F90: updated unit description

2008-07-11 15:33  jorn

	* gui.py/xmlplot/: gui_qt4.py, plot.py: moved plot cloning from GUI
	  to xmlplot; added "inch" as plot size unit; expressions are no
	  longer recoded in plot

2008-07-11 10:35  jorn

	* gui.py/xmlplot/: plot.py, schemas/figure/0001.xml: figures now
	  expose links between axes and variable dimensions; fixed crash
	  when MatPlotLib uses infinity for axes bounds

2008-07-10 17:58  jorn

	* gui.py/xmlplot/plot.py: fixed: slicing now works if there is only
	  one coordinate dimension

2008-07-10 17:28  jorn

	* gui.py/xmlplot/: data.py, plot.py: added: axis reversal with
	  positive=down COARDS variable attribute

2008-07-10 17:12  jorn

	* gui.py/xmlplot/data.py: removed hard link between latitude
	  dimension and y-axis in figures

2008-07-10 16:58  jorn

	* gui.py/xmlplot/data.py: fixed COARDS time parsing when reference
	  year<1

2008-07-10 16:41  jorn

	* gui.py/xmlplot/gui_qt4.py: fixed broken "detach figure"

2008-07-10 15:55  jorn

	* gui.py/xmlplot/: data.py, plot.py: fixed: NetCDF coordinates are
	  now correctly sliced if integers appear in slice tuples

2008-07-10 14:33  jorn

	* gui.py/xmlplot/plot.py: improved support for slicing within
	  expressions

2008-07-10 11:30  jorn

	* gui.py/xmlplot/: data.py, plot.py: fixed selection of NetCDF
	  dimensions for x and y axes

2008-07-09 13:28  jorn

	* gui.py/xmlplot/: data.py, plot.py: added: support for querying
	  shape of variables without retrieving all data

2008-07-08 12:46  lars

	* src/gotm/gotm.F90: bug fix in BIO calling sequence

2008-07-08 12:40  lars

	* src/extras/bio/photo/bio_photo.F90: added external info string
	  allocation

2008-07-08 12:19  lars

	* doc/gotm.bib: added reference

2008-07-08 12:17  lars

	* src/extras/bio/photo/: Makefile, bio_photo.F90: first version of
	  particle model for photo response

2008-07-08 12:13  lars

	* src/extras/bio/bio_alloc_info.F90: extracted info allocation for
	  more flexible initialization

2008-07-08 12:09  lars

	* src/: extras/bio/bio.F90, extras/bio/bio_var.F90, gotm/gotm.F90:
	  new structure with general particle support

2008-07-08 12:08  lars

	* src/extras/bio/bio_save.F90: nlev now directly used from bio_var
	  module

2008-07-08 12:04  lars

	* src/extras/bio/sed/bio_sed.F90: changed initialization and
	  particle support

2008-07-08 12:03  lars

	* src/extras/bio/: BIO_MODELS.csh, BIO_MODELS.sh, Makefile: changed
	  for particle support and documentation

2008-07-08 11:58  lars

	* src/extras/bio/: iow/bio_iow.F90, mab/bio_mab.F90,
	  npzd/bio_npzd.F90, npzd_fe/bio_npzd_fe.F90, rolm/bio_rolm.F90,
	  template/bio_template.F90, fasham/bio_fasham.F90: adapted to
	  changed BIO initialization algorithm

2008-07-08 11:31  jorn

	* gui.py/: core/result.py, xmlplot/data.py, xmlplot/gui_qt4.py,
	  xmlplot/plot.py: added full support for automatic translation of
	  variable names in plots

2008-07-07 11:05  lars

	* src/util/lagrange.F90: added LaTeX label

2008-07-07 11:05  lars

	* src/airsea/fairall.F90: corrected typo in documentation

2008-07-03 15:37  jorn

	* gui.py/xmlplot/plot.py: replaced specific operators with
	  generalized operator class

2008-07-03 15:05  jorn

	* gui.py/xmlplot/plot.py: object-oriented expressions; added
	  support for complete numpy function library in expressions

2008-07-03 12:12  jorn

	* gui.py/: visualizer.py, core/result.py, schemas/outputtree.xml,
	  xmlplot/data.py, xmlplot/plot.py: fixed: variable names are now
	  translated to identifiers useable in expressions (e.g. x-taus ->
	  x_taus)

2008-07-02 17:21  jorn

	* gui.py/: core/result.py, xmlplot/data.py, xmlplot/plot.py: moved
	  expression parsing functionality from figure to generic data
	  store

2008-07-01 17:54  jorn

	* gui.py/: visualizer.py, schemas/scenario/gotm-3.2.4.xml,
	  schemas/scenario/gotm-3.3.2.xml, schemas/scenario/gotm-4.0.0.xml,
	  schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml, xmlplot/data.py,
	  xmlplot/plot.py: added support for quiver plots; first working
	  support for plotting expressions

2008-07-01 17:52  jorn

	* gui.py/core/simulator.py: fixed typo

2008-06-20 14:19  kb

	* src/extras/bio/bio_fluxes.F90: avoid unit conflict with observed
	  O2

2008-06-20 14:17  kb

	* src/extras/bio/bio_fluxes.F90: avoid unit conflic with observed
	  O2

2008-06-12 13:10  jorn

	* gui.py/Makefile: Better Makefile documentation; switched -l and
	  -L flags for Python library, hopefully fixing GFORTRAN
	  compilation[Markus Kreuz, 18-1-2008]

2008-06-10 18:51  hb

	* src/airsea/airsea.F90: bug concerning I_0 removed

2008-06-09 14:37  jorn

	* gui.py/xmlplot/data.py: fixed: error when using highest possible
	  index in a slice

2008-06-09 14:32  jorn

	* gui.py/xmlplot/data.py: fixed error message for invalid slice
	  indices

2008-06-04 09:08  jorn

	* gui.py/xmlplot/data.py: added ability to handle variable-less
	  NetCDF dimensions; added option for specifying range-based slices
	  of NetCDF variables

2008-06-04 09:07  jorn

	* gui.py/xmlplot/plot.py: first step towards plot accepting
	  expressions of variables

2008-05-20 07:56  jorn

	* gui.py/xmlplot/data.py: changed: interface coordinates for z1 now
	  start at bottom (first cell is 1.5 layer)

2008-05-18 22:46  jorn

	* gui.py/: core/result.py, visualstudio/2005/gotmgui.sln,
	  xmlplot/common.py, xmlplot/data.py, xmlplot/gui_qt4.py,
	  xmlplot/plot.py: separated COARDS and GOTM NetCDF conventions;
	  added integer-based variable slicing; many fixes for ensemble
	  average functions

2008-05-15 12:08  lars

	* src/observations/const_NNS.F90: fixed wrong sign

2008-05-07 08:03  kb

	* gui.py/: commonqt.py, gotm.py: gotm-users@gotm.net -->
	  gotm-users@googlegroups.com

2008-05-02 13:49  kb

	* src/airsea/airsea_variables.F90: explicitely initialise variable
	  to 0 - solves Mac bug

2008-05-01 13:51  jorn

	* gui.py/xmlplot/plot.py: changed sd calculation to improve
	  efficiency and accuracy

2008-05-01 13:10  jorn

	* gui.py/xmlplot/: data.py, plot.py: several fixes to allow for
	  statistics of 2D fields

2008-04-30 18:20  jorn

	* gui.py/xmlplot/: data.py, plot.py: added: clear error messages
	  when NetCDF file does not exist, or when data cannot be loaded
	  from a single NetCDF file in a set

2008-04-30 11:46  jorn

	* gui.py/: visualizer.py, xmlplot/data.py: added: support for
	  operating on NetCDF slabs

2008-04-25 15:50  jorn

	* gui.py/: core/report.py, core/result.py, xmlplot/data.py,
	  xmlplot/gui_qt4.py, xmlplot/plot.py: changed VariableStore to
	  implement dictionary interface for variable access (more
	  Pythonic)

2008-04-25 08:55  jorn

	* gui.py/: core/simulator.py, gotm.py, xmlplot/common.py,
	  xmlplot/data.py, xmlplot/gui_qt4.py, xmlplot/plot.py: replaced
	  remaining calls to matplotlib.numerix by calls to numpy; updated
	  errorbar use for new matplotlib version

2008-04-11 18:33  jorn

	* gui.py/: gotm.py, xmlstore/util.py: added: scenario validation
	  before simulation is started via shortcut

2008-04-11 16:03  jorn

	* gui.py/: gotm.py, scenariobuilder.py: added option to simulate
	  scenario directly after loading

2008-04-11 15:31  jorn

	* gui.py/gotm.py: changed Bolding & Burchard company name

2008-04-11 14:16  jorn

	* gui.py/visualizer.py: removed debug strings for output variable
	  selection

2008-04-11 12:59  jorn

	* gui.py/visualizer.py: additional debug strings for output
	  variable selection

2008-04-11 12:51  jorn

	* gui.py/xmlplot/gui_qt4.py: replaced much of custom figure zooming
	  code with MatPlotLib functionality

2008-04-11 12:05  jorn

	* gui.py/visualizer.py: temporary addition: debug string to stdout
	  when output variable selection changes

2008-04-11 11:34  jorn

	* gui.py/commonqt.py: fixed regression bug that caused Next/Back
	  clicks to go unnoticed

2008-04-11 11:15  jorn

	* gui.py/xmlstore/xmlstore.py: fixed: visibility change of grouper
	  without children no longer triggers empty (assert-causing)
	  notifications

2008-04-11 11:13  jorn

	* gui.py/commonqt.py: fixed: rapid clicking of Next/Back no longer
	  clutters window with progress dialogs

2008-04-11 11:00  jorn

	* gui.py/: visualizer.py, xmlstore/gui_qt4.py: changed selection
	  monitoring in output variable tree to use QItemSelectionModel

2008-04-11 10:37  jorn

	* gui.py/: visualizer.py, xmlplot/gui_qt4.py: updated zoom caret to
	  (optionally) use MatPlotLib refactored transforms

2008-04-11 09:55  jorn

	* gui.py/: visualizer.py, xmlplot/gui_qt4.py,
	  xmlplot/schemas/figure/0001.xml, xmlstore/gui_qt4.py: updated
	  plot zooming code to (optionally) use MatPlotLib refactored
	  transforms

2008-04-09 14:01  kb

	* src/airsea/airsea.F90: initialise public variables to 0

2008-04-09 13:56  kb

	* src/: gotm/gotm.F90, meanflow/salinity.F90: GOTM/GETM concensus
	  on signs for precip and evap - both positive into the ocean

2008-04-08 18:09  kb

	* src/airsea/: airsea.F90, fairall.F90: assure valid qh and qe
	  under all circumstance - Bruggeman, Stips

2008-04-06 22:14  jorn

	* gui.py/: xmlplot/gui_qt4.py, xmlstore/gui_qt4.py: improved color
	  and colormap display in plot property editor

2008-04-05 15:10  jorn

	* gui.py/: xmlplot/gui_qt4.py, xmlplot/plot.py,
	  xmlplot/schemas/figure/0001.xml, xmlstore/gui_qt4.py,
	  xmlstore/xmlstore.py: added: colormap sample in plot property
	  editor

2008-04-01 08:50  jorn

	* gui.py/xmlplot/plot.py: added: automatic masking of invalid
	  values (nan, inf) in plots

2008-03-31 07:58  jorn

	* gui.py/xmlstore/gui_qt4.py: fixed regression in tree display
	  (missing root collapse/expand)

2008-03-31 07:44  jorn

	* gui.py/: gotm.py, scenariobuilder.py, core/scenario.py, setup.py,
	  schemas/outputtree.xml, schemas/scenario/gotmgui-0.5.0.xml,
	  visualstudio/2005/gotmlib/fortran.vfproj, xmlstore/gui_qt4.py,
	  xmlstore/xmlstore.py: incorporated new bio structure; added bio
	  page to scenario builder; fixed bug in tree display of scenario
	  properties

2008-03-27 10:30  hb

	* src/meanflow/updategrid.F90: bug fix for w_height correction, bug
	  found by Jorn Bruggeman

2008-03-26 10:16  kb

	* src/Makefile: no need to compile features twice

2008-03-26 10:09  kb

	* src/extras/bio/Makefile: do not compile bio_mab by default

2008-03-26 10:05  kb

	* src/extras/bio/: bio_fasham.F90, bio_iow.F90, bio_mab.F90,
	  bio_npzd.F90, bio_npzd_fe.F90, bio_rolm.F90, bio_sed.F90,
	  bio_template.F90: moved to new directory structure

2008-03-26 09:56  kb

	* src/extras/bio/: Makefile, bio.F90: new directory based bio
	  structure

2008-03-26 09:51  kb

	* src/extras/bio/: fasham/Makefile, fasham/bio_fasham.F90,
	  iow/Makefile, iow/bio_iow.F90, mab/Makefile, mab/bio_mab.F90,
	  npzd/Makefile, npzd/bio_npzd.F90, npzd_fe/Makefile,
	  BIO_MODELS.csh, npzd_fe/bio_npzd_fe.F90, rolm/Makefile,
	  rolm/bio_rolm.F90, sed/Makefile, sed/bio_sed.F90,
	  template/Makefile, template/bio_template.F90, BIO_MODELS.sh: new
	  directory based bio structure

2008-03-25 14:56  jorn

	* gui.py/: core/scenario.py, schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml,
	  visualstudio/2005/setup/setup.vdproj: added: GUI support for iron
	  model (NPZD_Fe) - Inga Hense

2008-03-11 11:16  jorn

	* gui.py/: commonqt.py, scenariobuilder.py, core/scenario.py,
	  xmlstore/gui_qt4.py: minor changes to scenariobuilder layout;
	  reverted to setMargin to ensure Qt 4.2 compatibility; show error
	  for swrmethod==3 without meteo data

2008-03-10 07:53  jorn

	* gui.py/: core/scenario.py, xmlstore/xmlstore.py: added:
	  validation for output time step relative to calculation time step

2008-03-09 16:42  jorn

	* gui.py/: core/scenario.py, scenariobuilder.py,
	  schemas/scenario/gotmgui-0.5.0.xml, xmlplot/data.py,
	  xmlplot/gui_qt4.py, xmlstore/gui_qt4.py: various fixes for
	  editing/validating custom grids; added output resolution to
	  scenario builder options

2008-03-09 12:30  jorn

	* gui.py/: setup.py, core/common.py,
	  visualstudio/2005/gotmlib/fortran.vfproj,
	  visualstudio/2005/setup/setup.vdproj, xmlplot/common.py,
	  xmlplot/data.py: various fixes to re-enable freezing (py2exe)
	  with new xmlstore/xmlplot structure

