[cdftools] branch master created (now 86b6997)
Alastair McKinstry
mckinstry at moszumanska.debian.org
Fri Jun 12 08:21:21 UTC 2015
This is an automated email from the git hooks/post-receive script.
mckinstry pushed a change to branch master
in repository cdftools.
at 86b6997 Add Vcs-Git
This branch includes the following new commits:
new 8807fa9 * Initial project roots
new c3a565b JMM reorganizing the tree on servforge
new b3d90a8 JMM modify cdfvT in order to handle multi timeframe input files
new fff297e JMM test de comit from foreign account
new 6cf2b6b JMM add raz_below option to cdfbathy
new 65f38dd JMM porting Pierre Mathiot Jade modification to the trunk on the forge
new 068bb6e JMM fixes in JOBS when phasing to PM version
new 8b5f445 JMM add macro.meolkerg
new d74be21 JMM add JOBS/cdfmoy-inter_month.ll
new f6638be JMM test on tag
new f294dac JMM update cdfmocsig with Carolina Dufour version
new 1269e0a CD add cdfspice a a new tool for computing spiceness (Flament, 2002)
new e148b31 JMM add masking of the spiciness in cdfspice
new 178bf33 JMM add latex documentation in DOC directory. Valid for both user guide and programmer guide.
new e5741bf JMM add propset to the DOC elements
new be2c196 JMM adjust Makefile in DOC
new 4e2ad50 RD fix a typo in cdf output for cdfhflx
new 568d3d4 JMM add option -set_below in cdfbathy in order to set a minimum value to the bathy
new 6b2bf91 JMM adjust set_below option in cdfbathy
new abf5b47 JMM allow z dim name in cdfbottom
new a0edd58 bug in cdfhflx about netcdf writing whan newmask_glo is present
new 9604810 cdfhflx : netcdf output in PW cdfmhst : missing parenthesis when writing INP heat and salt fluxes
new 4ab218c JMM add cdfpvor-full to the trunk
new b22ff0a JMM adapt Makefile for cdfpvor
new 24bce16 JMM+CD modification of cdfmocsig.f90 for EIV
new 5349e84 JMM add cdfnorth_unfold.f90 program. Not working at this revision
new 293ab2b JMM cdfnorth_unfold.f90 going on
new 46d0bb8 JMM new cdfnorth_unfold
new 37210d4 JMM fixes in cdfnorth_unfold
new 6588985 JMM cdfnorth_unfold fixes
new ca4b4ca JMM modify Makefile for cdfnorth_unfold
new 397ecda JMM some cometrics on cdfnorth_unfold
new db38689 JMM cdfnorth_unfold follow on ...
new c42e3ca RD : add cdfovide (extract tools for T,S,U,V along ovide section) and doc
new 3486c18 RD : fix problem in Makefile for cdfovide
new 018576b JMM add cdfmppini for off-line test of mppini_2.
new ef81d6b JMM add cdfmppini for off-line check of mppini_2
new 5a94224 JMM improvement of cdfmppini to take either mask or bathy or zgr file as input
new a50dc98 JMM update Makefile for cdfmppini
new 640e73f JMM add cdfnan for changing Nan in a file
new 99ec8fe JMM modify the cdfmoy series in order to add an additional attribute (iweight) indicating the number of frames used when computing the mean field. This extra attribute is used by the new tool cdfmoy_weight in order to compute mean values with files of different weight. This new tool make the use of cdfmoy_annual obsolete (this latter was only valid for 5-days output and simulation without leap years.
