Mapping
Jens Daniel Müller
24 August, 2020
Last updated: 2020-08-24
Checks: 7 0
Knit directory: Cant_eMLR/
This reproducible R Markdown analysis was created with workflowr (version 1.6.2). The Checks tab describes the reproducibility checks that were applied when the results were created. The Past versions tab lists the development history.
Great! Since the R Markdown file has been committed to the Git repository, you know the exact version of the code that produced these results.
Great job! The global environment was empty. Objects defined in the global environment can affect the analysis in your R Markdown file in unknown ways. For reproduciblity it’s best to always run the code in an empty environment.
The command set.seed(20200707) was run prior to running the code in the R Markdown file. Setting a seed ensures that any results that rely on randomness, e.g. subsampling or permutations, are reproducible.
Great job! Recording the operating system, R version, and package versions is critical for reproducibility.
Nice! There were no cached chunks for this analysis, so you can be confident that you successfully produced the results during this run.
Great job! Using relative paths to the files within your workflowr project makes it easier to run your code on other machines.
Great! You are using Git for version control. Tracking code development and connecting the code version to the results is critical for reproducibility.
The results in this page were generated with repository version a804955. See the Past versions tab to see a history of the changes made to the R Markdown and HTML files.
Note that you need to be careful to ensure that all relevant files for the analysis have been committed to Git prior to generating the results (you can use wflow_publish or wflow_git_commit). workflowr only checks the R Markdown file, but you know if there are other scripts or data files that it depends on. Below is the status of the Git repository when the results were generated:
Ignored files:
Ignored: .Rproj.user/
Ignored: data/GLODAPv1_1/
Ignored: data/GLODAPv2_2016b_MappedClimatologies/
Ignored: data/GLODAPv2_2020/
Ignored: data/Gruber_2019/
Ignored: data/WOCE/
Ignored: data/World_Ocean_Atlas_2013_Clement/
Ignored: data/World_Ocean_Atlas_2018/
Ignored: data/eMLR/
Ignored: data/mapping/
Ignored: data/pCO2_atmosphere/
Ignored: dump/
Untracked files:
Untracked: output/figure/mapping/
Unstaged changes:
Modified: analysis/_site.yml
Deleted: analysis/mapping.Rmd
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1983-01-10_n_1235_cruise_238_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1983-11-25_n_407_cruise_239_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1986-03-12_n_1415_cruise_370_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1988-09-10_n_3163_cruise_242_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1989-02-16_n_58_cruise_621_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1989-05-08_n_96_cruise_275_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1989-08-18_n_475_cruise_371_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1991-06-22_n_211_cruise_284_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1991-09-15_n_398_cruise_286_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1992-09-20_n_845_cruise_296_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1993-05-31_n_516_cruise_300_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1993-07-11_n_377_cruise_338_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1993-08-02_n_1416_cruise_301_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1993-09-06_n_187_cruise_712_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1993-10-25_n_683_cruise_302_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1994-01-27_n_743_cruise_459_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1994-02-05_n_429_cruise_303_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1994-02-14_n_1959_cruise_297_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1994-04-27_n_1093_cruise_248_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1994-05-05_n_2283_cruise_270_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1994-05-07_n_231_cruise_428_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1994-08-31_n_86_cruise_429_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1994-10-11_n_765_cruise_102_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1994-12-28_n_1422_cruise_249_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1995-01-10_n_58_cruise_441_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1995-01-18_n_709_cruise_67_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1995-01-29_n_654_cruise_361_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1995-02-13_n_1804_cruise_250_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1995-03-12_n_211_cruise_362_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1995-03-29_n_1450_cruise_251_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1995-05-13_n_1431_cruise_252_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1995-06-26_n_1064_cruise_253_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1995-08-01_n_1569_cruise_254_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1995-09-02_n_341_cruise_431_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1995-09-21_n_1384_cruise_255_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1995-10-10_n_1383_cruise_339_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1995-11-18_n_684_cruise_256_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1995-12-26_n_1338_cruise_257_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1996-02-12_n_1867_cruise_280_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1996-03-07_n_1097_cruise_374_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1996-06-05_n_733_cruise_288_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1996-09-09_n_549_cruise_68_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1996-11-17_n_738_cruise_258_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1997-04-26_n_20_cruise_648_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1997-05-26_n_1028_cruise_160_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1997-05-27_n_307_cruise_42_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1997-06-14_n_1454_cruise_259_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1997-07-30_n_1096_cruise_260_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1997-08-25_n_770_cruise_261_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1997-11-22_n_209_cruise_464_