2008-03-09 12:27  jorn

	* gui.py/core/result.py: improved: result takes source path from
	  container

2008-03-09 12:26  jorn

	* gui.py/xmlstore/xmlstore.py: improved: containers always remember
	  source paths

2008-03-07 18:57  hb

	* src/meanflow/: buoyancy.F90, salinity.F90, temperature.F90,
	  uequation.F90, vequation.F90: AdvBcup changed to oneSided

2008-03-07 14:48  jorn

	* gui.py/simulator.py: changed stack size of worker thread to
	  Mac-compatible multiple of 1024*1024 - Andrew Sharpe

2008-02-20 12:29  kb

	* src/extras/bio/: Makefile, bio.F90, bio_npzd_fe.F90: added NPZD
	  iron model - Weber et. all + Inga Hense

2008-02-20 10:35  kb

	* src/extras/bio/: bio.F90, bio_rolm.F90: added surface fluxes -
	  Yakushev

2008-02-19 08:44  jorn

	* gui.py/: core/scenario.py, schemas/outputtree.xml,
	  schemas/scenario/gotmgui-0.5.0.xml, xmlplot/data.py: added
	  support for ScientificPython < 2.7 as suggested by Richard
	  Hofmeister; cleaned up internal pressure branch of scenario

2008-02-18 21:33  jorn

	* gui.py/: core/common.py, core/scenario.py, scenariobuilder.py,
	  simulator.py, schemas/scenario/gotm-3.2.4.xml,
	  schemas/scenario/gotm-3.3.2.xml, schemas/scenario/gotm-4.0.0.xml,
	  schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml, xmlstore/util.py,
	  xmlstore/xmlstore.py: fixed: missing offsets for tidally forced
	  external pressure and surface elevation (reported by Paul
	  McCloghrie); made printing of debug messages dependent on
	  "verbose" setting

2008-02-12 17:26  jorn

	* gui.py/util/: nml2xml.py, xml2nml.py: updated utils to use new
	  module tree

2008-02-12 13:43  jorn

	* gui.py/: schemas/result/gotmgui.xml,
	  schemas/settings/gotmgui.xml, visualstudio/2005/gotmgui.sln,
	  xmlplot/common.py, xmlstore/xmlstore.py: fixed links between XML
	  schemas, broken after taking out xmlplot

2008-02-12 12:59  jorn

	* gui.py/xmlplot/: common.py, gui_qt4.py, plot.py,
	  schemas/datafilecache/0001.xml, schemas/figure/0001.xml: major
	  reorganization of source tree to allow release of independent
	  xmlstore and xmlplot modules

2008-02-12 12:42  jorn

	* gui.py/: scenariobuilder.py, simulator.py, visualizer.py,
	  core/common.py, xmlstore/.cvsignore, xmlstore/__init__.py,
	  xmlstore/gui_qt4.py, xmlstore/util.py, xmlstore/xmlstore.py:
	  major reorganization of source tree to allow release of
	  independent xmlstore and xmlplot modules

2008-02-12 11:41  jorn

	* gui.py/: batch.py, common.py, commonqt.py, gotm.py,
	  scenariobuilder.py, simulator.py, visualizer.py, data.py,
	  namelist.py, plot.py, report.py, scenario.py, settings.py,
	  simulate.py, xmlstore.py, core/.cvsignore, core/__init__.py,
	  core/common.py, visualstudio/2005/gotmgui.sln, core/namelist.py,
	  core/report.py, core/result.py, core/scenario.py,
	  core/settings.py, core/simulator.py, xmlplot/.cvsignore,
	  xmlplot/__init__.py, xmlplot/common.py, xmlplot/data.py: major
	  reorganization of source tree to allow release of independent
	  xmlstore and xmlplot modules

2008-02-07 14:37  jorn

	* gui.py/: commonqt.py, data.py, xmlstore.py: small improvements
	  for data file handling, useful for external tools

2008-02-05 08:42  jorn

	* gui.py/: commonqt.py, data.py, gotm.py, scenariobuilder.py:
	  better indication of waiting times (progress dialogs, hourglass
	  cursor); import data directory is now remembered

2008-02-04 18:37  kb

	* doc/gotm_pub.bib: added Carniel et. al

2008-02-04 10:54  jorn

	* gui.py/xmlstore.py: fix: removed empty parenthesis in DataType
	  class definition (which broke Python <= 2.4)

2008-02-04 08:38  jorn

	* gui.py/: common.py, commonqt.py, data.py, plot.py, report.py,
	  scenario.py, scenariobuilder.py, simulate.py, visualizer.py,
	  xmlstore.py: expanded validation framework for scenarios; added
	  selective disabling of "Reset view" button; fixed more clean-up
	  bugs

2008-02-01 18:05  jorn

	* gui.py/xmlstore.py: fixed: default plot settings were shown in
	  bold (= customized)

2008-02-01 17:57  jorn

	* gui.py/: common.py, commonqt.py, data.py, gotm.py, report.py,
	  scenario.py, scenariobuilder.py, visualizer.py, xmlstore.py:
	  remove references to unused expensive objects throughout the
	  code; added debug functionality for reference count checks

2008-01-29 08:44  jorn

	* gui.py/: common.py, data.py, plot.py, scenario.py, visualizer.py,
	  xmlstore.py, schemas/outputtree.xml, util/nml2xml.py,
	  util/xml2nml.py: added global routine for getting/setting data
	  file root; updated xml2nml/nml2xml to handle new observation file
	  functionality

2008-01-28 08:50  jorn

	* gui.py/: common.py, commonqt.py, data.py, plot.py, report.py,
	  scenario.py, xmlstore.py, schemas/scenario/gotm-3.2.4.xml,
	  schemas/scenario/gotm-3.3.2.xml, schemas/scenario/gotm-4.0.0.xml,
	  schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml, util/nml2xml.py,
	  util/xml2nml.py, visualstudio/2005/gotmgui.sln: major update of
	  functionality dealing with observations; observation metadata
	  (e.g time range) now cached in scenario file

2008-01-18 09:48  jorn

	* gui.py/Makefile: Added -fPIC switch to fortran/g++ options (good
	  practice for shared libs, required for AMD64)

2008-01-18 09:46  jorn

	* src/Rules.make: Reverted to original CPPFLAGS

2008-01-16 17:01  jorn

	* src/Rules.make: CPPFLAGS from environment is now used as basis if
	  present

2008-01-16 16:58  jorn

	* gui.py/Makefile: fixed: more than one option can now be passed in
	  EXTRA_FFLAGS

2008-01-15 07:51  jorn

	* gui.py/plot.py: reverted to "shading" argument instead of
	  "edgecolors" for pcolor plots

2008-01-14 08:49  jorn

	* gui.py/: plot.py, scenario.py: more plotting options for
	  time-depth plots (e.g. contours only); added different colormaps

2008-01-11 16:43  jorn

	* gui.py/: data.py, plot.py: fixed bug plotting log-transformed
	  series with values <= 0; removed accidental min overload in
	  ScientificPython version check

2008-01-11 15:56  jorn

	* gui.py/: data.py, gotm.py, plot.py,
	  visualstudio/2005/setup/setup.vdproj: added correct Visual C
	  runtimes to installer; moved log transform property from data
	  series to axes; added check for ScientificPython version

2008-01-09 09:04  jorn

	* gui.py/: commonqt.py, data.py, scenario.py, scenariobuilder.py,
	  setup.py, xmlstore.py, schemas/scenario/gotmgui-0.5.0.xml,
	  util/nml2xml.py, visualstudio/2005/setup/.cvsignore,
	  visualstudio/2005/setup/after.bat,
	  visualstudio/2005/setup/setup.suo,
	  visualstudio/2005/setup/setup.vdproj: various changes and fixes
	  working towards public 0.94.0

2008-01-02 16:30  kb

	* src/airsea/fairall.F90: added link to Fairall page

2008-01-02 16:11  kb

	* src/airsea/airsea.F90: fixed w calculation - Kreuz

2008-01-02 15:36  kb

	* src/airsea/airsea.F90: fixed indexing

2008-01-02 15:35  kb

	* compilers/compiler.GFORTRAN: fairall.F90 compiles with gfortran -
	  Kreus

2007-12-21 13:38  kb

	* src/airsea/: airsea_variables.F90, fairall.F90, kondo.F90: added
	  precip/evap to kondo + cleaned

2007-12-19 11:41  kb

	* src/airsea/fairall.F90: fixed m/s --> kg/m2/s conversion bug -
	  Stips

2007-12-16 18:56  jorn

	* gui.py/visualstudio/2005/gotmlib/: .cvsignore,
	  c++.vcproj.laptop-jorn.Jorn.user, fortran.u2d: further clean-up
	  of visual studio directory

2007-12-16 18:00  jorn

	* gui.py/: data.py, scenario.py, scenariobuilder.py, xmlstore.py,
	  schemas/scenario/gotm-3.2.4.xml, schemas/scenario/gotm-3.3.2.xml,
	  schemas/scenario/gotm-4.0.0.xml, schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml, util/nml2xml.py: more
	  detailed scenario validation; split of air-sea interaction page

2007-12-14 23:33  jorn

	* gui.py/: gotm.py, scenario.py, util/nml2xml.py: fixed parse bug
	  in nml2xml; added progress indicator for namelist export

2007-12-14 15:21  jorn

	* gui.py/: common.py, commonqt.py, data.py, gotm.py, report.py,
	  scenario.py, scenariobuilder.py, xmlstore.py,
	  schemas/scenario/gotm-4.0.0.xml: detailed progress shown when
	  loading/saving scenarios takes over 1 second

2007-12-12 16:56  jorn

	* gui.py/: data.py, scenario.py, scenariobuilder.py: scenario
	  builder support for shortwave radiation; faster parsing of
	  observation files

2007-12-12 14:42  jorn

	* gui.py/: scenario.py, visualstudio/2005/gotmgui.sln,
	  visualstudio/2005/gotmlib/fortran.u2d: additional support for
	  separate shortwave radiation (conversion between 4.1.0 and 4.0.0)

2007-12-11 14:21  kb

	* doc/Makefile: updated target machine for uploads

2007-12-11 13:41  lars

	* src/extras/bio/bio_rolm.F90: removed strange characters

2007-12-11 12:22  lars

	* src/extras/bio/bio_rolm.F90: small bug-fixes for documentation

2007-12-11 12:05  lars

	* src/airsea/airsea.F90: corrected underscores in documentation

2007-12-11 12:00  lars

	* src/extras/bio/Makefile: commented mussels in DOCSRC

2007-12-10 16:08  jorn

	* gui.py/visualstudio/2005/: .cvsignore, gotmlib/.cvsignore,
	  gotmlib/gotmlib.suo, gotmgui-cvs.suo, gotmgui.suo: cleaned up
	  Visual Studio directories

2007-12-10 15:40  jorn

	* gui.py/: data.py, gotm.py, scenario.py, scenariobuilder.py,
	  simulator.py, xmlstore.py, schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml,
	  visualstudio/2005/gotmgui.suo,
	  visualstudio/2005/gotmlib/gotmlib.suo: first support for separate
	  shortwave radiation

2007-12-09 11:25  kb

	* src/airsea/airsea.F90: introduced swr_method: 1->constant,
	  2->from file, 3->equation

2007-12-08 19:56  jorn

	* gui.py/: scenario.py, schemas/outputtree.xml,
	  schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml,
	  visualstudio/2005/gotmgui.sln, visualstudio/2005/gotmgui.suo,
	  visualstudio/2005/setup/.cvsignore,
	  visualstudio/2005/setup/WiChangeValue.vbs,
	  visualstudio/2005/setup/WiRunSQL.vbs,
	  visualstudio/2005/setup/after.bat,
	  visualstudio/2005/setup/setup.sln,
	  visualstudio/2005/setup/setup.suo,
	  visualstudio/2005/setup/setup.vdproj: added support for new
	  precipitation/evaporation structure; converted setup project to
	  Visual Studio 2005

2007-12-08 18:08  jorn

	* gui.py/: scenario.py, visualstudio/2005/gotmgui-cvs.suo,
	  visualstudio/2005/gotmgui.sln, visualstudio/2005/gotmgui.suo,
	  visualstudio/2005/gotmlib/.cvsignore,
	  visualstudio/2005/gotmlib/c++.vcproj,
	  visualstudio/2005/gotmlib/c++.vcproj.laptop-jorn.Jorn.user,
	  visualstudio/2005/gotmlib/fortran.u2d,
	  visualstudio/2005/gotmlib/fortran.vfproj,
	  visualstudio/2005/gotmlib/gotmlib.sln,
	  visualstudio/2005/gotmlib/gotmlib.suo,
	  visualstudio/2005/gotmlib/version.h: fixed bug in scenario
	  validation; added files for building under Visual Studio 2005

2007-12-07 11:12  kb

	* src/: airsea/airsea.F90, gotm/gotm.F90, meanflow/salinity.F90,
	  output/ncdfout.F90: replaced p_e with precip and included evap

2007-12-07 11:10  kb

	* src/observations/observations.F90: allow longer lines in obs
	  files

2007-11-07 12:14  kb

	* src/extras/bio/: Makefile, bio.F90: no mussesl yet

2007-11-02 11:58  jorn

	* src/output/ncdfout.F90: Made set_no public to allow other modules
	  to save to NetCDF directly

2007-11-02 10:51  jorn

	* src/observations/observations.F90: Fixed: error on compiling
	  without bio support

2007-10-31 09:04  jorn

	* gui.py/: commonqt.py, data.py, plot.py, scenario.py,
	  scenariobuilder.py, xmlstore.py: add validation framework for
	  xmlstore: data files are parsed and validated, custom constraints
	  (e.g., start<stop) are checked

2007-10-29 21:03  jorn

	* gui.py/: commonqt.py, data.py, plot.py: fixed bug in FigureDialog
	  causing crash; modified NetCDF routines to handle files with
	  minimal information (no units, long name)

2007-10-19 07:23  jorn

	* gui.py/: data.py, plot.py: explicit colorbar limits now are
	  respected again

2007-10-18 08:40  jorn

	* gui.py/: commonqt.py, data.py, gotm.py, plot.py, report.py,
	  scenario.py, scenariobuilder.py, simulate.py, xmlstore.py,
	  schemas/report/gotmgui.xml, schemas/scenario/gotm-3.2.4.xml,
	  schemas/scenario/gotm-3.3.2.xml, schemas/scenario/gotm-4.0.0.xml,
	  schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml, util/nml2xml.py,
	  util/xml2nml.py: another cleanup of xmlstore

2007-10-15 08:45  jorn

	* gui.py/: common.py, commonqt.py, data.py, gotm.py, plot.py,
	  scenario.py, scenariobuilder.py, xmlstore.py, util/nml2xml.py,
	  util/xml2nml.py: fixed bug causing errors when switching between
	  figures; extensive revision of xmlstore

2007-10-10 08:37  jorn

	* gui.py/: scenario.py, xmlstore.py: added method for incorporating
	  default values in existing xmlstore.