new 9235902 JMM commit a working version of monitor_prod for convenience
new 6d9cc14 RD : netcdf output for cdficediags, cdfmaxmoc, cdfmean, cdfsigtrp, cdfhflx becomes the standard behavior
new 3f4cc31 JMM working on monitor_prod_work.ksh
new 29abebc JMM add support to 'levels' vertical dimension in cdfmoy and cdfmoy_weighted fix units in cdfsigtrp nc output
new 8ff3919 JMM add the managment of weight in input files for cdfsigtrp
new b9fabf1 JMM : still on going work on monitor_prod_work
new 37c0a8a JMM add module cdftools which holds some of the existing cdftools as subroutine. cdf_findij is the first cdftool to be converted to routine. The cdffindij has been modified to take this into consideration
new a3785d6 JMM work on monitor_prod_work.ksh
new 37018a0 RD : add cdfpsi_level (streamfunction for each level) and cdfhdy (dynamic height computation)
new 806ddd0 JMM fix a potential bun in cdf_findij routine : set iloc and jloc to SAVE variable
new b000bc8 RD : add netcdf output in cdfprofile and computation between two levels in cdfhdy
new 7e2280f RD: improvement in netcdf output of cdfprofile.f90
new f38da03 JMM add cdftransportiz_noheat_obc and some improvement to cdfclip, cdfmppini
new 8f30765 JMM add netcdf output to cdftransportiz_noheat_obc.f90
new a686b1e RD : add hanning on cdfsmooth.f90 , different computation in cdfhdy.f90 and cosmetics in cdfprofile.f90
new 3e83b1b JMM cosmetics in cdfspice.f90
new 0ac0d2e JMM modified version of mkordre for MEAN directory
new 8b1828e RD: add the contrib of ssh in cdfhdy and shapiro filter in cdfsmooth
new d6a1f0d RD : cdfmean : add as a comment a bugfix for gfortran cdfhdy : bugfix in ssh contribution cdfhdy3d : new tool :same as cdfhdy but with 3D output file Makefile : add rule for cdfhdy3d
new a1cee8c add cdfzonalintdeg created by C. Dufour
new 5ddaf64 add cdffracinv.f90: fraction of inventory for CFC
new aeab2a4 add compilation of cdffracinv and cdfzonalintdeg
new 0fd39e0 modify cdfpendep
new c5ead39 modify cdfpendep.f90
new 13e3468 RD: modif in output netcdf variable names (consistency with monitoring)
new faccb08 JMM add capabilities in cdfbathy to deal with other (2D) files than bathymetry!
new d05ac49 JMM some cosmetics in cdficediags : rename cfilev to cfilei (file ice) for logical reasons
new a19794b JMM add cdfinfo as a minimalist tool for retrieving basic informations on files
new 4dd5990 JMM modified Makefile for cdfinfo
new 7b9d6b5 RD: add cdfmaskdmp : tools to create the mask for damping of the AABW
new 7eca42a JMM add macro.meolkara
new 21a3e63 JMM bug fix in std output of cdfvertmean.f90
new 56fe72e JMM modify cdfstdevts.f90 in order to compute Standard deviation instead of variance
new c475633 JMM adjust comments in cdfcsp (cosmetic)
new 3c67ea8 JMM restore 80 char length for comment variable in dimg/bimg files
new 06c8e56 JMM another modif in cdfconvert related to 80 char for dimg comment
new b6e41f8 JMM some reformating in cdfsiginsitu.f90 and cdfhdy.f90
new 27b76a3 RD: add cdfisopsi ( testing version ) compute a streamfunction on an isopycn
new e1eae91 RD: add cdf2matlab (sorry JM) , a tool that remaps with a monotonically increasing lon and allows to perform plots with matlab (bouh !) and python (yeah !)
new a2212a8 RD: add improvement for ORCA2
new aa7754d RD: tip in cdf2matlab
new 54439ce RD: add claude modif for vargas
new fd0884f AMT/JMM : new cdftool by Anne-Marie for binned sigma transport. To be cleaned
new 64334f2 JMM/AL : add large file capability to cdfio (64BIT_OFFSET).
new 3d64d8d JMM : change i3 format output to I4 for orca12 !
