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fabm.yaml @ 15480

Last change on this file since 15480 was 15480, checked in by jcastill, 3 years ago
Changes as in the git branch NEMO-FABMv1-ERSEM
File size: 102.7 KB

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1	check_conservation: false
2	require_initialization: true
3	instances:
4	zenithAngle:
5	model: ersem/zenith_angle
6	light:
7	model: ersem/light_iop_ady
8	parameters:
9	a0w: 0.03 # absorption coefficient of clear water (1/m), default = 0.036
10	b0w: 0.0015 # backscatter coefficient of clear water (1/m), default = 0.0016
11	pEIR_eow: 0.5 # photosynthetically active fraction of shortwave radiation (-), default = 0.5
12	relax: 0.143 # relaxation towards satellite gelbstoff absorption (1/d), default=0.033
13	initialization:
14	ADY: 0.05
15	N1:
16	long_name: phosphate
17	model: ersem/pelagic_base
18	parameters:
19	composition: p # elemental composition
20	c0: 0.001 # background carbon concentration (mg C/m^3), default = 0.0
21	initialization:
22	p: 0.4 # phosphorus (mmol P/m^3)
23	N3:
24	long_name: nitrate
25	model: ersem/pelagic_base
26	parameters:
27	composition: n # elemental composition
28	c0: 0.001 # background carbon concentration (mg C/m^3), default = 0.0
29	initialization:
30	n: 8.0 # nitrogen (mmol N/m^3)
31	N4:
32	long_name: ammonium
33	model: ersem/pelagic_base
34	parameters:
35	composition: n # elemental composition
36	c0: 0.001 # background carbon concentration (mg C/m^3), default = 0.0
37	initialization:
38	n: 0.1 # nitrogen (mmol N/m^3)
39	N5:
40	long_name: silicate
41	model: ersem/pelagic_base
42	parameters:
43	composition: s # elemental composition
44	s0: 0.0003 # background silicon concentration (mmol Si/m^3), default = 0.0
45	initialization:
46	s: 4.5 # silicate (mmol Si/m^3)
47	O2:
48	long_name: oxygen
49	model: ersem/oxygen
50	parameters:
51	ISWO2: 2 # saturation formulation (1: legacy ERSEM, 2: Weiss 1970)
52	initialization:
53	o: 300.0 # oxygen (mmol O_2/m^3)
54	O3:
55	long_name: carbonate
56	model: ersem/carbonate
57	parameters:
58	iswCO2: 1 # carbonate system diagnostics (0: off, 1: on), default = 1
59	iswASFLUX: 1 # air-sea CO2 exchange (0: none, 1: Nightingale and Liss, 2: Wanninkhof 1992 without chemical enhancement, 3: Wanninkhof 1992 with chemical enhancement, 4: Wanninkhof 1999), default = 1
60	iswtalk: 2 # alkalinity formulation (1-4: from salinity and temperature, 5: dynamic alkalinity), default = 5
61	iswbioalk: 1
62	initialization:
63	c: 2130.0 # total dissolved inorganic carbon (mmol C/m^3)
64	R1:
65	long_name: labile dissolved organic matter
66	model: ersem/pelagic_base
67	parameters:
68	composition: cnp # elemental composition
69	c0: 0.0034 # background carbon concentration (mg C/m^3), default = 0.0
70	initialization:
71	c: 10.0 # carbon (mg C/m^3)
72	n: 0.14 # nitrogen (mmol N/m^3)
73	p: 0.01 # phosphorus (mmol P/m^3)
74	R2:
75	long_name: semi-labile dissolved organic matter
76	model: ersem/pelagic_base
77	parameters:
78	composition: c # elemental composition
79	c0: 0.0033 # background carbon concentration (mg C/m^3), default = 0.0
80	initialization:
81	c: 12.0 # carbon (mg C/m^3)
82	R3:
83	long_name: semi-refractory dissolved organic matter
84	model: ersem/pelagic_base
