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Merge branch 'jgfouca/branch-for-to-acme-11-27-2017-pr' into master (PR
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#1927)

Feature list:

Big refactor to baseline handling, better defaults for baseline tools
Add new LDSTA test type
Add bless logging capability
Redo mct and mpi-serial buildlib scripts in python, move mkDepends, mkSrcFiles and Makefile from model machines directory to Tools directory.
Fix bld logging

Fixes: #1897

[BFB]

* jgfouca/branch-for-to-acme-11-27-2017-pr: (54 commits)
  Update ChangeLog
  gptl build threaded, makefile cleanup
  add shr include directory to vpath so that shr_assert_mod dependancy is satisfied
  Fix run_sub_or_cmd in the case where a cmd is run and log is None
  Enable ldsta to be run twice from scripts_regression_tests
  Update ChangeLog
  Major refactor of baseline handling.
  Add LDSTA to cime_developer test suite
  Limit to acme
  fix clm build
  Add function to ensure correct bld logging.
  Significantly reduce time to simulate. Test days for last-date option. Rename get_file_date in case_st_archive to be a public function
  response to review
  fix csm_share install step
  mv Makefile to Tools dir
  move mkDepends and mkSrcfiles to Tools directory
  fix pylint issues
  redo mct buildlib
  Convert scripts_regression_tests prototype test into a system test
  mpi-serial now working
  ...
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jgfouca committed Nov 28, 2017
2 parents d2aa465 + 04482e3 commit d053168
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215 changes: 215 additions & 0 deletions ChangeLog
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Original file line number Diff line number Diff line change
@@ -1,5 +1,220 @@
======================================================================

Originator: Chris Fischer
Date: 11-22-2017
Tag: cime5.4.0-alpha.11
Answer Changes: None
Tests: scripts_regression_tests.pr
Dependencies:

Brief Summary:
- GPTL build threaded, makefile cleanup.
- Changes in merged Makefile to satisfy dependancies thus making rebuild faster.
- Fix run_sub_or_cmd in the case where a cmd is run and log is None.
- Enable ldsta case.submit to be run twice.

User interface changes:

PR summary: git log --oneline --first-parent [previous_tag]..master
5ea8d6b Merge pull request #2092 from jedwards4b/gptl_build_threaded
4361a51 Merge pull request #2090 from jedwards4b/makefaster
ca4c1f9 Merge pull request #2086 from ESMCI/jgfouca/run_sub_no_log
5791d32 Merge pull request #2084 from ESMCI/mfdeakin-sandia/ldsta/rerun

Modified files: git diff --name-status [previous_tag]
M scripts/Tools/Makefile
M scripts/lib/CIME/SystemTests/ldsta.py
M scripts/lib/CIME/build.py
M scripts/lib/CIME/case_run.py
M scripts/lib/CIME/preview_namelists.py
M scripts/lib/CIME/utils.py
M src/build_scripts/buildlib.gptl


======================================================================

======================================================================

Originator: Chris Fischer
Date: 11-17-2017
Tag: cime5.4.0-alpha.10
Answer Changes: None
Tests: cime_developer, scripts_regression_test
code_checker, create_test cime_developer
SMS.f09_g17.B1850.yellowstone_intel
cime_tiny
Dependencies:

Brief Summary:
- Add LDSTA to cime_developer test suite.
- Major refactor of baseline handling.
- Add bless logging capability.
- Fix clm build.
- Add function to ensure correct bld logging.
- Short term archiver last date option test.
- Redo mct and mpi-serial buildlib scripts in python.
- Add a list of test types to the users guide.
- Fix MCC test on master.
- Fix csm_build, remove debug print statement.
- Cleanup gptl build, replace perl buildlib.csm_share with python.
- Convert buildlib.gptl to python and call it and the buildlib.pio as subroutines.
- Run sub logging fixes.
- Fix redirection for run_sub to include stderr.
- Separate DATA_ASSIMILATION flag by component and add to Fortran infodata.
- Add unit tests of compare_two's handling of pass/fail in comparison.
- Fixes incorrect timer event name in data runoff model.
- Update from ACME 11-13-2017.
- Fix pylint issue.
- Locked files handled BUILD_COMPLETE better.
- Add optional COSTPES_PER_NODE.
- Switch melvin to use officially supported pfunit.
- USER_REQUESTED_ vars should go in env_batch.
- Use_existing needs to set FAIL states back to PEND.
- Add create_test options to config for user tuned defaults.
- Jgfouca/branch for acme split 11-07-2017 pr.
- Improve email handling.
- Add retry capability to create_test.
- Convert line to utf-8.
- Change paths to case2 rundir and exeroot.

