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Add NEMS documentation #33

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MinsukJi-NOAA
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*Include in .gitignore NEMS/doc/html/ and NEMS/doc/webpage.tar.gz
*Remove milestones.dox which is no longer needed
*Modify Makefile to include doxygen command on Hera
*Add README.md for instructions on building documentation
*Remove in prep_inputs.py two functions related to milestones
*Add Doxyfile in NEMS/.gitignore
*Modify Doxyfile.IN to ignore README.md
@MinsukJi-NOAA MinsukJi-NOAA merged commit b7b7585 into NOAA-EMC:release/public-v1 Feb 26, 2020
@MinsukJi-NOAA MinsukJi-NOAA deleted the feature/documentation branch February 26, 2020 19:22
MinsukJi-NOAA added a commit that referenced this pull request Mar 27, 2020
* Set default values for model_configure variables (#18)

RUN_CONTINUE = .false.
 ENS_SPS = .false.
 TOTAL_MEMBER = 1

* fixes problem with MPI_Comm_Split in openmpi when hash is negative

* removed redundant check on hash > 0

* Add GNU LPGL (#32)

* Add NEMS documentation (#33)

* Add nems documentation in doc directory

*Include in .gitignore NEMS/doc/html/ and NEMS/doc/webpage.tar.gz
*Remove milestones.dox which is no longer needed
*Modify Makefile to include doxygen command on Hera
*Remove in prep_inputs.py two functions related to milestones

* Remove webpage.tar.gz file

* Update NEMS documentation

*Add Doxyfile in NEMS/.gitignore

* Update based on documentation meeting

* Updates to the documentation (#35)

* Documentation update (#36)

* Modify license file (#37)

* Modify license file

* Fix typo in license

Co-authored-by: Dusan Jovic <48258889+DusanJovic-NOAA@users.noreply.github.com>
Co-authored-by: Mark A. Potts <mark.potts@noaa.gov>
Co-authored-by: Mark Potts <mpotts@redlineperf.com>
Co-authored-by: Mark Potts <33099090+mark-a-potts@users.noreply.github.com>
Co-authored-by: arun chawla <49994787+arunchawla-NOAA@users.noreply.github.com>
hyunchul386 pushed a commit to hyunchul386/NEMS that referenced this pull request Jul 24, 2020
MinsukJi-NOAA pushed a commit that referenced this pull request Jul 27, 2020
* update cice6 component mk

* update path for forapps/ufs

* update paths to MOM6 and CICE interfaces (#33)

Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
MinsukJi-NOAA pushed a commit that referenced this pull request Sep 4, 2020
* update cice6 component mk

* update path for forapps/ufs

* update paths to MOM6 and CICE interfaces (#33)

* cice6 compile (#71) (#34)

* update cice6 component mk

* update path for forapps/ufs

* update paths to MOM6 and CICE interfaces (#33)

Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>

Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>

* remove SITE and use MACHINE_ID

* switch MOM6 location

Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
MinsukJi-NOAA pushed a commit that referenced this pull request May 3, 2021
* cice6 compile (#71) (#34)

* update cice6 component mk

* update path for forapps/ufs

* update paths to MOM6 and CICE interfaces (#33)

Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>

Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>

* start cleanup

* remove NEMS mediator files and Spaceweather Mediator file

* remove FieldDictionary add and unused components

* use fd_nems.yaml for FieldDictionary
* remove unused FRONT_COMPONENT and DriverAddComp:
* NMMB,GSM,MOM5,CICE5,POM,WRFHYDRO
* "S" components, "X" components

* remove ESMF Version<8 code blocks

* clean up error logging

*use  ChkErr function like in CMEPS,MOM6,CICE6 caps

* clean up DriverAddComp statements

* reduce lines required to add each component or reporting
on an unfound component by adding "found_comp" logical. This
allows a single error statement to be used for each possible
"not found" error

* add attribute print flag

* add logical flag to control whether attributes are written to
PET logs at startup

* set attribute printing false

* remove unused bits of NEMS_UTILS; whitespace cleanup

* remove RTC and TIMEF from MAIN_NEMS

* remove earth and nems internal state files

* replace ifdef IBM to fix gnu compile failure

/scratch2/NCEPDEV/nwprod/hpc-stack/src/hpc-stack/pkg/upp-upp_v10.0.6/sorc/ncep_post.fd/PROCESS.f:81: undefined reference to `timef_'

Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
MinsukJi-NOAA pushed a commit that referenced this pull request Nov 3, 2021
* cice6 compile (#71) (#34)
* update cice6 component mk
* update path for forapps/ufs
* update paths to MOM6 and CICE interfaces (#33)
Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
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