new a0061e1 JMM : check missing values in cdfmax
new 53a306e JMM : tag cdftansport_magda.f90 for robust sign conviention in cdftransportiz add cdffixtime.f90 for correcting corrupted time_counters and update of timecounter attributes
new 8012246 JMM : fix in cdffixtime
new 9c6bc1d JMM: modify cdfvita for taking level into consideration
new 9f944ae RD: add an example polygon file for cdfpolymask (in french)
new 1d50c3e JMM : fix spurious problems with integer vertices
new 92c21a5 JMM : Commit CDFTOOLS_3.0 on the trunk
new 9a361a2 JMM : update license file
new cdbf9d4 RD: cdfbottom fix chkfile cdfcoloc fix ctype compiler option gfortran
new 84726c0 RD: add anisotropic box filter option
new 2743e2b JMM : increase jptmax
new d7024fd JMM add cdfvita-geo.f90
new 5a306ff JMM fix npk=0 in cdfvita-geo
new 07fb2b9 RD: bugfix in cdfmean, missing IF( lvar ) line 368
new 7c9bcda JMM : add modification by Pierre MAthiot in cdfmkmask( use of i,j limits) and cdficediags ( add lim3 naming convention as option)
new 51d705c JMM: add macro.curie
new ffa7377 JMM+PM : generalize namelist process in cdfio ( ie no more nav_lon, nav_lat hard coded in cdfio fix a bug in cdfmoyt (missing initialisation of cf_in.
new a39ffe8 JMM + PM : commit modification of cdfmoy_freq to take into account seasonal means
new 413f6ba JMM +PM : fix line length problem with gfortran in cdfsections.f90
new bafc188 JMM + PM : fix in cdfw.f90 for using velocity names as arguments
new f71aff5 PM : add cdfdiv for divergence computation
new 36188e0 JMM + PM : fix namelist statements in modcdfnames.f90
new 1496eea JMM PM : correction in cdfmkmask
new 1d706a4 JMM : add keywords to cdfdiv
new 70bd106 JMM propset Id on cdfdiv.f90
new b0ec277 JMM : demo de svn
new 02ba1bc JMM+PM : fix bug in cdfmkmask for zoom. Adapt code to file without time_counter
new 6178ca0 JMM : modify usage for cdfsmooth
new 878207f JMM : fix details in cdfmax to avoid out of bound arrays in layers where all data are missing
new b54b2e2 JMM : New tool : cdfscale usefull for scaling a variable in a file
new b5ef8bb CT : bug found in cdfmxl : mbathy can be 0 and is used as index of gdepw which are defined from 1. fix is to allocate gdepw(0:jpk)
new fa7ae04 JMM : bug fix in cdfmoy_weighted : flag lold5d was not initialized to false.
new 712bbc1 JD+JMM : first commit of Julie's tool in CDFTOOLS 3.0 -- cleaning of native NF90 calls required --
new 35b4862 JMM : clean julie's cdfvFWov.f90 for output.
new 8088ce9 JMM : fix conflicts in cdffindij and cdftools for coordinate file name
new 38206f7 JMM : remove USE netcdf from cdfvFWov.f90
new 8028bdd JMM : update Makefile for cdfvFWov
new 8a9a1a8 JMM : bug fix in cdfmxl (only in cdftools3 ) : vertical shift of one level in gdepw ...
new 4d36882 JMM : cleaning in cdfmxl.f90. Port fix from cdfmxl to cdfmxlheatc, cdfmxlhcsc [ gdepw(0) is addressed eventually -land- ]
new a7c4313 JMM + JD : bugfix in cdfmoc for compilation on vargas
new 914a0ec JMM : fixes in cdfnan to make compilation on vargas feasable fixes in Makefile and macro.vargas to make compilation of cdfnamelist feasable
new dc54f42 JMM : minor adjustment in cdfstd (ELSE WHERE -> ELSEWHERE) for gfortran adjust usage message for -fact factor in cdfzoom: factor is a dividing factor
new 23ab41a JMM : add -mbathy option to cdfmkmask in order to build mask.nc from mbathy
new 1c8fe67 JMM : fic in cdfmkmask
new 00c3fe9 JMM : fixes in cdfmkmask for -mbathy option
new 5abb7aa JMM : bug fix in cdfvertmean : correct missing initialization of dvold2d
new 49ace5c JMM : update install dir for meolkerg
new 116db0b JMM: modification of transport tools ( cdftransport.f90 and cdfsigtrp.f90) in order to be able to fix variable name and longname from standard input or input file. This is an option. If not provided, those tools work as before.
new b8b6430 JMM : add -dep option for cdfprofile, in order to provide a vertically interpolated value of a profile
new 481c5f2 JMM : fix for extra option in cdfprofile
new 23a889d JMM : final touch to cdfprofile with -dep option
new f9cb0d6 JMM + PM : fixes in cdfspeed for 2D fields add options in cdfzonalmean for model using bottom-up vertical numbering (eg CLIO )
new 68fd027 JMM + PM : fix proposed by PM when using namelist system.