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1998-02-11_n_635_cruise_341_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1998-03-14_n_196_cruise_69_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1998-06-07_n_44_cruise_448_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1998-06-28_n_38_cruise_449_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1998-10-09_n_33_cruise_409_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1998-11-24_n_250_cruise_465_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1999-05-17_n_90_cruise_467_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1999-05-31_n_324_cruise_461_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1999-09-05_n_87_cruise_468_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_1999-10-14_n_33_cruise_410_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2000-01-20_n_179_cruise_472_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2000-05-22_n_431_cruise_24_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2000-10-14_n_26_cruise_411_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2000-10-16_n_375_cruise_437_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2000-10-26_n_603_cruise_82_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2001-06-15_n_1120_cruise_83_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2001-06-23_n_361_cruise_476_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2001-08-14_n_814_cruise_477_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2001-09-04_n_31_cruise_478_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2001-09-12_n_390_cruise_438_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2001-11-17_n_898_cruise_70_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2002-04-01_n_46_cruise_682_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2002-05-29_n_26_cruise_706_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2002-06-27_n_146_cruise_263_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2003-03-14_n_647_cruise_484_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2003-08-10_n_1036_cruise_56_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2003-09-07_n_2595_cruise_486_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2003-10-06_n_1050_cruise_264_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2003-10-10_n_102_cruise_633_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2003-11-03_n_975_cruise_265_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2003-11-19_n_1218_cruise_487_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2004-01-02_n_1630_cruise_488_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2004-04-06_n_61_cruise_489_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2004-04-23_n_801_cruise_695_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2004-05-22_n_200_cruise_167_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2004-05-26_n_9_cruise_463_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2004-07-20_n_3224_cruise_272_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2004-08-18_n_876_cruise_490_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2004-10-22_n_81_cruise_492_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2004-11-27_n_926_cruise_493_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2005-01-10_n_682_cruise_72_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2005-01-25_n_2237_cruise_350_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2005-03-08_n_66_cruise_494_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2005-05-25_n_889_cruise_683_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2005-05-30_n_240_cruise_168_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2005-06-11_n_1490_cruise_495_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2005-09-14_n_1833_cruise_266_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2005-09-21_n_499_cruise_666_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2005-09-30_n_175_cruise_496_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2005-12-09_n_2541_cruise_497_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2006-03-09_n_1553_cruise_306_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2006-06-16_n_1_cruise_602_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2006-06-22_n_844_cruise_498_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2007-02-28_n_1668_cruise_352_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2007-03-09_n_1006_cruise_501_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2007-04-11_n_1914_cruise_353_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2007-05-31_n_600_cruise_327_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2007-08-14_n_1167_cruise_502_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2007-09-16_n_477_cruise_667_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2007-09-18_n_299_cruise_503_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2007-10-30_n_1748_cruise_504_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2007-12-07_n_1627_cruise_505_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2008-01-09_n_543_cruise_74_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2008-01-17_n_2443_cruise_345_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2008-02-20_n_1284_cruise_354_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2008-03-02_n_957_cruise_385_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2008-03-14_n_846_cruise_19_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2008-04-06_n_820_cruise_75_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2008-05-28_n_411_cruise_171_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2008-10-21_n_311_cruise_506_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2009-01-07_n_343_cruise_674_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2009-02-16_n_652_cruise_675_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2009-02-27_n_1162_cruise_84_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2009-03-29_n_1062_cruise_676_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2009-04-17_n_3549_cruise_355_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2009-05-18_n_2644_cruise_507_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2009-05-23_n_312_cruise_172_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2009-07-13_n_143_cruise_635_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2009-08-02_n_120_cruise_26_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2009-11-10_n_316_cruise_63_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2009-12-27_n_2668_cruise_273_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