2007-10-08 10:39  jorn

	* gui.py/: batch.py, common.py, commonqt.py, data.py, plot.py,
	  report.py, scenario.py, settings.py, visualizer.py, xmlstore.py,
	  schemas/outputtree.xml, schemas/report/gotmgui.xml,
	  schemas/result/gotmgui.xml, schemas/scenario/gotm-3.2.4.xml,
	  schemas/scenario/gotm-3.3.2.xml, schemas/scenario/gotm-4.0.0.xml,
	  schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml, schemas/settings/gotmgui.xml:
	  improved plot zooming functionality; improved XML schema
	  conformation to XSD standard where possible

2007-10-05 17:06  jorn

	* gui.py/: commonqt.py, plot.py: added: zoom-based change of axes
	  ranges

2007-10-05 10:04  jorn

	* gui.py/plot.py: added legend positioning option

2007-10-04 20:35  jorn

	* gui.py/: commonqt.py, plot.py, simulator.py: plot: support for
	  legend, cycling through line colors, colors in property editor

2007-10-03 08:14  jorn

	* gui.py/: plot.py, scenariobuilder.py, xmlstore.py,
	  schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml: partial support for minor
	  tick marks; fixed bug preventing saving of recently used files;
	  added extra humidity option

2007-10-02 12:14  kbk

	* src/airsea/: airsea_variables.F90, fairall.F90, humidity.F90:
	  fixed rhoa calculation - rgas in airsea_variables module

2007-10-01 14:44  kbk

	* src/extras/bio/: Makefile, bio.F90, bio_rolm.F90, bio_var.F90:
	  added RedOxLayer Model (ROLM)

2007-09-26 15:48  jorn

	* gui.py/: common.py, xmlstore.py: added: pretty-printing of XML
	  store contents

2007-09-26 08:31  jorn

	* gui.py/: commonqt.py, gotm.py: added "Close" button to figure
	  dialog on non-Windows platforms

2007-09-26 07:51  jorn

	* gui.py/common.py: fixed bug: matplotlib.dates not available if
	  API is accessed from utility scripts

2007-09-25 18:56  jorn

	* gui.py/: plot.py, scenario.py, scenariobuilder.py, simulate.py,
	  simulator.py, xmlstore.py, schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml: improved in-code
	  documentation; support for new airsea structure

2007-09-25 12:06  kbk

	* src/airsea/: Makefile, airsea.F90, airsea_fluxes.F90,
	  airsea_variables.F90, back_radiation.F90, fairall.F90,
	  humidity.F90, kondo.F90, short_wave_radiation.F90: modularized
	  the airsea module - added Fairall method

2007-09-25 10:54  kbk

	* doc/gotm.bib: added air-sea relevant references

2007-09-21 16:49  jorn

	* gui.py/: common.py, plot.py, xmlstore.py: added support for grid
	  lines in plot, templates in XML schemas (for e.g. line and font
	  properties)

2007-09-21 11:51  jorn

	* gui.py/: data.py, plot.py: explicit warning if a data store that
	  is part of a merge does not contain variable to retrieve

2007-09-21 10:57  jorn

	* gui.py/: batch.py, common.py, commonqt.py, data.py, gotm.py,
	  namelist.py, plot.py, report.py, scenario.py, scenariobuilder.py,
	  settings.py, simulate.py, visualizer.py, xmlstore.py,
	  schemas/outputtree.xml: added functionality for calculating
	  variable statistics (mean, sd, percentiles) needed for ensemble
	  tool. Various changes based on feedback from SOPRAN school, Rob
	  Hetland

2007-09-13 14:12  hb

	* src/airsea/airsea.F90: fixed sign in momentum flux calculation

2007-09-13 14:06  hb

	* src/airsea/airsea.F90: fixed sign in momentum flux calculation

2007-09-11 15:24  jorn

	* src/observations/: get_bio_profiles.F90, get_eps_profile.F90,
	  get_o2_profile.F90, get_s_profile.F90, get_t_profile.F90,
	  get_vel_profile.F90: added stop after fatal error reading profile

2007-09-11 13:40  jorn

	* src/extras/bio/bio_npzd.F90: corrected NPZD units

2007-09-10 17:20  jorn

	* gui.py/: commonqt.py, scenario.py: fixed bugs: error if non-XML
	  files in default scenario directory, error on editing time step
	  in advanced page

2007-09-09 08:42  jorn

	* gui.py/: common.py, commonqt.py, data.py, plot.py, scenario.py,
	  scenariobuilder.py, schemas/scenario/gotm-3.2.4.xml,
	  schemas/scenario/gotm-3.3.2.xml, visualstudio/setup/setup.suo,
	  visualstudio/setup/setup.vdproj: added: figure export settings
	  (size, resolution), import namelists from zip, more options for
	  line/marker plots

2007-09-03 08:57  jorn

	* gui.py/: commonqt.py, data.py, plot.py, xmlstore.py: support for
	  general COARDS NetCDF convention; support for merging of
	  DataStores (e.g. .nc files) and averaging them over one dimension

2007-08-30 10:59  jorn

	* gui.py/Makefile: better documented makefile; makefile support for
	  Python/NumPy paths in environment variables

2007-08-19 11:54  jorn

	* gui.py/: common.py, commonqt.py, data.py, plot.py, simulator.py,
	  xmlstore.py: fixed bug that hid axes boundaries in detached
	  figures; various xml framework changes that improve efficiency

2007-08-19 10:25  jorn

	* src/output/ncdfout.F90: fixed typo: celcius -> celsius

2007-08-17 18:46  jorn

	* gui.py/data.py: fixed bug preventing plotting of time,depth
	  observations

2007-08-17 18:00  jorn

	* gui.py/data.py: fixed bug that prevented plotting of observations

2007-08-17 17:24  jorn

	* gui.py/: batch.py, commonqt.py, data.py, gotm.py, plot.py,
	  report.py, scenario.py, scenariobuilder.py, settings.py,
	  visualizer.py, xmlstore.py, reporttemplates/default/index.xml,
	  reporttemplates/default/main.css,
	  reporttemplates/default/main.js, schemas/report/gotmgui.xml,
	  schemas/scenario/gotmgui-0.5.0.xml, visualstudio/setup/setup.suo,
	  visualstudio/setup/setup.vdproj: many plotting improvements;
	  observations now included in reports

2007-07-23 20:45  jorn

	* gui.py/: commonqt.py, data.py, gotm.py, scenariobuilder.py,
	  xmlstore.py, schemas/scenario/gotmgui-0.5.0.xml: cleaner scenario
	  builder pages; updated rules for hide/show of turbulence
	  parameters

2007-07-23 13:28  hb

	* src/turbulence/: fk_craig.F90, turbulence.F90: cw for
	  Craig-Banner wave breaking from namelist now used in fk_craig.F90

2007-07-17 09:03  jorn

	* gui.py/: commonqt.py, scenario.py, scenariobuilder.py,
	  schemas/outputtree.xml, schemas/scenario/gotmgui-0.5.0.xml: added
	  temperature and (initial) turbulence scenario builder pages

2007-07-13 10:57  jorn

	* gui.py/: commonqt.py, scenario.py, scenariobuilder.py,
	  xmlstore.py, schemas/outputtree.xml,
	  schemas/scenario/gotmgui-0.5.0.xml: updated and additional
	  scenario builder pages; introduction of time span data type

2007-07-06 15:48  jorn

	* gui.py/: commonqt.py, data.py, gotm.py, plot.py, report.py,
	  scenario.py, scenariobuilder.py, simulator.py, visualizer.py,
	  xmlstore.py, schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml, util/nml2xml.py: support for
	  other data files (custom grid, seagrass) in editor; new pages in
	  scenario editor; various bugfixes

2007-06-29 11:56  jorn

	* gui.py/: commonqt.py, gotm.py, scenario.py, scenariobuilder.py,
	  visualizer.py, xmlstore.py: added Tools button for Save As and
	  export of GUI scenarios to namelist files.

2007-06-28 18:59  jorn

	* gui.py/: commonqt.py, data.py, schemas/scenario/gotm-3.2.4.xml,
	  schemas/scenario/gotm-3.3.2.xml, schemas/scenario/gotm-4.0.0.xml,
	  schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml: fix: added observation height
	  to external pressure variables; more efficient assertion error
	  capturing

2007-06-28 08:53  jorn

	* gui.py/: commonqt.py, data.py, gotm.py, plot.py, scenario.py,
	  visualizer.py, xmlstore.py, schemas/scenario/gotm-4.1.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml,
	  visualstudio/setup/.cvsignore,
	  visualstudio/setup/WiChangeValue.vbs,
	  visualstudio/setup/after.bat, visualstudio/setup/setup.suo,
	  visualstudio/setup/setup.vdproj: initial observation editor; code
	  for handling errors from other threads; many bugfixes

2007-06-27 15:05  kbk

	* doc/gotm_pub.bib: added Maar et. all, Bruggeman and Kooijman

2007-06-26 20:24  jorn

	* src/observations/observations.F90: fixed typos related to
	  biological profiles

2007-06-26 20:24  jorn

	* src/airsea/airsea.F90: made precipitation-evaporation clean-up
	  independent of use of meteo data

2007-06-19 12:38  kbk

	* src/: gotm/gotm.F90, observations/Makefile,
	  observations/get_bio_profiles.F90, observations/observations.F90:
	  initialise biological profiles from external file

2007-05-21 16:08  kbk

	* src/airsea/airsea.F90: short wave radiation limitation suggested
	  by Adolf Stips

2007-05-18 20:05  hb

	* src/airsea/airsea.F90: Bug in short-wave radiation removed

2007-05-01 21:46  jorn

	* gui.py/: batch.py, common.py, commonqt.py, data.py, gotm.py,
	  gotmgui.ico, plot.py, report.py, scenario.py, scenariobuilder.py,
	  setup.py, simulate.py, simulator.py, visualizer.py, xmlstore.py,
	  util/nml2xml.py, util/xml2nml.py, visualstudio/setup/.cvsignore,
	  visualstudio/setup/WiRunSQL.vbs, visualstudio/setup/after.bat,
	  visualstudio/setup/setup.sln, visualstudio/setup/setup.suo,
	  visualstudio/setup/setup.vdproj: batch simulation utility; error
	  catching in GUI

2007-04-23 08:58  kbk

	* doc/: html.tex, letter.tex: included bio in documentation -
	  backport from Lars

2007-04-20 09:14  lars

	* doc/: html.tex, letter.tex: included bio-section

2007-04-18 14:00  kbk

	* Makefile: new devel release - 4.1.0

2007-04-18 13:57  kbk

	* release.sh: only releases from gate

2007-04-18 13:45  kbk

	* release.sh: hard-coded branch for stable release

2007-04-18 12:29  kbk

	* Makefile: new stable release - v4.0.0

2007-04-18 11:48  jorn

	* gui.py/reporttemplates/default/: index.xml, main.js: small bug
	  fixes in default report template (javascript error in IE, failure
	  to recognize utf-8 encoding)

2007-04-18 11:31  jorn

	* gui.py/: common.py, commonqt.py, gotm.py, plot.py,
	  scenariobuilder.py, setup.py, simulator.py, xmlstore.py: support
	  for storing colors in XML (used for line color of plots); fixed
	  crash on exit; added introduction text; updated py2exe setup to
	  handle new directory structure

2007-04-18 09:48  kbk

	* doc/: html.tex, letter.tex: updated to Version 4.0

2007-04-18 09:36  kbk

	* src/extras/bio/bio.F90: mussels will be developed in 4.1.x

2007-04-18 09:35  kbk

	* src/extras/bio/bio_sed.F90: to avoid F95 warning

2007-04-18 09:24  kbk

	* src/extras/bio/: Makefile, mussels.F90: mussels will be developed
	  in 4.1.x

2007-04-18 09:14  kbk

	* src/extras/sediment/sediment.F90: .inp -> .nml

2007-04-18 09:11  kbk

	* doc/Makefile: not including sediment.tex

2007-04-18 08:57  kbk

	* src/extras/bio/bio.F90: Lagrangian simulations disabled by
	  default

2007-04-18 08:54  kbk

	* compilers/: compiler.IFORT: netcdf.inc stumbles on -e95

2007-04-13 14:40  jorn

	* gui.py/: commonqt.py, data.py, plot.py, report.py,
	  scenariobuilder.py, visualizer.py, xmlstore.py,
	  schemas/report/gotmgui.xml, schemas/result/gotmgui.xml: report
	  settings are saved within result

2007-04-13 09:51  jorn

	* gui.py/: data.py, namelist.py, plot.py, report.py, scenario.py,
	  visualizer.py, xmlstore.py, util/nml2xml.py: added: nml2xml can
	  check data file validity (switch -check); separated report
	  generator code; fixed contour counting

2007-04-10 18:20  jorn

	* gui.py/plot.py: updated plot text scaling to handle relative font
	  sizes

2007-04-10 08:55  jorn

	* gui.py/: commonqt.py, gotm.py, plot.py, scenariobuilder.py,
	  settings.py, visualizer.py, xmlstore.py,
	  schemas/settings/gotmgui.xml: store paths to recently used
	  scenarios and results; option to change the number of contour
	  lines

2007-04-06 15:59  jorn

	* gui.py/: common.py, commonqt.py, data.py, plot.py, visualizer.py,
	  xmlstore.py, schemas/outputtree.xml: support for plotting single
	  profiles (e.g., wave breaking), option to resize fonts in report
	  figures

2007-03-23 12:23  jorn

	* gui.py/: commonqt.py, data.py, plot.py, scenariobuilder.py,
	  visualizer.py, xmlstore.py, schemas/scenario/gotmgui-0.5.0.xml:
	  respects NetCDF missing_value attribute; result can be saved as
	  .nc

2007-03-22 19:42  jorn

	* gui.py/schemas/scenario/: gotm-4.0.0.xml, gotmgui-0.5.0.xml:
	  support for seagrass

2007-03-21 07:59  jorn

	* gui.py/: commonqt.py, xmlstore.py: fixed bug preventing storage
	  of individual files in ZIP archive

2007-03-20 19:57  jorn

	* gui.py/: scenario.py, schemas/scenario/gotmgui-0.5.0.xml,
	  util/nml2xml.py, util/xml2nml.py: updated utilities to work with
	  new framework; corrected hide/show of Von Karman constant