85	parameters:
86	composition: c # elemental composition
87	c0: 0.0033 # background carbon concentration (mg C/m^3), default = 0.0
88	initialization:
89	c: 12.0 # carbon (mg C/m^3)
90	R4:
91	long_name: small-size pom
92	model: ersem/pelagic_base
93	parameters:
94	composition: cnpf # elemental composition
95	rm: 1.0 # sinking velocity (m/d), default = 0.0
96	ndeposition: 2 # number of target pools where the sedimentation flux goes (-)
97	qxc2: 0.1
98	qxn2: 0.1
99	qxp2: 0.06
100	c0: 0.0033 # background carbon concentration (mg C/m^3), default = 0.0
101	initialization:
102	c: 7.2 # carbon (mg C/m^3)
103	n: 0.1 # nitrogen (mmol N/m^3)
104	p: 0.007 # phosphorus (mmol P/m^3)
105	coupling:
106	deposition_target1: Q6/surface
107	deposition_target2: Q7/surface
108	R6:
109	long_name: medium-size pom
110	model: ersem/pelagic_base
111	parameters:
112	composition: cnpsf # elemental composition
113	rm: 5.0 # sinking velocity (m/d), default = 0.0
114	ndeposition: 2 # number of target pools where the sedimentation flux goes (-)
115	qxc2: 0.1
116	qxn2: 0.1
117	qxp2: 0.06
118	qxs2: 0.0
119	c0: 0.0033 # background carbon concentration (mg C/m^3), default = 0.0
120	initialization:
121	c: 17.0 # carbon (mg C/m^3)
122	n: 0.24 # nitrogen (mmol N/m^3)
123	p: 0.02 # phosphorus (mmol P/m^3)
124	s: 0.1 # silicate (mmol Si/m^3)
125	coupling:
126	deposition_target1: Q6/surface
127	deposition_target2: Q7/surface
128	R8:
129	long_name: large-size pom
130	model: ersem/pelagic_base
131	parameters:
132	composition: cnps # elemental composition
133	rm: 10.0 # sinking velocity (m/d), default = 0.0
134	ndeposition: 2 # number of target pools where the sedimentation flux goes (-)
135	qxc2: 0.1
136	qxn2: 0.1
137	qxp2: 0.06
138	qxs2: 0.0
139	c0: 0.0033 # background carbon concentration (mg C/m^3), default = 0.0
140	initialization:
141	c: 0.17 # carbon (mg C/m^3)
142	n: 0.0024 # nitrogen (mmol N/m^3)
143	p: 0.0002 # phosphorus (mmol P/m^3)
144	s: 0.001 # silicate (mmol Si/m^3)
145	coupling:
146	deposition_target1: Q6/surface
147	deposition_target2: Q7/surface
148	Q1:
149	long_name: benthic dissolved organic matter
150	model: ersem/benthic_base
151	parameters:
152	composition: cnp # elemental composition
153	c0: 0.001 # background carbon concentration (mg C/m^2)
154	initialization:
155	c: 18.9 # carbon (mg C/m^2)
156	n: 0.6 # nitrogen (mmol N/m^2)
157	p: 0.0035 # phosphorus (mmol P/m^2)
158	Q6:
159	long_name: benthic particulate organic matter
160	model: ersem/benthic_column_particulate_matter
161	parameters:
162	composition: cnpsf # elemental composition
163	resuspension: true # enable resuspension, default = false
164	c0: 0.001 # background carbon concentration (mg C/m^2)
165	initialization:
166	c: 3052.0 # carbon (mg C/m^2)
167	n: 3.5 # nitrogen (mmol N/m^2)
168	p: 0.5 # phosphorus (mmol P/m^2)
169	s: 149.0 # silicate (mmol Si/m^2)
170	pen_depth_c: 0.0173 # penetration depth of carbon (m)
171	pen_depth_n: 0.02 # penetration depth of nitrogen (m)
172	pen_depth_p: 0.025 # penetration depth of phosphorus (m)
173	pen_depth_s: 0.0313 # penetration depth of silicate (m)
174	coupling:
175	RP: R6
176	Q7:
177	long_name: benthic refractory matter
178	model: ersem/benthic_column_particulate_matter
179	parameters:
180	composition: cnp # elemental composition