2010-01-25_n_928_cruise_699_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2010-03-30_n_2265_cruise_346_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2010-04-03_n_367_cruise_703_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2010-05-26_n_161_cruise_1085_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2010-06-26_n_157_cruise_1063_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2010-07-26_n_1203_cruise_609_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2010-08-19_n_80_cruise_1064_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2010-10-17_n_136_cruise_2028_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2010-11-15_n_83_cruise_2029_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2010-12-22_n_1296_cruise_20_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2011-01-17_n_107_cruise_1065_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2011-01-30_n_269_cruise_1087_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2011-02-18_n_116_cruise_1066_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2011-03-21_n_1930_cruise_295_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2011-05-18_n_510_cruise_174_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2011-06-25_n_249_cruise_1067_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2011-07-07_n_2107_cruise_517_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2011-10-09_n_617_cruise_347_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2011-10-26_n_204_cruise_2031_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2012-02-06_n_144_cruise_1090_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2012-02-06_n_586_cruise_1002_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2012-02-19_n_235_cruise_1069_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2012-04-04_n_1059_cruise_329_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2012-04-15_n_99_cruise_2033_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2012-05-01_n_1379_cruise_330_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2012-06-07_n_141_cruise_1029_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2012-06-26_n_386_cruise_1092_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2012-07-20_n_784_cruise_1071_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2012-08-15_n_1114_cruise_518_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2012-11-12_n_161_cruise_1073_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2012-12-05_n_200_cruise_2071_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2012-12-12_n_113_cruise_1074_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2012-12-15_n_775_cruise_1050_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2013-01-23_n_823_cruise_1051_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2013-01-29_n_350_cruise_1093_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2013-02-19_n_217_cruise_1076_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2013-03-14_n_208_cruise_2072_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2013-05-03_n_2792_cruise_1035_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2013-05-06_n_288_cruise_2073_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2013-06-09_n_213_cruise_1078_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2013-07-23_n_668_cruise_1079_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2013-08-21_n_830_cruise_1096_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2013-09-03_n_1824_cruise_1041_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2013-10-11_n_140_cruise_2035_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2013-11-09_n_121_cruise_2036_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2013-12-06_n_135_cruise_2074_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2014-01-12_n_1650_cruise_1042_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2014-01-24_n_281_cruise_2075_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2014-02-22_n_251_cruise_2038_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2014-03-13_n_183_cruise_2076_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2014-04-18_n_2200_cruise_1036_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2014-04-29_n_75_cruise_2039_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2014-05-04_n_265_cruise_2077_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2014-05-18_n_257_cruise_2040_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2014-06-16_n_181_cruise_2078_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2014-07-08_n_358_cruise_1098_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2014-07-24_n_392_cruise_2041_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2014-08-03_n_1668_cruise_1053_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2014-08-10_n_697_cruise_1099_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2014-09-30_n_130_cruise_2042_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2014-11-24_n_82_cruise_2079_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2014-12-11_n_533_cruise_1004_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-01-19_n_65_cruise_2043_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-01-29_n_311_cruise_2080_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-02-14_n_227_cruise_2044_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-03-04_n_207_cruise_2081_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-03-25_n_17_cruise_1017_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-04-20_n_258_cruise_1103_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-04-20_n_96_cruise_2045_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-05-02_n_229_cruise_2083_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-05-04_n_852_cruise_1043_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-05-12_n_358_cruise_1027_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-05-17_n_136_cruise_2046_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-05-17_n_685_cruise_1011_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-06-09_n_1565_cruise_1044_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-06-13_n_281_cruise_2084_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-07-20_n_442_cruise_2047_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-08-12_n_2_cruise_1040_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-08-17_n_758_cruise_1100_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-11-05_n_130_cruise_2048_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2015-11-20_n_102_cruise_2086_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-01