2007-03-20 08:36  jorn

	* gui.py/: data.py, visualizer.py: changed figure storage to use
	  position in tree rather than (potential non-unique) variable name

2007-03-19 22:51  jorn

	* gui.py/: .cvsignore, common.py, commonqt.py, data.py,
	  figuretemplate.xml, gotm.py, outputtree.xml, plot.py,
	  scenario.py, scenariobuilder.py, settings.py, settingsschema.xml,
	  visualizer.py, xmlstore.py, schemas/outputtree.xml,
	  schemas/result/gotmgui.xml, schemas/scenario/gotm-3.2.4.xml,
	  schemas/scenario/gotm-3.3.2.xml, schemas/scenario/gotm-4.0.0.xml,
	  schemas/scenario/gotmgui-0.5.0.xml, schemas/settings/gotmgui.xml:
	  rewrote figure settings storage to use our generic XML framework;
	  stored figure settings now used in reports

2007-03-15 11:52  kbk

	* src/gotm/gotm.F90: proper cleaning after simulation

2007-03-15 09:34  kbk

	* src/util/ode_solvers.F90: added description of call to
	  ode_solver()

2007-03-15 09:10  jorn

	* gui.py/: commonqt.py, plot.py: fixed: error on detach

2007-03-15 09:05  jorn

	* gui.py/: commonqt.py, data.py, xmlstore.py: fixed crash on
	  revisiting customized figures

2007-03-15 08:47  kbk

	* doc/: a4.tex, guiIntro.tex, html.tex, letter.tex: section on GUI

2007-03-14 13:46  kbk

	* src/extras/bio/: bio.F90, bio_save.F90, bio_var.F90: proper
	  cleaning after simulation

2007-03-13 09:11  jorn

	* gui.py/: common.py, commonqt.py, data.py, figuretemplate.xml,
	  gotm.py, namelist.py, outputtree.xml, plot.py, scenario.py,
	  scenariobuilder.py, xmlstore.py: GUI scenario changes, made
	  figure properties use framework for scenario properties

2007-03-06 08:51  jorn

	* gui.py/: common.py, commonqt.py, data.py, figuretemplate.xml,
	  plot.py, scenario.py, visualizer.py, xmlstore.py: figure settings
	  now cached in result (not used in report yet)

2007-03-02 15:11  jorn

	* gui.py/Makefile: Repaired stop catching in Linux?

2007-03-02 13:33  jorn

	* gui.py/: common.py, commonqt.py: major code restructuring; use of
	  temporary files strongly reduced- part 2

2007-03-02 13:32  jorn

	* gui.py/: common.py, commonqt.py, data.py, gotm.py, namelist.py,
	  outputtree.xml, plot.py, scenario.py, scenariobuilder.py,
	  scenarioformats.py, settings.py, setup.py, simulator.py,
	  visualizer.py, xmlstore.py, reporttemplates/default/main.js:
	  major code restructuring; use of temporary files strongly reduced

2007-02-09 17:34  jorn

	* gui.py/: commonqt.py, setup.py: fix: re-enabled figures in
	  report; py2exe support for win32com

2007-02-09 16:46  jorn

	* gui.py/: commonqt.py, setup.py, visualizer.py: bulk selection of
	  variables for in reports

2007-02-09 15:33  jorn

	* gui.py/: common.py, commonqt.py, gotm.py, scenariobuilder.py,
	  settingsschema.xml, setup.py: store program settings in
	  configuration file; fixed inability to select "other" variables
	  for report

2007-02-09 13:50  jorn

	* gui.py/: .cvsignore, common.py, scenariobuilder.py, setup.py,
	  visualizer.py: more forgiving namelist parsing in GUI; setup file
	  for Windows/py2exe

2007-02-09 12:39  jorn

	* gui.py/: common.py, visualizer.py: CVS-related directories are
	  now ignored

2007-02-09 12:20  jorn

	* gui.py/: common.py, commonqt.py, gotm.py, outputtree.xml,
	  scenariobuilder.py, varstructure.xml, visualizer.py,
	  reporttemplates/default/index.xml,
	  reporttemplates/default/main.css,
	  reporttemplates/default/main.js, util/xml2nml.py: added report
	  generator

2007-02-02 12:20  jorn

	* gui.py/: common.py, commonqt.py, figuretemplate.xml,
	  scenariobuilder.py, scenarioformats.py, simulator.py: improved
	  conversion between scenario versions; cleaner GUI scenario; use
	  of default values for scenarios

2007-01-26 15:12  jorn

	* gui.py/: common.py, simulator.py: skip import of unused
	  namelists; eliminated need for copying NetCDF output

2007-01-26 12:55  jorn

	* gui.py/: .cvsignore, common.py, commonqt.py, gotmmodule.cpp,
	  scenariobuilder.py, scenarioformats.py, simulator.py,
	  util/nml2xml.py: support for bio modules; improved namelist
	  variable parsing; cleaner simulator page

2007-01-19 12:33  jorn

	* gui.py/: common.py, gotm.py, varstructure.xml: use pynetcdf
	  instead of pycdf for NetCDF support; removed Numeric dependencies
	  (now numpy-only)

2007-01-19 10:41  jorn

	* gui.py/f2py/: .cvsignore, f2py.py, f2py1.bat, f2py4.bat,
	  readme.txt: f2py settings

2007-01-19 10:40  jorn

	* gui.py/simulator.py: GOTM library version obtained dynamically

2007-01-19 10:40  jorn

	* gui.py/: common.py, commonqt.py, gotm-f2pywrappers2.F90,
	  gotmmodule.cpp, gui_util.F90, scenarioformats.py,
	  util/xml2nml.py: added f2py settings (directory f2py); improved
	  scenario structure in advanced page of GUI

2007-01-18 08:39  hb

	* doc/gotm_pub.bib: Published papers updated

2007-01-18 08:38  hb

	* doc/cases.tex: Description of nns_seasonal updated

2007-01-12 15:56  jorn

	* gui.py/: .cvsignore, common.py, scenarioformats.py,
	  util/nml2xml.py, util/xml2nml.py: support for gotm 4.0.0 (except
	  for biology)

2007-01-12 12:49  jorn

	* gui.py/: .cvsignore, common.py: fixed bug in namelist quote
	  parsing

2007-01-12 12:24  jorn

	* gui.py/: nml2xml.py, xml2nml.py: removed conversion utilities
	  from root

2007-01-12 12:21  jorn

	* gui.py/util/: nml2xml.py, xml2nml.py: moved conversion utilities
	  to util subdir; more elaborate usage instructions for utils.

2007-01-12 11:40  jorn

	* gui.py/: common.py, commonqt.py: objected-oriented namelist
	  parsing; correct handling of quotes in namelists

2007-01-11 16:56  jorn

	* gui.py/: common.py, nml2xml.py, scenarioformats.py, xml2nml.py:
	  improved namelist parsing; utilities for conversion between
	  gotm-gui xml and gotm namelists

2007-01-09 21:51  hb

	* doc/gotm_pub.bib: publication added

2007-01-08 22:36  hb

	* doc/gotm.bib: Some references updated.

2007-01-08 22:35  hb

	* doc/cases.tex: .inp changed to .nml

2007-01-07 18:12  kbk

	* src/extras/bio/process_model.F90: not needed with new
	  ode_solvers.F90

2007-01-07 18:10  kbk

	* src/extras/bio/ode_solvers.F90: moved to the util directoryy

2007-01-07 14:21  kbk

	* src/airsea/airsea.F90: namelist file extension changed .inp -->
	  .nml

2007-01-06 12:57  kbk

	* src/: observations/observations.F90, gotm/gotm.F90,
	  meanflow/extpressure.F90: PressMethod --> ext_press_mode

2007-01-06 12:49  kbk

	* src/: util/eqstate.F90, util/ode_solvers.F90, extras/bio/bio.F90,
	  extras/bio/bio_fasham.F90, extras/bio/bio_iow.F90,
	  extras/bio/bio_mab.F90, extras/bio/bio_npzd.F90,
	  extras/bio/bio_sed.F90, extras/bio/bio_template.F90,
	  extras/bio/process_model.F90, extras/seagrass/seagrass.F90,
	  meanflow/extpressure.F90, meanflow/intpressure.F90,
	  meanflow/salinity.F90, observations/analytical_profile.F90,
	  observations/get_o2_profile.F90, observations/observations.F90,
	  observations/read_extinction.F90, turbulence/algebraiclength.F90,
	  turbulence/cmue_ma.F90, turbulence/cmue_sg.F90,
	  turbulence/compute_cpsi3.F90, turbulence/compute_rist.F90,
	  turbulence/dissipationeq.F90, turbulence/kpp.F90,
	  turbulence/lengthscaleeq.F90, turbulence/tkealgebraic.F90,
	  turbulence/turbulence.F90, meanflow/temperature.F90,
	  meanflow/updategrid.F90: namelist file extension changed .inp -->
	  .nml

2007-01-04 14:21  hb

	* doc/: cases.tex, gotm.bib: Estuary scenario description extended

2007-01-04 13:54  hb

	* src/extras/bio/bio.F90: ifdef LAGRANGE removed

2007-01-04 13:19  kbk

	* src/observations/get_wave.F90: updated documentation

2007-01-04 13:08  kbk

	* src/observations/: Makefile, get_wave.F90, observations.F90:
	  adding surface waves

2007-01-04 11:03  kbk

	* src/extras/bio/bio_save.F90: fixed vector length in store_data()

2007-01-03 22:45  hb

	* src/meanflow/meanflow.F90: LaTeX bug fix in documentation

2006-12-17 21:24  jorn

	* gui.py/: common.py, commonqt.py, figuretemplate.xml, gotm.py,
	  logo.png, scenarioformats.py, simulator.py, visualizer.py:
	  plotting of input data files, versions on introduction page,
	  added logo to top of window

2006-12-12 09:19  jorn

	* gui.py/: common.py, commonqt.py, figuretemplate.xml, gotm.py,
	  scenarioformats.py, visualizer.py: plotting varying sea surface
	  elevation, reset of plot properties, collection of grid
	  properties in scenario

2006-12-08 07:50  kbk

	* src/airsea/airsea.F90: fixed September in yday - Chris Locke

2006-12-08 07:37  kbk

	* Makefile: new stable release - v3.2.5

2006-12-08 07:36  kbk

	* release.sh: also put ChangeLog on server

2006-12-08 07:35  kbk

	* src/airsea/airsea.F90: fixed September in yday - Chris Locke

2006-12-07 17:50  hb

	* src/meanflow/extpressure.F90: Program abortion introduced for
	  PressHeight<=0 when PressMethod=1

2006-12-07 17:47  hb

	* src/observations/get_ext_pressure.F90: Bug removed for
	  PressMethod=1

2006-12-05 11:59  hb

	* src/extras/bio/bio_iow.F90: Corrections by Ivan Kuznetzov (IOW):
	  Redfield ratio for phosphate release added and bug fixed

2006-12-04 09:03  jorn

	* gui.py/: common.py, commonqt.py, figuretemplate.xml,
	  gotmmodule.c, scenariobuilder.py, scenarioformats.py,
	  scenariotemplate.xml, simulator.py, visualizer.py: support for
	  different scenario versions; various small fixes

2006-12-04 08:33  jorn

	* gui.py/common.py: testing commit with TortoiseCVS

2006-12-03 14:54  hb

	* src/extras/seagrass/seagrass.F90: No extra production above
	  seagrass

2006-12-03 14:53  hb

	* doc/: gotm.bib, gotm_pub.bib: Burchard et al. 2006, JMS updated

2006-12-03 14:48  hb

	* doc/cases.tex: seagrass scenario included

2006-11-29 10:31  kbk

	* src/output/output.F90: output units made public

2006-11-27 16:26  kbk

	* src/meanflow/: meanflow.F90, updategrid.F90: initialise grid
	  depending on grid_ready

2006-11-27 16:13  kbk

	* src/output/ncdfout.F90: re-initialse first and set_no when
	  closing .nc file

2006-11-27 11:08  kbk

	* src/: airsea/airsea.F90, gotm/gotm.F90: use var init_saved_vars
	  to initialise saved variables - air_sea_interaction -> do_air_sea

2006-11-27 10:25  kbk

	* src/observations/: get_eps_profile.F90, get_ext_pressure.F90,
	  get_int_pressure.F90, get_o2_profile.F90, get_s_profile.F90,
	  get_t_profile.F90, get_vel_profile.F90, get_w_adv.F90,
	  get_zeta.F90, observations.F90: use logical var init_saved_vars
	  to initialise saved variables

2006-11-27 09:44  kbk

	* src/meanflow/meanflow.F90: de-allocate ga

2006-11-24 16:52  kbk

	* gui.py/: Makefile, common.py, commonqt.py, figuretemplate.xml,
	  gotm-f2pywrappers2.F90, gotm.py, gotmmodule.c, gotmmodule.cpp,
	  gui_util.F90, scenariobuilder.py, scenariotemplate.xml,
	  simulator.py, varstructure.xml, visualizer.py: initial support
	  for Python based GOTM GUI

2006-11-24 16:13  kbk

	* src/: gotm/gotm.F90, meanflow/meanflow.F90,
	  meanflow/updategrid.F90, observations/observations.F90,
	  turbulence/turbulence.F90, util/tridiagonal.F90: de-allocate
	  memory and close open files

2006-11-24 08:26  kbk

	* doc/: gotm_pub.bib, make_pub_list: added GOTM related publication
	  list

2006-11-21 16:21  kbk

	* src/: extras/seagrass/seagrass.F90, gotm/gotm.F90: seagrass
	  working again

2006-11-20 18:26  kbk

	* doc/gotm.bib, src/meanflow/friction.F90,
	  src/meanflow/meanflow.F90: [Cc]harnok -> [Cc]harnock - A. Jenkins

2006-11-17 08:13  kbk

	* src/: gotm/gotm.F90, airsea/airsea.F90, extras/bio/bio.F90,
	  extras/bio/bio_var.F90: rho amd wind-speed available via bio_var

2006-11-14 11:54  kbk

	* src/util/ode_solvers.F90: fixed second call to right_hand_side()
	  in emp_2 - Bruggeman

2006-11-13 15:44  kbk

	* src/util/ode_solvers.F90: logical variable first handed correctly

2006-11-12 20:42  hb

	* src/: extras/bio/bio.F90, extras/bio/bio_var.F90, gotm/gotm.F90:
	  vertical advection due to physical vertical velocities enabled
	  for the bio module