new faa72ca JMM : fix output for 2D arrays
new d4e09c5 JMM : an almost major change : default name for the missing value attribute becomes _FillValue instead of missing_value which is now obsolete. However, the tools still correctly interpret the 'missing_value' attribute. Also the modif allows some variant : 'missing_value', _Fillvalue, or Fillvalue.
new 979c151 JMM : fix for gfortran compilation in the declaration of cl_missing_nm
new e4772fb JMM : correction in putheadervar for standard depth name. Previous fix introuduced a bug !
new 8eb4f97 JMM : modification in cdfio to add Global attribute to output file. - start_date, output_frequency, CONFIG, CASE as well as a correct time_counter attribute. ( in coherency with DCM)
new 2d3c29a JMM : fix type of missing value to fit type of associated variable
new 0139c44 JMM +AL+TCD : Bug fix in cdfcensus : reset cumulating variable to 0 between each time frame
new bf848b9 JMM : add fonctionality for leap years in cdffixtime (btw, noleap is probably not very accurate ...) add the possibility to se CONFIG CASE start_date and output_frequency global attributes with environment variables.
new c435f7b JMM : bug fix for -zeromean option in cdfmean ( duplicate allocation)
new 04807fc JMM : fix a bug (no impact on computation) in cdfmean.f90, when kmin > 1 in the vertical limit.
new b81382e JMM : add option -rapid in cdfmoc, which provide information on the RAPID/MOCHA section.
new 2424425 JMM : fix details for rapid option in cdfmoc ( for time_counter correct attribute.)
new fb2a372 JMM +PM : change the order of multiplication by 1.d0 in cdfzonalmean, in order to deal with huge _FillValue w/o overflow error
new 2b393c3 JMM : modify putheadervar in case of missing nav_lon, nav_lat
new 882e765 RD: add a geostrophy tool,to be checked
new 0e5d83e time counter bug corrected
new 7907e87 RD: correct bug, only first level sign was corrected
new 58c24dd AL+JMM: fix problems in cdfnan and add test for huge values as well. ( +Infinity > huge ! )
new e98c02f * Add online manuel: man cdftools
new 28826d0 * Add target help
new 7c072a7 JMM : add option in cdfnan
new 2be45fd ND: add cdfokubo-w cdftool for computing Okubo-Weiss parameter. Modify Makefile to take it into account
new c8022b3 JMM : update License file to add G. Moreau and N. Djath as contributors
new 166c77e JMM : fix a bug in cdfwhereij for alternate coordinate file ( -c option): character variable too short
new e1b4388 JMM : add Nicolas Ferry update for cdfmoc including extra diags for the -rapid option This changeset includes additional fixes in cdfio.f90 and mpdcdfnames.f90 (minor)
new 793188a JMM : add new cdftool : cdfzisot developped by F. Hernandez (Mercator), for isotherm computation.
new 610f25d JMM : update makefile for cdfzisot
new 7d7133a JMM : include N. Ferry and F. Hernandez as contributors in the CECill license
new 1215e88 JMM : change in cdfmxl : add 4 manners for computing MLD, taking the reference at 10m instead of the surface. This addition is due to F. Hernandez Mercator in the frame of GSOP/GODAE Previous diags still exist, but _Fill_Value is changed to 32767 for Mercator compliance
new a036eaa AL : add cdfcmp and cdfchgrid + related modifications in Makefile
new ff0f42e JMM: fix a typo in Makefile for cdfzisot
new 42b4049 JMM : add macro for ICM BArcelona
new e71c61b JMM +NF : add new function in cdfio to deal with attributes of time variable ( usefull for cdf2levitusgrid2d to come ...)
new 65035b9 JMM+NF : incorporate NF shapiro module into modutils.f90 in preparation to cdf2levitusgrid2d.f90 (next to come !)