-03_n_644_cruise_1054_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-01-16_n_77_cruise_2049_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-01-25_n_279_cruise_2087_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-02-15_n_378_cruise_2050_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-03-01_n_1326_cruise_1046_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-03-04_n_222_cruise_2088_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-04-13_n_106_cruise_2051_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-05-04_n_304_cruise_2090_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-05-16_n_140_cruise_2052_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-05-31_n_2076_cruise_1020_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-06-16_n_251_cruise_2091_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-06-24_n_101_cruise_2053_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-07-21_n_1095_cruise_1101_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-08-12_n_280_cruise_2054_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-09-25_n_156_cruise_2055_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-11-01_n_129_cruise_2092_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-11-20_n_100_cruise_2056_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2016-12-25_n_3824_cruise_1045_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2017-01-12_n_102_cruise_2093_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2017-01-30_n_363_cruise_2057_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2017-02-16_n_262_cruise_2094_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2017-02-19_n_427_cruise_1055_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2017-03-06_n_272_cruise_2058_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2017-04-16_n_252_cruise_2059_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2017-05-07_n_146_cruise_2060_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2017-05-11_n_673_cruise_2027_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2017-06-20_n_133_cruise_2061_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2017-07-10_n_1051_cruise_2096_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2017-08-13_n_216_cruise_2062_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2017-09-12_n_155_cruise_2097_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2017-11-16_n_134_cruise_2063_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2017-12-04_n_242_cruise_2098_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2018-01-24_n_305_cruise_2099_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2018-01-29_n_1266_cruise_2008_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2018-02-12_n_274_cruise_2064_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2018-03-07_n_248_cruise_2100_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2018-03-18_n_1811_cruise_2105_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2018-04-16_n_327_cruise_2065_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2018-05-07_n_148_cruise_2101_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2018-05-28_n_243_cruise_2066_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2018-06-22_n_501_cruise_2102_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2018-08-01_n_185_cruise_2067_.png
Modified: output/figure/eMLR/data_preparation/all_cruises_clean/GLODAP_cruise_date_2018-10-09_n_153_cruise_2068_.png
Note that any generated files, e.g. HTML, png, CSS, etc., are not included in this status report because it is ok for generated content to have uncommitted changes.
These are the previous versions of the repository in which changes were made to the R Markdown (analysis/mapping_cant_calculation.Rmd) and HTML (docs/mapping_cant_calculation.html) files. If you’ve configured a remote Git repository (see ?wflow_git_remote), click on the hyperlinks in the table below to view the files as they were in that past version.
| File | Version | Author | Date | Message |
|---|---|---|---|---|
| Rmd | a804955 | jens-daniel-mueller | 2020-08-24 | split mapping into 2 rmds, po4star selection in parameters, use po4star nitrate |
library(tidyverse)
library(metR)
# library(lubridate)
# library(oce)
# library(marelac)
# library(reticulate)basinmask <- read_csv(here::here("data/World_Ocean_Atlas_2018/_summarized_files",
"basin_mask_WOA18.csv"))
landmask <- read_csv(here::here("data/World_Ocean_Atlas_2018/_summarized_files",
"land_mask_WOA18.csv"))1 Predictor fields
Currently, we use combined predictor fields:
- WOA18: S, T, and derived variables
- GLODAP16: Oxygen, PO4, NO3, Silicate, and derived variables
predictors <-
read_csv(here::here("data/mapping/predictor_fields",
"W18_st_G16_opsn.csv"))2 Select phosphate star
Currently, mapping of Cant is based on PO4* calculated with:
- nitrate
if (parameters$phosphate_star_approach == "nitrate") {
predictors <- predictors %>%
mutate(phosphate_star = phosphate_star_nit) %>%
select(-c(phosphate_star_oxy, phosphate_star_nit))
} else{
predictors <- predictors %>%
mutate(phosphate_star = phosphate_star_oxy) %>%
select(-c(phosphate_star_oxy, phosphate_star_nit))
}3 Spatial boundaries
Only predictors were taken into consideration with:
- minimum sampling depth: 150m
- minimum bottom depth: 500m
- maximum latitude: 65°N
predictors <- predictors %>%
filter(depth >= parameters$depth_min)
predictors <- predictors %>%
filter(lat <= parameters$lat_max)
predictors_grid <- predictors %>%
group_by(lat, lon) %>%
summarise(bottomdepth = max(depth)) %>%
ungroup()
predictors <- full_join(predictors, predictors_grid)
predictors <- predictors %>%
filter(bottomdepth >= parameters$bottomdepth_min) %>%
select(-bottomdepth)
predictors <- predictors %>% drop_na()4 eMLRs
all_lm_wide <-
read_csv(here::here("data/eMLR",
"all_lm_wide.csv"))5 Merge MLRs + climatology
all_lm_wide <- all_lm_wide %>%
mutate(model = str_remove(model, "Cstar ~ "))
Cant <- full_join(predictors, all_lm_wide)
#rm(predictors, all_lm_wide)6 Map Cant
6.1 Apply MLRs to predictor
Cant <- Cant %>%
mutate(Cant = `delta_coeff_(Intercept)` +
delta_coeff_aou * aou +
delta_coeff_oxygen * oxygen +
delta_coeff_phosphate * phosphate +
delta_coeff_phosphate_star * phosphate_star +
delta_coeff_silicate * silicate +
delta_coeff_sal * sal +
delta_coeff_tem * tem)6.2 Mean Cant fields
Mean and sd are calculated for Cant in each grid cell (XYZ), basin and era combination. Calculations are performed for all Cant values vs positive values only. This averaging step summarizes the information derived from ten best fitting MLRs.