2006-11-06 14:36  hb

	* src/: meanflow/buoyancy.F90, meanflow/salinity.F90,
	  meanflow/temperature.F90, meanflow/uequation.F90,
	  meanflow/vequation.F90, extras/bio/bio.F90, util/adv_center.F90:
	  Option for conservative vertical advection added to adv_center

2006-10-26 15:12  kbk

	* src/: Rules.make, extras/bio/Makefile, extras/bio/bio.F90,
	  extras/bio/bio_fasham.F90, extras/bio/bio_iow.F90,
	  extras/bio/bio_mab.F90, extras/bio/bio_npzd.F90,
	  extras/bio/bio_save.F90, extras/bio/bio_sed.F90,
	  extras/bio/bio_template.F90, extras/bio/bio_var.F90,
	  gotm/gotm.F90: updated bio models to new ode_solver

2006-10-26 12:12  kbk

	* src/: util/Makefile, util/ode_solvers.F90, extras/bio/Makefile:
	  ode_solvers.F90 moved - and changed interface

2006-04-03 14:00  kbk

	* Makefile: new stable release - v3.2.4

2006-04-03 10:39  lars

	* src/meanflow/: uequation.F90, vequation.F90: fixed bug in
	  relaxation times - Thanks to Adolf Stips

2006-04-03 10:33  lars

	* src/meanflow/: uequation.F90, vequation.F90: fixed bug in
	  relaxation times - Thanks to Adolf Stips

2006-03-27 13:38  kbk

	* src/extras/bio/: bio_iow.F90, bio_mab.F90: right sign on surface
	  fluxes

2006-03-23 13:26  kbk

	* Makefile: new stable release - v3.2.3

2006-03-23 13:13  kbk

	* compilers/compiler.DECFOR, compilers/compiler.FUJITSU,
	  compilers/compiler.GFORTRAN, compilers/compiler.IFC,
	  compilers/compiler.IFORT, compilers/compiler.NAG,
	  compilers/compiler.PGF90, compilers/compiler.XLF, src/Rules.make:
	  support form IBMs XLF compiler

2006-03-23 13:03  kbk

	* compilers/compiler.DECFOR, compilers/compiler.FUJITSU,
	  compilers/compiler.GFORTRAN, compilers/compiler.IFC,
	  compilers/compiler.IFORT, compilers/compiler.NAG,
	  compilers/compiler.PGF90, compilers/compiler.XLF, src/Rules.make:
	  support form IBMs XLF compiler

2006-03-23 12:49  kbk

	* src/: turbulence/alpha_mnb.F90, util/adv_center.F90: removed
	  explicit double precission dependency

2006-03-20 10:06  kbk

	* src/: turbulence/alpha_mnb.F90, util/adv_center.F90: removed
	  explicit double precission dependency

2005-12-28 13:16  kbk

	* Makefile: new devel release - v3.3.2

2005-12-28 10:46  hb

	* src/turbulence/q2over2eq.F90: Patankar trick reverted to older
	  versions for stabilising 3D computations

2005-12-28 10:42  hb

	* src/turbulence/q2over2eq.F90: Patankar trick reverted to older
	  versions for stabilising 3D computations

2005-12-28 09:51  hb

	* src/turbulence/: genericeq.F90: Bug fix: Now tkeo is used for
	  reconstruction of psi

2005-12-27 12:23  hb

	* doc/gotm.bib, src/extras/bio/bio.F90, src/extras/bio/bio_mab.F90,
	  src/gotm/gotm.F90: Weiss 1970 formula now used for surface oxygen
	  saturation calculation in bio_mab.F90

2005-12-27 11:55  hb

	* src/observations/get_o2_profile.F90: Unit conversion correct

2005-12-27 09:37  hb

	* src/: extras/bio/bio_iow.F90, extras/bio/bio_mab.F90,
	  output/ncdfout.F90: Oxygen units indicated as mmol o2/m**3 in
	  netCDF output

2005-12-27 08:53  hb

	* src/observations/get_o2_profile.F90: Oxygen unit conversions to
	  mmol/m^3 included

2005-12-27 07:51  hb

	* src/extras/bio/: Makefile, bio.F90, bio_mab.F90,
	  process_model.F90: New biomodel bio_mab (bio_iow with additional
	  sediment equation) added

2005-12-23 15:10  kbk

	* src/: observations/get_o2_profile.F90,
	  observations/observations.F90, output/ncdfout.F90,
	  observations/Makefile: support for reading oxygen profiles

2005-12-15 13:26  kbk

	* release.sh: stable should not be on a new branch

2005-12-15 13:23  kbk

	* release.sh: changed RHOST and RDIR

2005-12-15 13:19  kbk

	* Makefile: new stable release - v3.2.2

2005-12-15 13:18  kbk

	* release.sh: stable should not create a new branch

2005-12-15 12:13  kbk

	* src/: turbulence/dissipationeq.F90, turbulence/genericeq.F90,
	  turbulence/lengthscaleeq.F90, turbulence/tkeeq.F90,
	  util/diff_face.F90: Patankar trick re-introduced

2005-12-13 15:12  hb

	* src/extras/bio/ode_solvers.F90: Documentation of the subroutines
	  related to the EMP scheme has been updated by Jorn Bruggeman

2005-12-07 15:42  hb

	* src/: turbulence/dissipationeq.F90, turbulence/genericeq.F90,
	  turbulence/lengthscaleeq.F90, turbulence/tkeeq.F90,
	  util/diff_face.F90: Patankar trick reverted to older versions for
	  stabilising 3D computations

2005-12-03 09:40  kbk

	* doc/Makefile: automatically get figures from www.gotm.net

2005-12-02 22:10  hb

	* src/extras/seagrass/seagrass.F90: Documentation updated

2005-12-02 22:06  hb

	* src/util/: Makefile, lagrange.F90: Lagrangian routine included
	  into source code documentation

2005-12-02 22:03  hb

	* src/meanflow/temperature.F90: Documentation updated

2005-12-02 21:57  hb

	* src/extras/bio/: Makefile, bio.F90, bio_fasham.F90,
	  bio_fluxes.F90, bio_iow.F90, bio_npzd.F90, bio_save.F90,
	  bio_sed.F90, bio_template.F90, bio_var.F90, ode_solvers.F90,
	  process_model.F90: Documentation updated and some bugs fixed

2005-12-02 21:21  hb

	* doc/: Makefile, a4.tex, bioIntro.tex, cases.tex, gotm.bib:
	  Documentation extended by biogeochemical module

2005-11-18 12:16  kbk

	* src/output/ncdfout.F90: removed unused variables

2005-11-18 11:59  kbk

	* src/: util/adv_center.F90, util/gridinterpol.F90,
	  extras/bio/bio.F90, extras/bio/bio_save.F90,
	  extras/bio/mussels.F90, extras/bio/ode_solvers.F90,
	  gotm/gotm.F90, meanflow/updategrid.F90: removed unused variables
	  - some left in parameter lists

2005-11-17 14:24  kbk

	* compilers/compiler.GFORTRAN: added support for GNUs Fortran
	  Compiler

2005-11-17 14:08  kbk

	* compilers/compiler.GFORTRAN: added support for GNUs Fortran
	  Compiler

2005-11-17 11:25  kbk

	* Makefile: new devel release - v3.3.1

2005-11-17 11:22  kbk

	* release.sh: include VERSION and include/version.h in .tar.gz file

2005-11-17 11:10  kbk

	* release.sh: updated RHOST and RDIR

2005-11-17 10:58  hb

	* src/: extras/bio/bio.F90, extras/bio/bio_fasham.F90,
	  extras/bio/bio_iow.F90, extras/bio/bio_npzd.F90,
	  extras/bio/bio_sed.F90, extras/bio/bio_var.F90,
	  meanflow/buoyancy.F90, meanflow/salinity.F90,
	  meanflow/temperature.F90, meanflow/uequation.F90,
	  meanflow/vequation.F90, util/diff_center.F90: explicit argument
	  for positive definite variables in diff_center()

2005-11-15 13:07  lars

	* doc/: a4.tex, cases.tex: documentation finish for print

2005-11-15 12:42  lars

	* src/: airsea/airsea.F90, gotm/gotm.F90, gotm/main.F90:
	  documentation finish for print

2005-11-15 12:39  lars

	* src/meanflow/: temperature.F90, updategrid.F90: documentation
	  finish for print

2005-11-15 12:35  lars

	* src/turbulence/: algebraiclength.F90, cmue_ma.F90, cmue_rf.F90,
	  cmue_sg.F90, compute_rist.F90, dissipationeq.F90, genericeq.F90,
	  gotm_lib_version.F90, ispralength.F90, kpp.F90,
	  lengthscaleeq.F90, potentialml.F90, tkeeq.F90, turbulence.F90:
	  documentation finish for print

2005-11-15 12:02  lars

	* src/observations/: get_ext_pressure.F90, get_w_adv.F90,
	  observations.F90: documentation finish for print

2005-11-03 21:56  hb

	* src/util/: diff_center.F90, diff_face.F90: Source term
	  linearisation now fully explicit again, reversion to old method

2005-11-03 21:53  hb

	* src/turbulence/: dissipationeq.F90, genericeq.F90,
	  lengthscaleeq.F90, tkeeq.F90: Patankar trick reverted to older
	  versions for stabilising 3D computations

2005-10-11 10:43  lars

	* src/extras/bio/bio.F90: checked new transport routines

2005-09-20 08:59  kbk

	* src/gotm/gotm.F90: moved - use output - to compile on newer Intel
	  compilers

2005-09-20 08:59  kbk

	* src/util/w_split_it_adv.F90: fixed one6th parameter

2005-09-19 23:07  hb

	* src/extras/bio/bio.F90: yevol replaced by adv_center and
	  diff_center

2005-09-19 23:03  hb

	* src/extras/bio/: bio_sed.F90, process_model.F90: pp and dd
	  properly set to zero

2005-09-16 15:54  lars

	* src/util/: diff_center.F90, diff_face.F90: added missing IMPLICIT
	  NONE

2005-09-14 13:53  kbk

	* src/output/ncdfout.F90: fixed position of counter for time
	  dimension - fixes bio storing

2005-09-13 12:00  kbk

	* src/turbulence/turbulence.F90: init_turbulence() now prints
	  version - obtained from Makefile

2005-09-12 23:46  hb

	* src/meanflow/temperature.F90: use of bioshade corrected (should
	  work on short wave length part of light spectrum only

2005-09-12 16:48  kbk

	* Makefile, src/Rules.make, src/extras/bio/bio.F90,
	  src/extras/bio/bio_fasham.F90, src/extras/bio/bio_iow.F90,
	  src/extras/bio/bio_npzd.F90, src/extras/bio/ode_solvers.F90,
	  src/gotm/gotm.F90: merged generic biological module support

2005-08-29 13:19  kbk

	* src/meanflow/updategrid.F90: merged from trunk

2005-08-28 11:40  hb

	* src/turbulence/production.F90: Misspelling in documentation
	  corrected.

2005-08-25 21:41  hb

	* src/meanflow/updategrid.F90: small deviations between depth and
	  depth0 tolerated now

2005-08-18 15:37  kbk

	* release.sh: hardcoded branch + proper inclusion of VERSION and
	  include/version.h

2005-08-18 15:17  kbk

	* release.sh: changed cvs server to gate

2005-08-18 15:12  kbk

	* Makefile: new stable release - v3.2.1

2005-08-18 15:12  kbk

	* Makefile: include VERSION and include/version.h in .tar.gz file

2005-08-18 15:07  kbk

	* src/gotm/gotm.F90: moved use output to compile on Intel compiler
	  v9

2005-08-17 09:54  kbk

	* Makefile: new devel release - v3.3.0

2005-08-17 09:31  kbk

	* release.sh: cvs server: bbh.homelinux.net --> gate

2005-08-17 09:24  kbk

	* Makefile: new stable release - v3.2.0

2005-08-17 08:51  kbk

	* HISTORY, README: information via www.gotm.net only

2005-08-16 16:42  hb

	* doc/: cases.tex, gotm.bib, meanflowIntro.tex: Update of realistic
	  test cases

2005-08-16 16:38  kbk

	* Makefile, src/Makefile: VERSION, include/version.h automatic
	  generated

2005-08-15 22:23  hb

	* src/meanflow/updategrid.F90: Vertical advection profiles
	  triangle-shaped also for temporally constant vertical velocity

2005-08-15 13:54  hb

	* src/observations/: get_w_adv.F90, observations.F90: sequence of
	  reading w_adv and w_height changed, w_adv_height0 introduced,
	  documentation extended

2005-08-11 16:15  kbk

	* src/output/ncdfout.F90: when storing time changed variable time
	  to temp_time - Portland compiler

2005-08-11 15:59  lars

	* doc/Makefile: added latex2html flags

2005-08-11 15:58  lars

	* doc/: extraIntro.tex, introduction.tex: updated for new version

2005-08-11 15:56  lars

	* doc/: a4.tex, html.tex, letter.tex, meanflowIntro.tex: included
	  relative path for figures

2005-08-11 15:55  lars

	* doc/definitions.tex: removed path definition of figures

2005-08-11 15:11  lars

	* src/turbulence/: dissipationeq.F90, genericeq.F90, tkeeq.F90:
	  Added explicit loops for diffusivities for 3-D z-level support.
	  Thanks to Vicente Fernandez.

2005-08-11 15:01  lars

	* src/turbulence/production.F90: Added explicit loops for 3-D
	  z-level support. Thanks to Vicente Fernandez.

2005-08-11 15:00  lars

	* src/turbulence/turbulence.F90: Added explicit interface for xP.
	  Bug found by Vicente Fernandez.