new 9734e4d JMM +NF : add cdf2levitusgrid2d.f90 and changes in the Makefile
new 00d612e JMM: propset and cosmetics in cdf2levitusgrid2d. propset and change some var to dble prec for cdfgeostrophy.f90
new b11df79 JMM : add suffix D0 to dble prec parameter
new a41a5f8 JMM : add check for mask.nc file in cdf2levitusgrid2d.f90
new 42e5d80 JMM : add an optional parameter to cdf_findij in module cdftools to restrain verbosity of the output
new dd8b931 JMM : add cdf2levitusgrid2d in the list of executable to build in 'all' target of the Makefile
new 6f211f5 JMM+MB : merging improvements/modifications from Magdalena Balmaseda (ECMWF)
new d326d9a JMM: merge cdfmhst with Magdalena's one: allow for computing mhst from V T [S] files, allow for saving vertical structure of mhst.
new cb389c8 JMM : add cdfstats form M. Balmaseda for computing statistical estimates between files
new 0cdaac7 JMM : add cdfvint in CDFTOOLS_3.O norm. Contribution from M.A Balmaseda
new 14b17a7 JMM : add J. Deshayes as contributor in the License file
new 5919a76 JMM : I broke the built ;) of cdffindij when porting N. Ferry modif to cdftools... : cdffindij was mute I added now the missing cd_verbose='y' and restore the std behaviour
new facd4ef JMM : add propset to some files
new f3c411e * Character LEN=5, add a space to be gfortran compatible
new a77efb6 JMM : add macro.ada
new 2f06676 JMM : suppress verbosity in SetFileName ( most of the time gridS file not found filled up the log files)
new cb59694 JMM : adjusts 'man' part of the tools for cdfmaxmoc and cdfvT in order to correct some typos and to make clearer the use of the tool.
new a563e9a JMM : add cdfbotpressure.f90
new 0e1c8f2 JMM : bug fix in cdfstd.f90 ( GS)
new 07dd029 JMM : fix from Erik Behrens in cdfbotpressure. Add him in the Licence for contribution
new f6274c6 JMM : add vayu in Macrolib
new afc520a JMM : add velocitu direction in cdfvita
new ba24daa JMM : solve incohencies in the type of the variables compared to cdfweight
new c615f46 JMM : work on cdfcoloc to put it in agreement with cdfweight
new d397090 JMM : add more comment in case of error in getatt change format in cdfsigtrp for big config
new eca2e10 JMM : update mcaro.ada for cdftools
new c122e05 JMM : add -geo option in cdfvita, in order to be able to work with geostrophic velocities
new 0036db6 JMM : bug fix in cdfgeo-uv ; missing allocation for time, and eventual division by 0 at the equator
new da798c6 JMM : adapt cdfvita for file with no depth
new 10ed6a6 JMM : fix bugs in cdf2levitusgrid2d.f90 and related action in cdfio for time attribute
new 5d32d05 JMM : add lon, lat variable in outputfile when using cdf2levitusgrid2d ( includes a modification in cdfio )
new 18bc95a JMM : add global attribute with full command name in cdfmaskdmp, adjust valid min and max, add long_name, short_name and units
new 1ee4386 JMM : add missing help for -absmax option in cdfnan
new 52cf4a6 JMM : change character lengh of input argument as * instead of fix 255
new e2e0686 JMM : add printing in cdfsumm for surface, mean value, and mean over time in case of multi time frame file
new f5a7f68 JMM +GM : bug fix in cdfsigintegr : wrong index in the file loop. improvement : save the mean value of the scalar computed in the density layer.
new 4f73d79 JMM : cdfrhoproj improve documentation and stop after writing isopycn depth when -isodep is used.
new 5799ea5 ND: add cdfgradT in cdftools
new b298184 WIP: first cut
new e2ad587 cdftools not utils
new e5b2511 WIP: Next cut. First build
new 6e89cb6 M-A enable ; harden
new 1217386 Remove M-A stuff
new 8669676 Remove M-A stuff
new f463f8d Harder.
new 6d88eb9 WIP: More Hardening
new cc1ffd2 Add (incomplete) bash and manpages
new 608c2bb bash.completion feature-complete on simple expansion
new 80e2bea Delete broken overrides
new a8a5052 Try --as-needed
new 466d52e Minor changes
new 27c2c9f Try 2 of copyright
new 61e7d8c Man pages in progress.
new bd54707 Update date
new 86b6997 Add Vcs-Git
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