User interface changes:
- Better defaults for bless_test_results and compare_test_results.
- New bless_log file in baseline dirs.
- Allow multiple -m args to case.submit. Allows user to put email settings in .cime/config.
- New --retry option to create_test.

PR summary: git log --oneline --first-parent [previous_tag]..master
6dd002f Merge pull request #2074 from ESMCI/mfdeakin-sandia/cime_developer/ldsta
0c4ffa7 Merge pull request #2079 from ESMCI/jgfouca/major_baseline_refactor
5ac2f90 Merge pull request #2069 from ESMCI/jgfouca/add_bless_logs_2
c80333f Merge pull request #2076 from jedwards4b/clmbuildfix
09e6061 Merge pull request #2073 from ESMCI/jgfouca/fix_bld_logging
09aadd0 Merge pull request #2071 from ESMCI/mfdeakin-sandia/test_sta_last_date
8765c9c Merge pull request #2072 from jedwards4b/rebuildmct
92f74f8 Merge pull request #2062 from ESMCI/fischer/testtype_doc
690e7f7 fix MCC test on master
a3d1554 fix csm_build, remove debug print statement
71fbd56 Merge pull request #2067 from jedwards4b/rebuildlibs
27fbbbd Merge pull request #2065 from jedwards4b/run_sub_logging_demo
9bea9a4 Merge pull request #2064 from ESMCI/jgfouca/run_sub_logging_fixes
7e1c8b5 Merge pull request #2055 from ESMCI/jgfouca/run_sub_logging_fixes
53e1ddf Merge pull request #2039 from jedwards4b/data_assimilation_to_fortran_try1
559c50a Merge pull request #2060 from billsacks/compare_two_comparison_unit_tests
da29a73 Merge pull request #2054 from ESMCI/bishtgautam/drof
9442c93 Merge pull request #2052 from ESMCI/jgfouca/branch-for-acme-split-11-13-2017-pr
93461b6 fix pylint issue
52c1ad4 Merge pull request #2051 from jedwards4b/rebuild_after_error
d713717 Merge pull request #2050 from jedwards4b/COST_PER_NODE
134cb8f Merge pull request #2049 from ESMCI/jgfouca/switch_melvin_to_offical_pfunit
5de7b7e Merge pull request #2047 from jedwards4b/fix_for_user_requested_flags
04e56d2 Merge pull request #2045 from ESMCI/jgfouca/fix_use_existing
e091e2a Merge pull request #2042 from jedwards4b/create_test_options_in_config
c44fce4 Merge pull request #2033 from ESMCI/jgfouca/branch-for-acme-split-11-07-2017-pr
d03cde1 Merge pull request #2035 from ESMCI/jgfouca/improve_email_handling
426f61c Merge pull request #2034 from ESMCI/jgfouca/create_test_retry
7c54009 Merge pull request #2038 from jedwards4b/fix_dae_test
daee7ac Merge pull request #2036 from billsacks/compare2_fix_dirs