2005-08-11 14:34  lars

	* src/util/convert_fluxes.F90: corrected indentation for Protex

2005-08-11 14:32  lars

	* src/meanflow/intpressure.F90: corrected error in Latex
	  referencing

2005-08-11 14:31  lars

	* src/meanflow/friction.F90: corrected error in documentation.
	  Thanks to Patrizio Mariani

2005-08-11 14:29  lars

	* src/gotm/gotm.F90: added #ifdef for xP argument in
	  do_turbulence()

2005-07-21 12:20  lars

	* src/turbulence/kpp.F90: polished documentation

2005-07-20 14:38  lars

	* doc/cases.tex: update idealised cases

2005-07-20 11:36  lars

	* src/gotm/gotm.F90: bug-fix in variances output

2005-07-19 19:09  hb

	* src/output/output.F90: removed code commented out

2005-07-19 18:58  hb

	* doc/: agu.bst, definitions.tex: agu.bst has nothing to do with
	  GOTM - fix your Latex installation

2005-07-19 18:46  hb

	* src/: gotm/gotm.F90, turbulence/production.F90,
	  turbulence/turbulence.F90: removed superfluous variables - NNT,
	  NNS, SSU, SSV

2005-07-19 18:33  hb

	* src/: gotm/gotm.F90, turbulence/turbulence.F90: moved
	  variances() from do_turbulence() to time_loop()

2005-07-18 11:13  lars

	* doc/: html.tex, letter.tex: little changes for new version

2005-07-18 10:54  lars

	* src/: meanflow/stratification.F90, turbulence/cmue_ma.F90,
	  turbulence/cmue_sg.F90: changed docu for html compliance

2005-07-18 09:56  lars

	* doc/README: update for new version

2005-07-18 09:39  lars

	* doc/agu.bst: first import

2005-07-14 16:40  lars

	* src/Makefile: also clean gotm-directory

2005-07-14 16:23  lars

	* src/Makefile: also clean DOCDIRS

2005-07-14 11:43  kbk

	* doc/: a4.tex, html.tex, letter.tex: master tex files

2005-07-12 12:13  hb

	* src/: gotm/gotm.F90, turbulence/turbulence.F90: dependence of
	  init_turbulence from depth, z0s, z0b removed

2005-07-06 18:20  kbk

	* src/observations/: Makefile, observations.F90,
	  read_extinction.F90: updated documentation - added const_NNT and
	  const_NNS

2005-07-06 17:51  kbk

	* src/observations/two_layer.F90: just a copy of
	  analytical_profile.F90

2005-07-06 17:50  kbk

	* src/observations/analytical_profile.F90: added description -
	  umlauf

2005-07-06 17:30  kbk

	* src/gotm/gotm.F90: added KPP, no bio, no sediment, updated
	  documentation

2005-07-06 17:00  kbk

	* src/util/Makefile: lagrange.F90 not needed

2005-07-06 16:46  kbk

	* src/Rules.make: not including biology

2005-07-06 16:44  kbk

	* include/cppdefs.h: specific defines for KPP

2005-07-06 16:41  kbk

	* src/Rules.make: not including sediment

2005-07-06 16:38  kbk

	* src/turbulence/cmue_gen.F90: not used anymore

2005-07-06 16:22  kbk

	* src/output/: Makefile, ncdfout.F90, output.F90: updated
	  documentation - saves KPP related variables

2005-07-06 16:19  kbk

	* src/output/asciiout.F90: added writing of obs. velocities

2005-07-06 16:17  kbk

	* src/meanflow/Makefile: removed adaptivegrid

2005-07-06 16:11  kbk

	* doc/: Makefile, README, airseaIntro.tex, definitions.tex,
	  extraIntro.tex, gotm.bib, introduction.tex, meanflowIntro.tex,
	  turbulenceIntro.tex, utilIntro.tex: updated documentation

2005-07-06 16:07  kbk

	* src/turbulence/: Makefile, turbulence.F90: added KPP, updated
	  documentation, new structure of turbulence module

2005-07-06 15:58  kbk

	* src/airsea/airsea.F90: added fresh water, updated documentation

2005-07-06 11:25  hb

	* src/: meanflow/uequation.F90, meanflow/vequation.F90,
	  turbulence/turbulence_adv.F90, util/w_split_it_adv.F90,
	  util/yevol.F90: renamed w_split_it_adv() to w_split_it_adv_1d()
	  to avoid clash with GETM

2005-07-06 11:03  hb

	* src/output/output.F90: removed commented out lines

2005-07-06 11:00  hb

	* src/: extras/bio/bio.F90, gotm/gotm.F90: moved bio_save() from
	  do_bio() to time_loop - temporary no NPZD totn calculation

2005-07-05 22:25  hb

	* src/extras/bio/: bio_fasham.F90, bio_iow.F90, bio_npzd.F90: added
	  control over par calculation

2005-07-05 19:21  hb

	* src/meanflow/temperature.F90: bioshading only on visible part of
	  spectrum

2005-07-05 19:16  hb

	* src/turbulence/turbulence.F90: turbulence module MUST NOT use
	  meanflow module

2005-07-05 19:12  hb

	* src/extras/bio/ode_solvers.F90: added EMP algoritms by Bruggeman

2005-06-27 16:13  kbk

	* VERSION, include/version.h: default target in master Makefile

2005-06-27 15:44  kbk

	* src/: extras/seagrass/seagrass.F90, extras/sediment/sediment.F90,
	  gotm/main.F90, meanflow/buoyancy.F90,
	  meanflow/convectiveadjustment.F90, meanflow/coriolis.F90,
	  meanflow/extpressure.F90, meanflow/friction.F90,
	  meanflow/intpressure.F90, meanflow/meanflow.F90,
	  meanflow/salinity.F90, meanflow/stratification.F90,
	  meanflow/temperature.F90, meanflow/uequation.F90,
	  meanflow/updategrid.F90, meanflow/vequation.F90,
	  observations/get_eps_profile.F90,
	  observations/get_ext_pressure.F90,
	  observations/get_int_pressure.F90,
	  observations/get_s_profile.F90, observations/get_t_profile.F90,
	  observations/get_vel_profile.F90, observations/get_w_adv.F90,
	  observations/get_zeta.F90, turbulence/algebraiclength.F90,
	  turbulence/cmue_ma.F90, turbulence/cmue_rf.F90,
	  turbulence/cmue_sg.F90, turbulence/dissipationeq.F90,
	  turbulence/fk_craig.F90, turbulence/genericeq.F90,
	  turbulence/gotm_lib_version.F90, turbulence/ispralength.F90,
	  turbulence/lengthscaleeq.F90, turbulence/potentialml.F90,
	  turbulence/q2over2eq.F90, turbulence/tkealgebraic.F90,
	  turbulence/tkeeq.F90, util/eqstate.F90, util/gridinterpol.F90,
	  util/time.F90, util/tridiagonal.F90: modified + removed traling
	  blanks

2005-06-27 12:54  kbk

	* src/: meanflow/shear.F90, observations/const_NNS.F90,
	  observations/const_NNT.F90, observations/two_layer.F90,
	  turbulence/alpha_mnb.F90, turbulence/cmue_a.F90,
	  turbulence/cmue_b.F90, turbulence/cmue_c.F90,
	  turbulence/cmue_d.F90, turbulence/compute_cpsi3.F90,
	  turbulence/compute_rist.F90, turbulence/epsbalgebraic.F90,
	  turbulence/internal_wave.F90, turbulence/kbalgebraic.F90,
	  turbulence/kbeq.F90, turbulence/kpp.F90,
	  turbulence/production.F90, turbulence/r_ratio.F90,
	  turbulence/variances.F90, util/adv_center.F90,
	  util/convert_fluxes.F90, util/diff_center.F90,
	  util/diff_face.F90, util/util.F90: new files needed

2005-06-27 12:48  kbk

	* NOTE_TO_DEVELOPERS, ROADMAP, doc/code_a4.tex, doc/code_html.tex,
	  doc/code_letter.tex, doc/meanflowIntroHTML.tex,
	  doc/utilIntroHTML.tex, src/meanflow/adaptivegrid.F90,
	  src/meanflow/lightabsorbtion.F90, src/meanflow/production.F90,
	  src/output/diagnostics.F90.HB, src/turbulence/changed,
	  src/turbulence/cmue_bb.F90, src/turbulence/cmue_bbqe.F90,
	  src/turbulence/cmue_ca.F90, src/turbulence/cmue_caqe.F90,
	  src/turbulence/cmue_cb.F90, src/turbulence/cmue_cbqe.F90,
	  src/turbulence/cmue_gpqe.F90, src/turbulence/cmue_kc.F90,
	  src/turbulence/cmue_kcqe.F90, src/turbulence/cmue_my.F90,
	  src/turbulence/turbulence_adv.F90, src/util/advectionMean.F90,
	  src/util/diffusionMean.F90, src/util/w_split_it_adv.F90,
	  src/util/yevol.F90: removed files not needed anymore

2005-06-27 11:36  kbk

	* Makefile, VERSION, release.sh, include/version.h: biology branch

2005-06-27 10:57  kbk

	* Makefile, VERSION, release.sh, include/version.h: new devel
	  release

2005-06-09 11:53  kbk

	* src/output/gradsout.F90: native grads output not suppoted anymore
	  - but GrADS reads NetCDF

2004-08-19 11:24  hb

	* src/util/lagrange.F90: Variance of random walk and background
	  diffusivity explicitely prescribed --> Hidekatsu Yamazaki

2004-08-18 18:09  hb

	* src/util/lagrange.F90: Visser correction for viscosity evaluation
	  included

2004-08-18 14:50  lars

	* src/turbulence/: fk_craig.F90, cmue_ma.F90, cmue_rf.F90,
	  cmue_sg.F90: updated documentation

2004-08-18 14:31  lars

	* src/meanflow/: temperature.F90, friction.F90: updated
	  documentation

2004-08-18 13:46  lars

	* src/meanflow/updategrid.F90: updated documentation

2004-08-18 13:43  lars

	* src/meanflow/: salinity.F90, intpressure.F90, uequation.F90,
	  vequation.F90: updated documentation

2004-08-18 13:39  lars

	* src/meanflow/convectiveadjustment.F90: updated documentation

2004-08-18 13:38  lars

	* src/meanflow/: coriolis.F90, adaptivegrid.F90, extpressure.F90:
	  corrected typo in docu

2004-08-18 13:34  hb

	* src/extras/bio/bio.F90: zlev now allocated from 0 to nlev

2004-08-17 17:45  lars

	* src/util/time.F90: corrected typos in docu

2004-08-17 17:33  lars

	* src/util/tridiagonal.F90: removed tabs

2004-08-09 13:55  hb

	* src/extras/bio/bio_iow.F90: surface phosphorus flux not any more
	  multiplied by 10 when read from file

2004-08-09 13:53  hb

	* src/extras/bio/bio_fasham.F90: bioshading now without detritus

2004-08-02 13:44  kbk

	* src/extras/bio/bio.F90: bio module compiles and runs with GETM

2004-08-02 11:01  kbk

	* src/extras/bio/bio_iow.F90: does not use modules time and
	  observations

2004-08-02 10:35  hb

	* src/: extras/bio/bio.F90, gotm/gotm.F90: no need to pass time
	  information

2004-08-02 10:34  hb

	* src/extras/bio/: bio_fasham.F90, bio_sed.F90: updated init
	  routines to reflect new internal bio interface

2004-08-01 17:54  hb

	* src/extras/bio/bio.F90: call to light_fasham commented in again

2004-08-01 17:52  hb

	* src/extras/bio/bio_fasham.F90: alpha now devided by seconds per
	  day

2004-07-30 11:26  hb

	* src/observations/observations.F90: Simple exponential light
	  absorption added --> Wilfried Kuehn

2004-07-30 11:22  hb

	* src/extras/bio/: bio.F90, bio_fasham.F90, bio_iow.F90,
	  bio_npzd.F90, bio_save.F90, bio_sed.F90, bio_template.F90,
	  bio_var.F90, ode_solvers.F90, process_model.F90: use bio_var in
	  specific bio models - simpliefied internal interface

2004-07-30 11:19  hb

	* src/airsea/airsea.F90: wet_mode now red from namelist

2004-07-29 19:36  hb

	* src/: gotm/gotm.F90, extras/bio/Makefile,
	  extras/bio/bio_fluxes.F90: separate reading fluxes from bio() -
	  benefit of 3D models

2004-07-28 13:34  hb

	* src/extras/bio/: bio.F90, bio_fasham.F90, bio_iow.F90,
	  bio_npzd.F90: Bioshade feedback may now be switched on or off,
	  depending on bioshade_feedback set to .true. or .false. in
	  bio.inp

2004-07-28 13:29  hb

	* src/meanflow/temperature.F90: Bug removed, rad is not any more
	  multiplied with bioshade; bug found by Jorn Bruggeman, Amsterdam

2004-07-26 14:20  hb

	* src/extras/bio/bio_iow.F90: Small inconsistencies with
	  non-conservative sources removed

2004-07-03 22:32  hb

	* src/extras/bio/ode_solvers.F90: bug removed which occured in
	  modified Patankar schemes when pp(i,j,ci).ne.dd(j,i,ci)

2004-07-02 15:41  hb

	* src/extras/bio/bio_iow.F90: Hard switches (theta) softened with
	  tanh and Michaelis-Menten

2004-06-29 16:22  hb

	* src/extras/bio/bio_npzd.F90: removed superfluous print statement

2004-06-29 15:48  hb

	* src/extras/bio/bio_iow.F90: bug removed

2004-06-29 15:02  lars

	* src/extras/bio/mussels.F90: removed tabs

2004-06-29 14:56  lars

	* src/extras/sediment/sediment.F90: removed tabs

2004-06-29 10:04  hb

	* src/extras/bio/: bio_iow.F90, bio_npzd.F90: small changes

2004-06-29 10:03  hb

	* src/extras/bio/: Makefile, bio.F90, bio_fasham.F90,
	  process_model.F90: Fasham et al. 1990 model implemented

2004-06-25 09:50  hb

	* src/airsea/airsea.F90: Preliminary wet mode choices improved

2004-05-28 17:52  hb

	* src/extras/bio/bio_iow.F90: small change for fluff

2004-05-28 15:24  hb

	* src/: extras/bio/bio.F90, extras/bio/bio_iow.F90,
	  extras/bio/ode_solvers.F90, extras/bio/process_model.F90,
	  gotm/gotm.F90: Extention of bio_iow to fluff layer and surface
	  nutrient fluxes

2004-05-28 15:14  hb

	* src/airsea/airsea.F90: airsea.F90 extended for dew point
	  temperature

2004-04-13 11:18  kbk

	* src/extras/bio/: bio.F90, mussels.F90: size and temperature
	  dependend filtration rate

2004-03-31 14:58  kbk

	* src/extras/bio/: bio.F90, mussels.F90: lagrangian solver uses -
	  total_mussel_flux

2004-03-30 13:32  kbk

	* src/extras/bio/: bio.F90, bio_var.F90: select between eulerian or
	  lagrangian solver

2004-03-30 13:31  kbk

	* src/gotm/gotm.F90: h in parameter list to init_bio()

2004-03-22 11:14  kbk

	* src/: util/lagrange.F90, extras/sediment/sediment.F90: cleaned,
	  store old index -> much faster, fixed conc. calc.

2004-03-04 11:13  kbk

	* src/gotm/gotm.F90: calc_sediment --> do_sediment

2004-03-04 10:34  kbk

	* src/extras/sediment/sediment.F90: selection between eularian and
	  lagrangian solver

2004-03-04 10:33  kbk

	* src/util/Makefile: general lagrangian 1D solver

2004-03-04 10:28  kbk

	* src/util/lagrange.F90: general lagrangian 1D solver

2004-01-27 11:03  hb

	* src/turbulence/cmue_gen.F90: bugfix

2004-01-27 11:02  hb

	* src/turbulence/Makefile: support for new stab. func.