181	burial: true # enable burial, default = false
182	c0: 0.001 # background carbon concentration (mg C/m^2)
183	initialization:
184	c: 30520.0 # carbon (mg C/m^2)
185	n: 80.0 # nitrogen (mmol N/m^2)
186	p: 8.0 # phosphorus (mmol P/m^2)
187	pen_depth_c: 0.2 # penetration depth of carbon (m)
188	pen_depth_n: 0.25 # penetration depth of nitrogen (m)
189	pen_depth_p: 0.313 # penetration depth of phosphorus (m)
190	coupling:
191	burial_target: Q17
192	Q17:
193	long_name: benthic buried matter
194	model: ersem/benthic_base
195	parameters:
196	composition: cnp # elemental composition
197	initialization:
198	c: 0.0 # carbon (mg C/m^2)
199	n: 0.0 # nitrogen (mmol N/m^2)
200	p: 0.0 # phosphorus (mmol P/m^2)
201	B1:
202	long_name: bacteria
203	model: ersem/bacteria_docdyn
204	parameters:
205	iswBlim: 2 # nutrient limitation (1: minimum of inorganic and organic availability, 2: additive availability)
206	q10: 2.0 # Q_10 temperature coefficient (-)
207	chdo: 0.31 # Michaelis-Menten constant for oxygen limitation (-)
208	chn: 0.5 # Michaelis-Menten constant for nitrate limitation (mmol N/m^3)
209	chp: 0.1 # Michaelis-Menten constant for phosphate limitation (mmol P/m^3)
210	sd: 0.05 # specific mortality at reference temperature (1/d)
211	sum: 2.2 # maximum specific uptake at reference temperature (1/d)
212	pu: 0.6 # efficiency at high oxygen levels (-)
213	puo: 0.2 # efficiency at low oxygen levels (-)
214	srs: 0.1 # specific rest respiration at reference temperature (1/d)
215	sR1: 1.0 # maximum turn-over rate of DOM (1/d), default = 1.0
216	qpc: 0.0019 # maximum phosphorus to carbon ratio (mmol P/mg C)
217	qnc: 0.0167 # maximum nitrogen to carbon ratio (mmol N/mg C)
218	ur_O2: 0.1 # oxygen consumed per carbon respired (mmol O_2/mg C)
219	sR1N1: 0.0 # mineralisation rate of labile dissolved organic phosphorus (1/d)
220	sR1N4: 0.0 # mineralisation rate of labile dissolved organic nitrogen (1/d)
221	fsink: 7e-05 # scavenging rate for iron (1/d)
222	c0: 0.01 # background carbon concentration (mg C/m^3)
223	nRP: 3 # number of substrates, default = 0
224	sRP1R1: 0.01 # remineralisation of substrate 1 to DOM (1/d)
225	sRP2R1: 0.0025 # remineralisation of substrate 2 to DOM (1/d)
226	sRP3R1: 0.001 # remineralisation of substrate 3 to DOM (1/d)
227	rR2: 0.0075 # fraction of semi-labile DOC available to bacteria (-)
228	rR3: 0.0025 # fraction of semi-refractory DOC available to bacteria (-)
229	frR3: 0.3 # fraction of activity respiration converted to semi-refractory DOC (-)
230	initialization:
231	c: 15.7 # carbon (mg C/m^3)
232	n: 0.26 # nitrogen (mmol N/m^3)
233	p: 0.029 # phosphorus (mmol P/m^3)
234	coupling:
235	RP1: R4
236	RP2: R6
237	RP3: R8
238	N1p: N1/p # phosphate (mmol P/m^3)
239	N4n: N4/n # ammonium (mmol N/m^3)
240	R1c: R1/c # labile dissolved organic carbon (mg C/m^3)
241	R1p: R1/p # labile dissolved organic phosphorus (mmol P/m^3)
242	R1n: R1/n # labile dissolved organic nitrogen (mmol N/m^3)
243	R2c: R2/c # semi-labile dissolved organic carbon (mg C/m^3)
244	R3c: R3/c # semi-refractory DOC (mg C/m^3)
245	O3c: O3/c # carbon dioxide (mmol C/m^3)
246	O2o: O2/o # oxygen (mmol O_2/m^3)
247	pel_nit:
248	long_name: pelagic nitrification
249	model: ersem/nitrification