Cant <- Cant %>%
select(lon, lat, depth, eras, basin, Cant, gamma, model)
# Cant_model_average <- Cant %>%
# mutate(Cant_pos = if_else(Cant < 0, 0, Cant)) %>%
# group_by(lon, lat, depth, eras, basin) %>%
# summarise(across(c("Cant", "Cant_pos", "gamma"),
# list(
# mean = ~ mean(.x, na.rm = TRUE),
# sd = ~ sd(.x, na.rm = TRUE)
# ))) %>%
# ungroup()
Cant_model_average <- Cant %>%
mutate(Cant_pos = if_else(Cant < 0, 0, Cant)) %>%
group_by(lon, lat, depth, eras, basin) %>%
summarise(Cant_mean = mean(Cant, na.rm = TRUE),
Cant_sd = sd(Cant, na.rm = TRUE),
Cant_pos_mean = mean(Cant_pos, na.rm = TRUE),
Cant_pos_sd = sd(Cant_pos, na.rm = TRUE),
gamma_mean = mean(gamma, na.rm = TRUE),
gamma_sd = sd(gamma, na.rm = TRUE)) %>%
ungroup()
Cant_model_average_Atl <- Cant_model_average %>%
filter(basin == "Atlantic") %>%
mutate(gamma_slab = cut(gamma_mean, parameters$slabs_Atl))
Cant_model_average_Ind_Pac <- Cant_model_average %>%
filter(basin == "Indo-Pacific") %>%
mutate(gamma_slab = cut(gamma_mean, parameters$slabs_Ind_Pac))
Cant_model_average <- bind_rows(Cant_model_average_Atl, Cant_model_average_Ind_Pac)
rm(Cant_model_average_Atl, Cant_model_average_Ind_Pac)6.3 Mean Cant sections
For each basin and era combination, the zonal mean Cant is calculated, again for all vs positive only values. Likewise, sd is calculated for the averaging of the mean basin fields.
Cant_model_average_zonal <- Cant_model_average %>%
group_by(lat, depth, eras, basin) %>%
summarise(across(
c(
"Cant_mean",
"Cant_pos_mean",
"Cant_sd",
"Cant_pos_sd",
"gamma_mean",
"gamma_sd"
),
list(mean = ~ mean(.x, na.rm = TRUE),
sd = ~ sd(.x, na.rm = TRUE))
)) %>%
ungroup()
# Cant_model_average_zonal <- Cant_model_average %>%
# group_by(lat, depth, eras, basin) %>%
# summarise(Cant_mean_sd = sd(Cant_mean, na.rm = TRUE),
# Cant_mean = mean(Cant_mean, na.rm = TRUE),
# Cant_sd_mean = mean(Cant_sd, na.rm = TRUE),
# Cant_pos_mean_sd = sd(Cant_pos_mean, na.rm = TRUE),
# Cant_pos_mean = mean(Cant_pos_mean, na.rm = TRUE),
# Cant_pos_sd_mean = mean(Cant_pos_sd, na.rm = TRUE),
# gamma_mean = mean(gamma_mean)) %>%
# ungroup()
Cant_model_average_zonal_Atl <- Cant_model_average_zonal %>%
filter(basin == "Atlantic") %>%
mutate(gamma_slab = cut(gamma_mean_mean, parameters$slabs_Atl))
Cant_model_average_zonal_Ind_Pac <- Cant_model_average_zonal %>%
filter(basin == "Indo-Pacific") %>%
mutate(gamma_slab = cut(gamma_mean_mean, parameters$slabs_Ind_Pac))
Cant_model_average_zonal <- bind_rows(Cant_model_average_zonal_Atl, Cant_model_average_zonal_Ind_Pac)
rm(Cant_model_average_zonal_Atl, Cant_model_average_zonal_Ind_Pac)7 Neutral density section
7.1 Mean values
The mean zonal distribution of neutral densities was calculated. CAVEAT: Binning here does not include two highest isoneutral density slabs in the Atlantic, yet.