2004-01-27 09:33  lars

	* src/meanflow/meanflow.F90: omega-value bug fix

2004-01-27 09:31  lars

	* src/turbulence/turbulence.F90: support for gen. stability
	  function

2004-01-27 09:28  lars

	* src/turbulence/cmue_gen.F90: trial version of generic stability
	  function

2004-01-13 11:56  lars

	* doc/definitions.tex: added magn

2004-01-13 11:20  lars

	* src/extras/sediment/sediment.F90: removed small bug in namelist

2004-01-13 11:00  lars

	* src/extras/sediment/sediment.F90: partical re-write using new
	  adv.-diff. routines

2004-01-13 09:39  lars

	* src/meanflow/friction.F90: included roughness due to suspended
	  sediments

2004-01-13 09:31  lars

	* src/util/diffusionMean.F90: added new diffusion routine for
	  meanflow variables

2004-01-13 09:30  lars

	* src/util/advectionMean.F90: added new advection routine for
	  meanflow variables

2004-01-13 09:29  lars

	* src/util/: Makefile, advection.F90, diffusion.F90: removed unused
	  files

2004-01-12 16:21  lars

	* src/meanflow/meanflow.F90: added za for sediment-induced bottom
	  roughness

2004-01-12 10:59  lars

	* src/util/diffusion.F90: new routine for diffusion of positive
	  variables

2004-01-12 10:39  lars

	* doc/README: updated

2004-01-12 09:54  lars

	* doc/Makefile: new structure, removed bugs

2004-01-12 09:50  lars

	* src/: extras/bio/Makefile, extras/seagrass/Makefile,
	  extras/sediment/Makefile, gotm/Makefile, meanflow/Makefile,
	  observations/Makefile, output/Makefile, turbulence/Makefile,
	  util/Makefile: removed bug in doc-target

2004-01-12 09:49  lars

	* src/airsea/Makefile: removed bug doc-target

2004-01-12 09:08  lars

	* src/Rules.make: added phoney targets for cleaning

2004-01-09 11:14  kbk

	* src/output/ncdfout.F90: consistency between stored surface stress
	  and units (now N/m^2)

2004-01-07 13:24  lars

	* src/extras/bio/Makefile: commented out docu (protex error)

2004-01-07 13:17  lars

	* src/meanflow/salinity.F90: Removed latex bug

2003-12-11 11:00  kbk

	* src/: Makefile, gotm/Makefile: main.o not in library - fix PGF90
	  compilation error

2003-12-11 10:58  kbk

	* src/: util/w_split_it_adv.F90, util/yevol.F90,
	  extras/bio/bio.F90, extras/bio/bio_iow.F90,
	  extras/bio/bio_save.F90, extras/bio/mussels.F90,
	  meanflow/adaptivegrid.F90, output/ncdfout.F90: now compiles with
	  FORTRAN_COMPILER=IFORT - removed TABS

2003-12-11 10:42  kbk

	* compilers/compiler.IFORT: added support for Intel Fortran
	  Compiler v. 8.x

2003-10-28 11:29  hb

	* src/util/yevol.F90: now implicit solution

2003-10-28 11:26  hb

	* src/extras/bio/mussels.F90: allow for delayed filtering + removed
	  dt from flux calc.

2003-10-28 11:22  hb

	* src/extras/bio/: Makefile, bio.F90, bio_sed.F90,
	  process_model.F90: added support for sedimentation only 1
	  compartment bio model

2003-10-17 16:36  kbk

	* src/extras/bio/mussels.F90: skeleton bio mass subroutine added

2003-10-16 17:42  kbk

	* src/extras/bio/: Makefile, bio.F90, bio_iow.F90, bio_npzd.F90,
	  bio_var.F90, mussels.F90: simple mussesl model implemented -
	  filter only

2003-10-14 10:04  kbk

	* src/output/: ncdfout.F90, output.F90: time is now stored as real

2003-10-14 10:00  hb

	* src/extras/bio/bio.F90: initialise sfl - no special treatment
	  when cc(,) < 0

2003-09-16 14:17  hb

	* src/gotm/gotm.F90: added new biological model - bio_iow

2003-09-16 14:11  hb

	* src/extras/bio/: Makefile, bio.F90, bio_iow.F90, bio_var.F90,
	  ode_solvers.F90, process_model.F90: added new biological model -
	  bio_iow

2003-07-23 14:33  hb

	* src/meanflow/: meanflow.F90, temperature.F90: fixed bioshade init
	  and use

2003-07-23 14:27  hb

	* src/extras/bio/: Makefile, bio.F90, bio_npzd.F90, bio_save.F90,
	  bio_template.F90, bio_var.F90, ode_solvers.F90,
	  process_model.F90: more generic support for different bio models

2003-07-23 14:14  hb

	* src/gotm/gotm.F90: preparing for general bio interface

2003-07-23 12:52  hb

	* src/meanflow/updategrid.F90: proper initialisation of gridinit +
	  cleaning

2003-06-13 11:27  hb

	* src/: meanflow/salinity.F90, airsea/airsea.F90,
	  output/ncdfout.F90: Implemented freshwater fluxes

2003-04-07 11:39  kbk

	* doc/: code_a4.tex, code_html.tex, code_letter.tex: included bio
	  in documentation

2003-04-07 11:28  kbk

	* src/extras/bio/bio.F90: all protex tags needs to end with a :

2003-04-07 09:51  kbk

	* src/meanflow/: meanflow.F90, temperature.F90: initialised and
	  enabled bioshade

2003-04-05 09:01  kbk

	* src/: meanflow/meanflow.F90, meanflow/temperature.F90,
	  extras/bio/bio.F90: moved bioshade variable to meanflow - to
	  compile properly

2003-04-05 08:56  kbk

	* src/Rules.make: removed hardcoded GOTMDIR - defaults to
	  /home/kbk/gotm

2003-04-04 16:25  hb

	* src/: Rules.make, extras/bio/bio.F90, gotm/gotm.F90,
	  meanflow/temperature.F90: First iteration of four-compartment
	  geobiochemical model implemented

2003-04-01 19:01  hb

	* src/: Rules.make, extras/bio/Makefile, extras/bio/bio.F90,
	  gotm/gotm.F90: Added infrastructure for geobiochemical model

2003-03-28 16:47  lars

	* doc/cases.tex: small changes for the idealized cases

2003-03-28 11:41  kbk

	* doc/Makefile: added target: pdf_scp

2003-03-28 10:38  kbk

	* src/: turbulence/cmue_ma.F90, util/time.F90: removed tabs

2003-03-28 10:20  kbk

	* src/: airsea/airsea.F90, airsea/tst_airsea.F90,
	  extras/seagrass/seagrass.F90, extras/sediment/sediment.F90,
	  gotm/gotm.F90, gotm/main.F90, meanflow/adaptivegrid.F90,
	  meanflow/buoyancy.F90, meanflow/convectiveadjustment.F90,
	  meanflow/coriolis.F90, meanflow/extpressure.F90,
	  meanflow/friction.F90, meanflow/intpressure.F90,
	  meanflow/lightabsorbtion.F90, meanflow/meanflow.F90,
	  meanflow/production.F90, meanflow/salinity.F90,
	  meanflow/stratification.F90, meanflow/temperature.F90,
	  meanflow/uequation.F90, meanflow/updategrid.F90,
	  meanflow/vequation.F90, observations/analytical_profile.F90,
	  observations/get_eps_profile.F90,
	  observations/get_ext_pressure.F90,
	  observations/get_int_pressure.F90,
	  observations/get_s_profile.F90, observations/get_t_profile.F90,
	  observations/get_vel_profile.F90, observations/get_w_adv.F90,
	  observations/get_zeta.F90, observations/observations.F90,
	  observations/read_extinction.F90, output/asciiout.F90,
	  output/gradsout.F90, output/ncdfout.F90, output/output.F90,
	  turbulence/algebraiclength.F90, turbulence/cmue_bb.F90,
	  turbulence/cmue_bbqe.F90, turbulence/cmue_ca.F90,
	  turbulence/cmue_caqe.F90, turbulence/cmue_cb.F90,
	  turbulence/cmue_cbqe.F90, turbulence/cmue_gpqe.F90,
	  turbulence/cmue_kc.F90, turbulence/cmue_kcqe.F90,
	  turbulence/cmue_ma.F90, turbulence/cmue_my.F90,
	  turbulence/cmue_rf.F90, turbulence/cmue_sg.F90,
	  turbulence/dissipationeq.F90, turbulence/fk_craig.F90,
	  turbulence/genericeq.F90, turbulence/gotm_lib_version.F90,
	  turbulence/ispralength.F90, turbulence/lengthscaleeq.F90,
	  turbulence/potentialml.F90, turbulence/q2over2eq.F90,
	  turbulence/tkealgebraic.F90, turbulence/tkeeq.F90,
	  turbulence/turbulence.F90, turbulence/turbulence_adv.F90,
	  util/advection.F90, util/eqstate.F90, util/gridinterpol.F90,
	  util/time.F90, util/tridiagonal.F90, util/w_split_it_adv.F90,
	  util/yevol.F90: added new copyright to files

2003-03-28 10:10  kbk

	* src/: util/advection.F90, util/w_split_it_adv.F90,
	  util/yevol.F90, gotm/gotm.F90: removed tabs

2003-03-28 10:02  kbk

	* src/observations/: analytical_profile.F90, get_eps_profile.F90,
	  get_ext_pressure.F90, get_w_adv.F90, get_zeta.F90,
	  read_extinction.F90: removed tabs

2003-03-28 09:56  kbk

	* src/meanflow/: adaptivegrid.F90, buoyancy.F90,
	  convectiveadjustment.F90, coriolis.F90, extpressure.F90,
	  friction.F90, intpressure.F90, production.F90, salinity.F90,
	  stratification.F90, temperature.F90, uequation.F90,
	  updategrid.F90, vequation.F90: removed tabs

2003-03-28 09:37  kbk

	* src/turbulence/: cmue_bb.F90, cmue_bbqe.F90, cmue_gpqe.F90,
	  cmue_kc.F90, cmue_rf.F90, turbulence_adv.F90: removed tabs

2003-03-28 09:28  kbk

	* src/: extras/seagrass/seagrass.F90, turbulence/tkealgebraic.F90,
	  turbulence/ispralength.F90: removed tabs

2003-03-28 09:24  kbk

	* src/: extras/sediment/sediment.F90, output/output.F90: removed
	  tabs

2003-03-28 09:20  kbk

	* src/turbulence/turbulence.F90: removed tabs

2003-03-28 09:13  kbk

	* src/: airsea/airsea.F90, meanflow/meanflow.F90: removed tabs

2003-03-28 09:06  kbk

	* src/: util/eqstate.F90, util/tridiagonal.F90,
	  observations/observations.F90: removed tabs

2003-03-28 08:56  kbk

	* src/util/time.F90: removed tabs

2003-03-27 16:35  kbk

	* Makefile: adjusted to reflect new CVSROOT

2003-03-19 13:57  frv-bjb

	* src/output/ncdfout.F90.keep: Removed ancient backup file

2003-03-12 19:59  kbk

	* compilers/compiler.IFC: removed -static from EXTRA_LIBS

2003-03-12 19:45  kbk

	* doc/Makefile: agu.bst is not removed

2003-03-12 15:13  kbk

	* doc/Makefile: Added the figures target

2003-03-12 14:02  lars

	* doc/Makefile: separated hand-written and ProTeX-generated sources

2003-03-10 14:51  lars

	* src/observations/observations.F90: changed intent(out) to
	  intent(inout) for lines in read_profiles()

2003-03-10 14:48  lars

	* src/util/time.F90: changed intent(out) to intent(inout) for MaxN
	  in init_time

2003-03-10 14:43  lars

	* src/: meanflow/updategrid.F90, turbulence/dissipationeq.F90:
	  double definitions removed - to conform with DEC compiler

2003-03-10 11:13  gotm

	* src/: meanflow/Makefile, util/Makefile: Fixed MOD/OBJ lists

2003-03-10 10:42  gotm

	* doc/: Makefile, README, airseaIntro.tex, cases.tex, code_a4.tex,
	  code_html.tex, code_letter.tex, definitions.tex, extraIntro.tex,
	  gotm.bib, introduction.tex, mainIntro.tex, meanflowIntro.tex,
	  meanflowIntroHTML.tex, observationsIntro.tex, outputIntro.tex,
	  turbulenceIntro.tex, utilIntro.tex, utilIntroHTML.tex: Much
	  improved documentation

2003-03-10 10:20  gotm

	* src/gotm/: gotm.F90, main.F90: Added new Generic Turbulence Model
	  + improved documentation and cleaned up code

2003-03-10 10:13  gotm

	* src/extras/: seagrass/seagrass.F90, sediment/sediment.F90:
	  Improved documentation

2003-03-10 10:04  gotm

	* src/turbulence/: q2over2eq.F90, turbulence_adv.F90: Fixed comment
	  char

2003-03-10 10:02  gotm

	* src/turbulence/: algebraiclength.F90, cmue_bb.F90, cmue_bbqe.F90,
	  cmue_ca.F90, cmue_caqe.F90, cmue_cb.F90, cmue_cbqe.F90,
	  cmue_kc.F90, cmue_kcqe.F90, cmue_ma.F90, cmue_rf.F90,
	  cmue_sg.F90, dissipationeq.F90, genericeq.F90,
	  gotm_lib_version.F90, ispralength.F90, lengthscaleeq.F90,
	  potentialml.F90, tkealgebraic.F90, tkeeq.F90, turbulence.F90:
	  Added new Generic Turbulence Model + improved documentation and
	  cleaned up code

2003-03-10 10:00  gotm

	* src/turbulence/: cmue_gpqe.F90, cmue_my.F90, fk_craig.F90,
	  q2over2eq.F90, turbulence_adv.F90: Part of new generic turbulence
	  model

2003-03-10 09:54  gotm

	* src/util/: eqstate.F90, gridinterpol.F90, time.F90,
	  tridiagonal.F90, w_split_it_adv.F90, yevol.F90: Improved
	  documentation and cleaned up code