250	parameters:
251	q10: 2.0 # Q_10 temperature coefficient (-)
252	ISWph: 1 # pH impact on nitrification (0: off, 1: on)
253	sN4N3: 0.5 # specific nitrification rate (1/d)
254	chN3o: 2700.0 # Michaelis-Menten constant for cubic oxygen dependence of nitrification ((mmol O_2/m^3)^3)
255	chN4n: 0.5 # Michaelis-Menten constant for cubic ammonium dependence of nitrification ((mmol N/m^3)^3), default = 0.0
256	coupling:
257	N3n: N3/n # nitrate (mmol N/m^3)
258	N4n: N4/n # ammonium (mmol N/m^3)
259	O2o: O2/o # oxygen (mmol O_2/m^3)
260	P1:
261	long_name: diatoms
262	model: ersem/primary_producer
263	parameters:
264	sum: 1.375 # maximum specific productivity at reference temperature (1/d)
265	q10: 2.0 # Q_10 temperature coefficient (-)
266	srs: 0.04 # specific rest respiration at reference temperature (1/d)
267	pu_ea: 0.2 # excreted fraction of primary production (-)
268	pu_ra: 0.2 # respired fraction of primary production (-)
269	qnlc: 0.0042 # minimum nitrogen to carbon ratio (mmol N/mg C)
270	qplc: 0.0001 # minimum phosphorus to carbon ratio (mmol P/mg C)
271	xqcp: 1.0 # threshold for phosphorus limitation (relative to Redfield ratio) (-)
272	xqcn: 1.0 # threshold for nitrogen limitation (relative to Redfield ratio) (-)
273	xqp: 2.0 # maximum phosphorus to carbon ratio (relative to Redfield ratio) (-)
274	xqn: 1.075 # maximum nitrogen to carbon ratio (relative to Redfield ratio) (-)
275	qun3: 0.0025 # nitrate affinity (m^3/mg C/d)
276	qun4: 0.0025 # ammonium affinity (m^3/mg C/d)
277	qurp: 0.003 # phosphate affinity (m^3/mg C/d)
278	snplux: 1.0 # specific tendency of luxury uptake of nutrients towards maximum quota (1/d), default = 1.0
279	use_Si: true # use silicate, default = false
280	qsc: 0.0118 # maximum silicate to carbon ratio (mmol Si/mg C)
281	chs: 0.2 # Michaelis-Menten constant for silicate limitation (mmol/m^3)
282	sdo: 0.05 # 1.1 of minimal specific lysis rate (1/d)
283	alpha: 4.0 # initial slope of PI-curve (mg C m^2/mg Chl/W/d)
284	beta: 0.07 # photoinhibition parameter (mg C m^2/mg Chl/W/d)
285	phim: 0.06 # maximum effective chlorophyll to carbon photosynthesis ratio (mg Chl/mg C)
286	Limnut: 1 # nitrogen-phosphorus colimitation formulation (0: geometric mean, 1: minimum, 2: harmonic mean)
287	docdyn: true # use dynamic ratio of labile to semi-labile DOM production, default = false
288	uB1c_O2: 0.11 # oxygen produced per unit of carbon fixed (mmol O_2/mg C)
289	urB1_O2: 0.1 # oxygen consumed per unit of carbon respired (mmol O_2/mg C)
290	iopABS: 0.007 # specific shortwave absorption (m^2/mg Chl), default = 0.008
291	iopBBS: 0.00048 # specific shortwave backscatter (m^2/mg Chl), default = 0.003
292	c0: 0.0001 # background carbon concentration (mg C/m^3), default = 0.0
293	resm: 5.0 # maximum nutrient-limitation-induced sinking velocity (m/d), default = 0.0
294	esni: 0.7 # level of nutrient limitation below which sinking commences (-)
295	cenh: false # enable atmospheric CO2 influence on photosynthesis, default = false
296	ndeposition: 3 # number of target pools for sedimentation, default = 1
297	qxc2: 0.2 # fraction of carbon sinking into deposition target 2 (-)
298	qxc3: 0.005 # fraction of carbon sinking into deposition target 3 (-)
299	qxn2: 0.2 # fraction of nitrogen sinking into deposition target 2 (-)