slab_breaks <- c(parameters$slabs_Atl[1:12],Inf)
Cant_model_average_zonal %>%
filter(depth <= parameters$inventory_depth) %>%
ggplot(aes(lat, depth, z = gamma_mean_mean)) +
geom_contour_filled(breaks = slab_breaks) +
geom_contour(breaks = slab_breaks,
col = "white") +
geom_text_contour(breaks = slab_breaks,
col = "white",
skip = 1) +
scale_fill_viridis_d(name = "Gamma",
direction = -1) +
scale_y_reverse() +
coord_cartesian(expand = 0) +
guides(fill = guide_colorsteps(barheight = unit(10, "cm"))) +
facet_grid(basin~eras)
8 Cant sections
8.1 By model
for (i_eras in unique(Cant$eras)) {
#i_eras <- unique(Cant$eras)[2]
Cant_eras <- Cant %>%
filter(eras == i_eras)
for (i_lon in seq(20.5, 360, 20)) {
#i_lon <- seq(20.5, 360, 20)[7]
Cant_eras_lon <- Cant_eras %>%
filter(lon == i_lon)
Cant_eras_lon %>%
ggplot(aes(lat, depth, fill = Cant)) +
geom_raster() +
scale_color_viridis_c() +
scale_fill_divergent(
guide = "colorstrip",
breaks = MakeBreaks(5),
name = "Cant",
mid = "grey"
) +
scale_y_reverse() +
coord_cartesian(expand = 0) +
guides(fill = guide_colorsteps(barheight = unit(10, "cm"))) +
labs(title = paste("eras:", i_eras, "| lon:", i_lon)) +
facet_wrap(~ model, ncol = 5)
ggsave(here::here("output/figure/mapping",
paste(i_eras,
"lon",
i_lon,
"model_Cant.png",
sep = "_")),
width = 17, height = 9)
}
}8.2 Mean values
Cant_model_average_zonal %>%
filter(depth <= parameters$inventory_depth) %>%
ggplot(aes(lat, depth, z = Cant_mean_mean)) +
geom_contour_fill(breaks = MakeBreaks(5),
na.fill = TRUE) +
scale_fill_divergent(guide = "colorstrip",
breaks = MakeBreaks(5),
name = "Cant") +
geom_contour(aes(lat, depth, z = gamma_mean_mean),
breaks = slab_breaks,
col = "black") +
geom_text_contour(
aes(lat, depth, z = gamma_mean_mean),
breaks = slab_breaks,
col = "black",
skip = 1
) +
scale_y_reverse() +
coord_cartesian(expand = 0) +
guides(fill = guide_colorsteps(barheight = unit(10, "cm"))) +
facet_grid(basin ~ eras)
8.3 Mean zonal standard deviation across MLR models
Standard deviation across Cant from all MLR models was calculate for each grid cell (XYZ). The zonal mean of this standard deviation should reflect the uncertainty associated to the predictor selection within each slab and era.