2003-03-10 09:50  gotm

	* src/: meanflow/buoyancy.F90, meanflow/convectiveadjustment.F90,
	  meanflow/coriolis.F90, meanflow/extpressure.F90,
	  meanflow/friction.F90, meanflow/intpressure.F90,
	  meanflow/lightabsorbtion.F90, meanflow/meanflow.F90,
	  meanflow/production.F90, meanflow/salinity.F90,
	  meanflow/stratification.F90, meanflow/temperature.F90,
	  meanflow/uequation.F90, meanflow/updategrid.F90,
	  meanflow/vequation.F90, observations/analytical_profile.F90,
	  observations/get_eps_profile.F90,
	  observations/get_ext_pressure.F90,
	  observations/get_int_pressure.F90,
	  observations/get_s_profile.F90, observations/get_t_profile.F90,
	  observations/get_vel_profile.F90, observations/get_w_adv.F90,
	  observations/get_zeta.F90, observations/observations.F90,
	  observations/read_extinction.F90, output/asciiout.F90,
	  output/gradsout.F90, output/ncdfout.F90, output/output.F90:
	  Improved documentation and cleaned up code

2003-03-10 09:49  gotm

	* src/meanflow/adaptivegrid.F90: Added support for adaptive
	  vertical grid

2003-03-10 09:37  gotm

	* src/airsea/airsea.F90: HB fixed the Kondo calculations

2003-03-10 09:35  gotm

	* compilers/compiler.NAG: Fixed NAG compiler info

2003-03-10 09:33  gotm

	* Makefile, doc/Makefile, src/Makefile, src/Rules.make,
	  src/airsea/Makefile, src/gotm/Makefile, src/meanflow/Makefile,
	  src/observations/Makefile, src/output/Makefile,
	  src/turbulence/Makefile, src/util/Makefile,
	  src/extras/seagrass/Makefile, src/extras/sediment/Makefile:
	  Cleaned an update the build system

2003-03-10 09:23  gotm

	* compilers/: compiler.DECFOR, compiler.FUJITSU, compiler.IFC,
	  compiler.PGF90: New compiler specs

2002-04-30 16:22  gotm

	* src/: Rules.make, gotm/gotm.F90: Added lagrangian module

2002-04-30 16:18  gotm

	* src/output/ncdfout.F90: pgf90 does not accept time as variable
	  name --> ti

2002-02-08 09:59  gotm

	* src/: meanflow/production.F90, turbulence/algebraiclength.F90,
	  turbulence/cmue_kc.F90, turbulence/cmue_kcqe.F90,
	  turbulence/cmue_ma.F90, turbulence/cmue_rf.F90,
	  turbulence/dissipationeq.F90, turbulence/ispralength.F90,
	  turbulence/lengthscaleeq.F90, turbulence/tkealgebraic.F90,
	  turbulence/potentialml.F90, turbulence/tkeeq.F90,
	  turbulence/turbulence.F90: Added Manuel as author and copyright
	  holder

2002-02-08 09:33  gotm

	* src/meanflow/updategrid.F90: Manuel added support for reading
	  grid distribution from file

2001-11-27 20:51  gotm

	* src/meanflow/updategrid.F90: Cleaned

2001-11-27 20:49  gotm

	* src/util/yevol.F90: Added higher order advection via
	  w_split_it_adv()

2001-11-27 20:44  gotm

	* src/util/eqstate.F90: Fixed an initialisation bug

2001-11-27 20:42  gotm

	* src/turbulence/turbulence.F90: Cleaned

2001-11-27 20:41  gotm

	* src/Rules.make: Added Portland Group compiler for Intel

2001-11-27 20:38  gotm

	* src/util/Makefile: Added w_split_it_adv.F90

2001-11-27 16:38  gotm

	* src/meanflow/updategrid.F90: Possible to read coordinate
	  distribution from file

2001-11-27 16:35  gotm

	* src/observations/observations.F90: zeta_method now public - used
	  by updategrid()

2001-11-18 20:13  gotm

	* src/turbulence/Makefile: Forgot to commit with generic 2-eq.
	  model

2001-11-18 20:06  gotm

	* Makefile: Added 2.3.8 + VERSION

2001-11-18 20:02  gotm

	* src/turbulence/genericeq.F90: Problems with avmolu - should be
	  passed

2001-11-18 17:27  gotm

	* src/util/w_split_it_adv.F90: Higher order advektion schemes
	  implemented

2001-11-18 17:15  gotm

	* src/turbulence/: genericeq.F90, tkeeq.F90, turbulence.F90: New
	  generic two-equation model

2001-11-18 17:06  gotm

	* src/observations/: get_zeta.F90, observations.F90: Avoid namelist
	  member clashes by changing names in zetaspec

2001-11-18 17:02  gotm

	* src/meanflow/production.F90: Allow no_shear calculation

2001-11-18 16:58  gotm

	* src/: gotm/gotm.F90, meanflow/meanflow.F90,
	  meanflow/updategrid.F90: Vertical grid can now be read from file

2001-11-18 14:20  gotm

	* Makefile: New unstable releases

2001-11-18 14:07  gotm

	* src/gotm/main.F90: Cleaned

2001-11-18 12:56  gotm

	* src/Rules.make: Changed toplevel directory: TOPDIR --> GOTMDIR

2001-11-18 12:51  gotm

	* src/output/output.F90: Fixed a typo

2001-11-18 12:51  gotm

	* src/output/asciiout.F90: Now format statements

2001-11-18 12:50  gotm

	* src/meanflow/: buoyancy.F90, stratification.F90, temperature.F90:
	  Cleaned

2001-11-18 12:43  gotm

	* src/airsea/airsea.F90: Cleaned

2001-06-13 09:40  gotm

	* src/: airsea/airsea.F90, gotm/gotm.F90: Lon, lat was hardcoded in
	  meteo.F90 - now passed via init_meteo()

2001-05-31 14:23  gotm

	* src/Makefile: Target - doc - is now correct

2001-05-31 14:22  gotm

	* Makefile: Easier to release a new unstable release - just - make
	  release

2001-05-31 14:00  gotm

	* src/: Makefile, gotm/main.F90, meanflow/Makefile,
	  meanflow/uequation.F90, meanflow/vequation.F90,
	  observations/get_ext_pressure.F90: Correction in the calculation
	  of the shear squared calculation - now according to Burchard 1995
	  (Ph.D. thesis).  Also some cosmetics and cleaning of Makefiles.

2001-05-23 13:32  gotm

	* src/Rules.make: Use env. variable to get compilation mode

2001-03-06 14:58  gotm

	* include/version.h, src/Makefile: The ../include/version.h target
	  now include an #ifndef RELEASE

2001-03-05 16:13  gotm

	* Makefile, VERSION: Ready for v2.3.3 - hopefully.

2001-03-05 16:07  gotm

	* Makefile: added Makefile in top directory

2001-03-05 14:58  gotm

	* VERSION, include/version.h, src/meanflow/Makefile,
	  src/meanflow/uequation.F90: preparing for release

2001-03-05 14:22  gotm

	* src/output/variances.F90: removed variances.F90

2001-03-05 14:21  gotm

	* src/meanflow/diagnostics.F90.kbk: removed diagnostics.F90.kbk

2001-03-05 14:21  gotm

	* src/meanflow/pressuregradient.F90: removed pressuregradient.F90 -
	  thanks Andy

2001-02-13 17:03  gotm

	* src/Rules.make: #$Id#  -> #$Id$

2001-02-13 15:24  gotm

	* src/Rules.make: Added $Id$ to Rules.make

2001-02-12 19:32  gotm

	* src/turbulence/gotm_lib_version.cpp.f90: Should not have been in
	  CVS at all.

2001-02-12 16:55  gotm

	* BUGS, COPYING, HISTORY, INSTALL, NOTE_TO_DEVELOPERS, README,
	  ROADMAP, VERSION, doc/Makefile, doc/README, doc/code_a4.tex,
	  doc/code_letter.tex, include/cppdefs.h, include/version.h,
	  src/Makefile, src/Rules.make, src/airsea/Makefile,
	  src/airsea/airsea.F90, src/airsea/tst_airsea.F90,
	  src/extras/seagrass/Makefile, src/extras/seagrass/seagrass.F90,
	  src/extras/sediment/Makefile, src/extras/sediment/sediment.F90,
	  src/meanflow/Makefile, src/meanflow/buoyancy.F90,
	  src/meanflow/convectiveadjustment.F90, src/meanflow/coriolis.F90,
	  src/meanflow/diagnostics.F90.kbk, src/meanflow/extpressure.F90,
	  src/meanflow/friction.F90, src/meanflow/intpressure.F90,
	  src/meanflow/lightabsorbtion.F90, src/meanflow/meanflow.F90,
	  src/meanflow/pressuregradient.F90, src/meanflow/production.F90,
	  src/meanflow/salinity.F90, src/meanflow/stratification.F90,
	  src/meanflow/temperature.F90, src/meanflow/uequation.F90,
	  src/meanflow/updategrid.F90, src/meanflow/vequation.F90,
	  src/util/Makefile, src/util/advection.F90, src/util/time.F90,
	  src/util/yevol.F90, src/observations/Makefile,
	  src/observations/analytical_profile.F90,
	  src/observations/get_eps_profile.F90,
	  src/observations/get_ext_pressure.F90,
	  src/observations/get_int_pressure.F90,
	  src/observations/get_s_profile.F90,
	  src/observations/get_t_profile.F90,
	  src/observations/get_vel_profile.F90,
	  src/observations/get_w_adv.F90, src/observations/get_zeta.F90,
	  src/observations/observations.F90,
	  src/observations/read_extinction.F90, src/output/Makefile,
	  src/output/asciiout.F90, src/output/ncdfout.F90,
	  src/turbulence/Makefile, src/turbulence/algebraiclength.F90,
	  src/turbulence/changed, src/turbulence/cmue_bb.F90,
	  src/turbulence/cmue_bbqe.F90, src/turbulence/cmue_ca.F90,
	  src/turbulence/cmue_caqe.F90, src/turbulence/cmue_cb.F90,
	  src/turbulence/cmue_cbqe.F90, src/turbulence/cmue_kc.F90,
	  src/turbulence/cmue_kcqe.F90, src/turbulence/cmue_ma.F90,
	  src/turbulence/cmue_rf.F90, src/turbulence/cmue_sg.F90,
	  src/turbulence/dissipationeq.F90,
	  src/turbulence/gotm_lib_version.F90,
	  src/turbulence/gotm_lib_version.cpp.f90,
	  src/turbulence/ispralength.F90, src/turbulence/lengthscaleeq.F90,
	  src/turbulence/potentialml.F90, src/turbulence/tkealgebraic.F90,
	  src/turbulence/tkeeq.F90, src/turbulence/turbulence.F90,
	  src/util/eqstate.F90, src/util/gridinterpol.F90,
	  src/util/tridiagonal.F90, compilers/compiler.NAG,
	  src/gotm/Makefile, src/gotm/gotm.F90, src/gotm/main.F90,
	  src/output/diagnostics.F90.HB, src/output/gradsout.F90,
	  src/output/ncdfout.F90.keep, src/output/output.F90,
	  src/output/variances.F90, templates/change_date,
	  templates/feature.txt, templates/iroutine.txt,
	  templates/keywords, templates/module.txt, templates/routine.txt:
	  Initial revision

2001-02-12 16:55  gotm

	* BUGS, COPYING, HISTORY, INSTALL, NOTE_TO_DEVELOPERS, README,
	  ROADMAP, VERSION, doc/Makefile, doc/README, doc/code_a4.tex,
	  doc/code_letter.tex, include/cppdefs.h, include/version.h,
	  src/Makefile, src/Rules.make, src/airsea/Makefile,
	  src/airsea/airsea.F90, src/airsea/tst_airsea.F90,
	  src/extras/seagrass/Makefile, src/extras/seagrass/seagrass.F90,
	  src/extras/sediment/Makefile, src/extras/sediment/sediment.F90,
	  src/meanflow/Makefile, src/meanflow/buoyancy.F90,
	  src/meanflow/convectiveadjustment.F90, src/meanflow/coriolis.F90,
	  src/meanflow/diagnostics.F90.kbk, src/meanflow/extpressure.F90,
	  src/meanflow/friction.F90, src/meanflow/intpressure.F90,
	  src/meanflow/lightabsorbtion.F90, src/meanflow/meanflow.F90,
	  src/meanflow/pressuregradient.F90, src/meanflow/production.F90,
	  src/meanflow/salinity.F90, src/meanflow/stratification.F90,
	  src/meanflow/temperature.F90, src/meanflow/uequation.F90,
	  src/meanflow/updategrid.F90, src/meanflow/vequation.F90,
	  src/util/Makefile, src/util/advection.F90, src/util/time.F90,
	  src/util/yevol.F90, src/observations/Makefile,
	  src/observations/analytical_profile.F90,
	  src/observations/get_eps_profile.F90,
	  src/observations/get_ext_pressure.F90,
	  src/observations/get_int_pressure.F90,
	  src/observations/get_s_profile.F90,
	  src/observations/get_t_profile.F90,
	  src/observations/get_vel_profile.F90,
	  src/observations/get_w_adv.F90, src/observations/get_zeta.F90,
	  src/observations/observations.F90,
	  src/observations/read_extinction.F90, src/output/Makefile,
	  src/output/asciiout.F90, src/output/ncdfout.F90,
	  src/turbulence/Makefile, src/turbulence/algebraiclength.F90,
	  src/turbulence/changed, src/turbulence/cmue_bb.F90,
	  src/turbulence/cmue_bbqe.F90, src/turbulence/cmue_ca.F90,
	  src/turbulence/cmue_caqe.F90, src/turbulence/cmue_cb.F90,
	  src/turbulence/cmue_cbqe.F90, src/turbulence/cmue_kc.F90,
	  src/turbulence/cmue_kcqe.F90, src/turbulence/cmue_ma.F90,
	  src/turbulence/cmue_rf.F90, src/turbulence/cmue_sg.F90,
	  src/turbulence/dissipationeq.F90,
	  src/turbulence/gotm_lib_version.F90,
	  src/turbulence/gotm_lib_version.cpp.f90,
	  src/turbulence/ispralength.F90, src/turbulence/lengthscaleeq.F90,
	  src/turbulence/potentialml.F90, src/turbulence/tkealgebraic.F90,
	  src/turbulence/tkeeq.F90, src/turbulence/turbulence.F90,
	  src/util/eqstate.F90, src/util/gridinterpol.F90,
	  src/util/tridiagonal.F90, compilers/compiler.NAG,
	  src/gotm/Makefile, src/gotm/gotm.F90, src/gotm/main.F90,
	  src/output/diagnostics.F90.HB, src/output/gradsout.F90,
	  src/output/ncdfout.F90.keep, src/output/output.F90,
	  src/output/variances.F90, templates/change_date,
	  templates/feature.txt, templates/iroutine.txt,
	  templates/keywords, templates/module.txt, templates/routine.txt:
	  initial import into CVS