300	qxn3: 0.005 # fraction of nitrogen sinking into deposition target 3 (-)
301	qxp2: 0.24 # fraction of phosphorus sinking into deposition target 2 (-)
302	qxp3: 0.003 # fraction of phosphorus sinking into deposition target 3 (-)
303	qxs2: 0.0 # fraction of silicate sinking into deposition target 2 (-)
304	qxs3: 0.0 # fraction of silicate sinking into deposition target 3 (-)
305	initialization:
306	c: 8.0 # carbon (mg C/m^3)
307	n: 0.1114 # nitrogen (mmol N/m^3)
308	p: 0.009 # phosphorus (mmol P/m^3)
309	s: 0.128 # silicate (mmol Si/m^3)
310	Chl: 0.4 # chlorophyll a (mg/m^3)
311	coupling:
312	RP: R6
313	deposition_target1: Q6/surface
314	deposition_target2: Q1
315	deposition_target3: Q7/surface
316	N1p: N1/p # phosphate (mmol P/m^3)
317	N3n: N3/n # nitrate (mmol N/m^3)
318	N4n: N4/n # ammonium (mmol N/m^3)
319	N5s: N5/s # silicate (mmol Si/m^3)
320	R1c: R1/c # dissolved organic carbon (mg C/m^3)
321	R1p: R1/p # dissolved organic phosphorus (mmol P/m^3)
322	R1n: R1/n # dissolved organic nitrogen (mmol N/m^3)
323	R2c: R2/c # semi-labile dissolved organic carbon (mg C/m^3)
324	O2o: O2/o # oxygen (mmol O_2/m^3)
325	O3c: O3/c # carbon dioxide (mmol C/m^3)
326	P2:
327	long_name: nanophytoplankton
328	model: ersem/primary_producer
329	parameters:
330	sum: 1.625 # maximum specific productivity at reference temperature (1/d)
331	q10: 2.0 # Q_10 temperature coefficient (-)
332	srs: 0.04 # specific rest respiration at reference temperature (1/d)
333	pu_ea: 0.2 # excreted fraction of primary production (-)
334	pu_ra: 0.2 # respired fraction of primary production (-)
335	qnlc: 0.005 # minimum nitrogen to carbon ratio (mmol N/mg C)
336	qplc: 0.000225 # minimum phosphorus to carbon ratio (mmol P/mg C)
337	xqcp: 1.0 # threshold for phosphorus limitation (relative to Redfield ratio) (-)
338	xqcn: 1.0 # threshold for nitrogen limitation (relative to Redfield ratio) (-)
339	xqp: 2.0 # maximum phosphorus to carbon ratio (relative to Redfield ratio) (-)
340	xqn: 1.075 # maximum nitrogen to carbon ratio (relative to Redfield ratio) (-)
341	qun3: 0.004 # nitrate affinity (m^3/mg C/d)
342	qun4: 0.004 # ammonium affinity (m^3/mg C/d)
343	qurp: 0.004 # phosphate affinity (m^3/mg C/d)
344	snplux: 1.0 # specific tendency of luxury uptake of nutrients towards maximum quota (1/d), default = 1.0
345	use_Si: false # use silicate, default = false
346	sdo: 0.05 # 1.1 of minimal specific lysis rate (1/d)
347	alpha: 5.0 # initial slope of PI-curve (mg C m^2/mg Chl/W/d)
348	beta: 0.1 # photoinhibition parameter (mg C m^2/mg Chl/W/d)
349	phim: 0.025 # maximum effective chlorophyll to carbon photosynthesis ratio (mg Chl/mg C)
350	Limnut: 1 # nitrogen-phosphorus colimitation formulation (0: geometric mean, 1: minimum, 2: harmonic mean)
351	docdyn: true # use dynamic ratio of labile to semi-labile DOM production, default = false
352	uB1c_O2: 0.11 # oxygen produced per unit of carbon fixed (mmol O_2/mg C)
353	urB1_O2: 0.1 # oxygen consumed per unit of carbon respired (mmol O_2/mg C)
354	iopABS: 0.0041 # specific shortwave absorption (m^2/mg Chl), default = 0.008
355	iopBBS: 0.003 # specific shortwave backscatter (m^2/mg Chl), default = 0.003
356	c0: 0.001 # background carbon concentration (mg C/m^3), default = 0.0