Cant_model_average_zonal %>%
filter(depth <= parameters$inventory_depth) %>%
ggplot(aes(lat, depth, z = Cant_sd_mean)) +
geom_contour_filled() +
geom_contour(aes(lat, depth, z = gamma_mean_mean),
breaks = slab_breaks,
col = "white") +
geom_text_contour(
aes(lat, depth, z = gamma_mean_mean),
breaks = slab_breaks,
col = "white",
skip = 1
) +
scale_fill_viridis_d(name = "Cant") +
scale_y_reverse() +
coord_cartesian(expand = 0) +
guides(fill = guide_colorsteps(barheight = unit(10, "cm"))) +
facet_grid(basin ~ eras)
8.4 Zonal standard deviation of mean Cant estimates
Standard deviation of mean Cant values was calculate across all longitudes. This standard deviation should reflect the zonal variability of Cant within the basin and era.
Cant_model_average_zonal %>%
filter(depth <= parameters$inventory_depth) %>%
ggplot(aes(lat, depth, z = Cant_mean_sd)) +
geom_contour_filled() +
geom_contour(aes(lat, depth, z = gamma_mean_mean),
breaks = slab_breaks,
col = "white") +
geom_text_contour(
aes(lat, depth, z = gamma_mean_mean),
breaks = slab_breaks,
col = "white",
skip = 1
) +
scale_fill_viridis_d(name = "Cant") +
scale_y_reverse() +
coord_cartesian(expand = 0) +
guides(fill = guide_colorsteps(barheight = unit(10, "cm"))) +
facet_grid(basin~eras)
8.5 Mean positive values
Cant_model_average_zonal %>%
filter(depth <= parameters$inventory_depth) %>%
ggplot(aes(lat, depth, z = Cant_pos_mean_mean)) +
geom_contour_filled() +
geom_contour(aes(lat, depth, z = gamma_mean_mean),
breaks = slab_breaks,
col = "white") +
geom_text_contour(
aes(lat, depth, z = gamma_mean_mean),
breaks = slab_breaks,
col = "white",
skip = 1
) +
scale_fill_viridis_d(name = "Cant") +
scale_y_reverse() +
coord_cartesian(expand = 0) +
guides(fill = guide_colorsteps(barheight = unit(10, "cm"))) +
facet_grid(basin~eras)
8.6 Sections
8.6.1 JGOFS_GO
section_climatology(Cant_model_average %>% filter(eras == "JGOFS_GO"),
"Cant_mean")
8.6.2 GO_new
section_climatology(Cant_model_average %>% filter(eras == "GO_new"),
"Cant_mean")
9 Cant maps
9.1 Depth layers
Cant concentration for selected depth levels at which mapping was performed.
Cant_model_average %>%
filter(depth %in% c(150, 500, 1000, 3000)) %>%
ggplot(aes(lon, lat, fill = Cant_mean)) +
geom_raster() +
scale_fill_divergent(guide = "colorstrip",
breaks = MakeBreaks(5),
name = "Cant") +
guides(fill = guide_colorsteps(barheight = unit(10, "cm"))) +
coord_quickmap(expand = 0) +
facet_grid(depth~eras)
9.2 Inventory calculation
To calculate Cant column inventories, we:
- Multiple layer thickness with Cant concentration to get a layer inventory
- For each horizontal grid cell and era, sum Cant layer inventories from 150 - 3000 m
Step 2 is performed again for all Cant and positive Cant values only
depth_level_volume <- tibble(depth = unique(Cant_model_average$depth))
depth_level_volume <- depth_level_volume %>%
mutate(
layer_thickness_above = replace_na((depth - lag(depth)) / 2, 0),
layer_thickness_below = replace_na((lead(depth) - depth) / 2, 0),
layer_thickness = layer_thickness_above + layer_thickness_below
) %>%
select(-c(layer_thickness_above,
layer_thickness_below))
Cant_model_average <-
full_join(Cant_model_average, depth_level_volume)