Modified files: git diff --name-status [previous_tag]
M config/acme/allactive/config_pesall.xml
M config/acme/config_archive.xml
M config/acme/machines/Depends.cetus
M config/acme/machines/Depends.intel
A config/acme/machines/Depends.intel18
M config/acme/machines/Depends.mira
M config/acme/machines/Depends.summitdev.ibm
M config/acme/machines/Depends.titan.pgi
M config/acme/machines/Depends.titan.pgiacc
D config/acme/machines/Makefile
M config/acme/machines/config_batch.xml
M config/acme/machines/config_compilers.xml
M config/acme/machines/config_machines.xml
M config/acme/machines/config_pio.xml
D config/acme/machines/mkDepends
D config/acme/machines/mkSrcfiles
M config/acme/machines/syslog.cori-haswell
M config/acme/machines/syslog.cori-knl
M config/acme/machines/syslog.edison
M config/acme/testmods_dirs/allactive/cam/cosplite/xmlchange_cmnds
D config/cesm/machines/Makefile
M config/cesm/machines/config_batch.xml
M config/cesm/machines/config_machines.xml
D config/cesm/machines/mkDepends
D config/cesm/machines/mkSrcfiles
M config/config_tests.xml
M config/xml_schemas/config_batch.xsd
M config/xml_schemas/config_machines.xsd
M config/xml_schemas/env_mach_specific.xsd
M doc/source/users_guide/testing.rst
A scripts/Tools/Makefile
A scripts/Tools/acme_cime_merge
M scripts/Tools/acme_cime_split
M scripts/Tools/bless_test_results
M scripts/Tools/case.cmpgen_namelists
M scripts/Tools/case.submit
M scripts/Tools/case_diff
M scripts/Tools/compare_test_results
A scripts/Tools/mkDepends
A scripts/Tools/mkSrcfiles
M scripts/Tools/xmlchange
M scripts/create_test
M scripts/lib/CIME/SystemTests/dae.py
A scripts/lib/CIME/SystemTests/ldsta.py
M scripts/lib/CIME/SystemTests/pre.py
M scripts/lib/CIME/SystemTests/system_tests_common.py
M scripts/lib/CIME/SystemTests/system_tests_compare_two.py
M scripts/lib/CIME/XML/env_batch.py
M scripts/lib/CIME/XML/env_mach_specific.py
M scripts/lib/CIME/bless_test_results.py
M scripts/lib/CIME/build.py
M scripts/lib/CIME/case.py
M scripts/lib/CIME/case_run.py
M scripts/lib/CIME/case_st_archive.py
M scripts/lib/CIME/case_submit.py
M scripts/lib/CIME/check_lockedfiles.py
M scripts/lib/CIME/compare_test_results.py
M scripts/lib/CIME/get_timing.py
M scripts/lib/CIME/hist_utils.py
M scripts/lib/CIME/provenance.py
M scripts/lib/CIME/test_scheduler.py
M scripts/lib/CIME/tests/SystemTests/test_system_tests_compare_two.py
M scripts/lib/CIME/tests/case_fake.py
M scripts/lib/CIME/utils.py
M scripts/lib/CIME/wait_for_tests.py
A scripts/lib/acme_cime_mgmt.py
M scripts/lib/update_acme_tests.py
M scripts/tests/run_acme_ctest/runAcmeTest_template.sh
M scripts/tests/scripts_regression_tests.py
M src/build_scripts/buildlib.csm_share
M src/build_scripts/buildlib.gptl
M src/build_scripts/buildlib.mct
M src/build_scripts/buildlib.mpi-serial
M src/build_scripts/buildlib.pio
M src/components/data_comps/desp/cime_config/namelist_definition_desp.xml
M src/components/data_comps/drof/drof_comp_mod.F90
M src/drivers/mct/cime_config/buildnml
M src/drivers/mct/cime_config/config_component.xml
M src/drivers/mct/cime_config/config_component_acme.xml
M src/drivers/mct/cime_config/config_compsets.xml
M src/drivers/mct/cime_config/namelist_definition_drv.xml
M src/drivers/mct/main/cime_comp_mod.F90
M src/drivers/mct/main/cime_driver.F90
M src/drivers/mct/main/component_mod.F90
M src/drivers/mct/shr/seq_comm_mct.F90
M src/drivers/mct/shr/seq_infodata_mod.F90
M src/drivers/mct/shr/seq_timemgr_mod.F90
M src/share/timing/ChangeLog
M src/share/timing/Makefile
M src/share/timing/f_wrappers.c
M src/share/timing/gptl.c
M src/share/timing/gptl.inc
M src/share/timing/perf_mod.F90
M src/share/timing/private.h
======================================================================

======================================================================

Originator: Chris Fischer
Date: 11-08-2017
Tag: cime5.4.0-alpha.09
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