Cant_model_average <- Cant_model_average %>%
mutate(layer_inv = Cant_mean * layer_thickness) %>%
mutate(layer_inv_pos = if_else(layer_inv < 0, 0, layer_inv)) %>%
select(-layer_thickness)
Cant_inv <- Cant_model_average %>%
filter(depth <= parameters$inventory_depth) %>%
group_by(lon, lat, basin, eras) %>%
summarise(
cant_inv_pos = sum(layer_inv_pos, na.rm = TRUE) / 1000,
cant_inv = sum(layer_inv, na.rm = TRUE) / 1000
) %>%
ungroup()9.3 Inventories
9.3.1 All Cant estimates
library(scales)
Cant_inv %>%
ggplot() +
geom_raster(data = landmask %>% filter(region == "land"),
aes(lon, lat), fill = "grey80") +
geom_raster(aes(lon, lat, fill = cant_inv)) +
coord_quickmap(expand = 0) +
scale_fill_gradient2(high = muted("red"),
mid = "white",
low = muted("blue"),
midpoint = 0,
space = "Lab",
na.value = "green") +
facet_wrap(~eras, ncol = 1) +
theme(
axis.title = element_blank(),
axis.text = element_blank(),
axis.ticks = element_blank()
)
9.3.2 Positive Cant estimates
Cant_inv %>%
ggplot() +
geom_raster(data = landmask %>% filter(region == "land"),
aes(lon, lat), fill = "grey80") +
geom_raster(aes(lon, lat, fill = cant_inv_pos)) +
coord_quickmap(expand = 0) +
scale_fill_viridis_c() +
facet_wrap(~eras, ncol = 1) +
theme(
axis.title = element_blank(),
axis.text = element_blank(),
axis.ticks = element_blank()
)
10 Write csv
Cant_model_average %>%
write_csv(here::here("data/mapping/_summarized_files",
"Cant_2020.csv"))
Cant_inv %>%
write_csv(here::here("data/mapping/_summarized_files",
"Cant_inv_2020.csv"))11 Open tasks
- Check PO4* calculation
- Harmonize AOU calculation in fitting and mapping
- Plot Cant sections for individual MLR models
12 Open questions
sessionInfo()R version 4.0.2 (2020-06-22)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 18363)
Matrix products: default
locale:
[1] LC_COLLATE=English_Germany.1252 LC_CTYPE=English_Germany.1252
[3] LC_MONETARY=English_Germany.1252 LC_NUMERIC=C
[5] LC_TIME=English_Germany.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] scales_1.1.1 metR_0.7.0 forcats_0.5.0 stringr_1.4.0
[5] dplyr_1.0.0 purrr_0.3.4 readr_1.3.1 tidyr_1.1.0
[9] tibble_3.0.3 ggplot2_3.3.2 tidyverse_1.3.0 workflowr_1.6.2
loaded via a namespace (and not attached):
[1] Rcpp_1.0.5 lattice_0.20-41 lubridate_1.7.9 here_0.1
[5] assertthat_0.2.1 rprojroot_1.3-2 digest_0.6.25 R6_2.4.1
[9] cellranger_1.1.0 plyr_1.8.6 backports_1.1.8 reprex_0.3.0
[13] evaluate_0.14 httr_1.4.2 pillar_1.4.6 rlang_0.4.7
[17] readxl_1.3.1 rstudioapi_0.11 data.table_1.13.0 whisker_0.4
[21] blob_1.2.1 checkmate_2.0.0 rmarkdown_2.3 labeling_0.3
[25] munsell_0.5.0 broom_0.7.0 compiler_4.0.2 httpuv_1.5.4
[29] modelr_0.1.8 xfun_0.16 pkgconfig_2.0.3 htmltools_0.5.0
[33] tidyselect_1.1.0 viridisLite_0.3.0 fansi_0.4.1 crayon_1.3.4
[37] dbplyr_1.4.4 withr_2.2.0 later_1.1.0.1 grid_4.0.2
[41] jsonlite_1.7.0 gtable_0.3.0 lifecycle_0.2.0 DBI_1.1.0
[45] git2r_0.27.1 magrittr_1.5 cli_2.0.2 stringi_1.4.6
[49] farver_2.0.3 fs_1.4.2 promises_1.1.1 sp_1.4-2
[53] xml2_1.3.2 ellipsis_0.3.1 generics_0.0.2 vctrs_0.3.2
[57] tools_4.0.2 glue_1.4.1 hms_0.5.3 yaml_2.2.1
[61] colorspace_1.4-1 rvest_0.3.6 isoband_0.2.2 memoise_1.1.0
[65] knitr_1.29 haven_2.3.1