357	calcify: true # calcify, default = false
358	resm: 0.0 # maximum nutrient-limitation-induced sinking velocity (m/d), default = 0.0
359	esni: 0.7 # level of nutrient limitation below which sinking commences (-)
360	cenh: false # enable atmospheric CO2 influence on photosynthesis, default = false
361	ndeposition: 3 # number of target pools for sedimentation, default = 1
362	qxc2: 0.5 # fraction of carbon sinking into deposition target 2 (-)
363	qxc3: 0.05 # fraction of carbon sinking into deposition target 3 (-)
364	qxn2: 0.5 # fraction of nitrogen sinking into deposition target 2 (-)
365	qxn3: 0.05 # fraction of nitrogen sinking into deposition target 3 (-)
366	qxp2: 0.6 # fraction of phosphorus sinking into deposition target 2 (-)
367	qxp3: 0.03 # fraction of phosphorus sinking into deposition target 3 (-)
368	initialization:
369	c: 5.9 # carbon (mg C/m^3)
370	n: 0.0926 # nitrogen (mmol N/m^3)
371	p: 0.0036 # phosphorus (mmol P/m^3)
372	Chl: 0.3 # chlorophyll a (mg/m^3)
373	coupling:
374	RP: R4
375	deposition_target1: Q6/surface
376	deposition_target2: Q1
377	deposition_target3: Q7/surface
378	N1p: N1/p # phosphate (mmol P/m^3)
379	N3n: N3/n # nitrate (mmol N/m^3)
380	N4n: N4/n # ammonium (mmol N/m^3)
381	R1c: R1/c # dissolved organic carbon (mg C/m^3)
382	R1p: R1/p # dissolved organic phosphorus (mmol P/m^3)
383	R1n: R1/n # dissolved organic nitrogen (mmol N/m^3)
384	R2c: R2/c # semi-labile dissolved organic carbon (mg C/m^3)
385	O2o: O2/o # oxygen (mmol O_2/m^3)
386	O3c: O3/c # carbon dioxide (mmol C/m^3)
387	RainR: L2/RainR # rain ratio (PIC : POC) (-)
388	L2c: L2/c # free calcite (mg C/m^3)
389	P3:
390	long_name: picophytoplankton
391	model: ersem/primary_producer
392	parameters:
393	sum: 2.0 # maximum specific productivity at reference temperature (1/d)
394	q10: 2.0 # Q_10 temperature coefficient (-)
395	srs: 0.045 # specific rest respiration at reference temperature (1/d)
396	pu_ea: 0.2 # excreted fraction of primary production (-)
397	pu_ra: 0.2 # respired fraction of primary production (-)
398	qnlc: 0.006 # minimum nitrogen to carbon ratio (mmol N/mg C)
399	qplc: 0.00035 # minimum phosphorus to carbon ratio (mmol P/mg C)
400	xqcp: 1.0 # threshold for phosphorus limitation (relative to Redfield ratio) (-)
401	xqcn: 1.0 # threshold for nitrogen limitation (relative to Redfield ratio) (-)
402	xqp: 1.5 # maximum phosphorus to carbon ratio (relative to Redfield ratio) (-)
403	xqn: 1.05 # maximum nitrogen to carbon ratio (relative to Redfield ratio) (-)
404	qun3: 0.006 # nitrate affinity (m^3/mg C/d)
405	qun4: 0.007 # ammonium affinity (m^3/mg C/d)
406	qurp: 0.006 # phosphate affinity (m^3/mg C/d)
407	snplux: 1.0 # specific tendency of luxuary uptake of nutrients towards maximum quoata (1/d)
408	use_Si: false # use silicate, default = false
409	sdo: 0.055 # 1.1 of minimal specific lysis rate (1/d)
410	alpha: 6.0 # initial slope of PI-curve (mg C m^2/mg Chl/W/d)
411	beta: 0.12 # photoinhibition parameter (mg C m^2/mg Chl/W/d)
412	phim: 0.015 # maximum effective chlorophyll to carbon photosynthesis ratio (mg Chl/mg C)
413	Limnut: 1 # nitrogen-phosphorus colimitation formulation (0: geometric mean, 1: minimum, 2: harmonic mean)
414	docdyn: true # use dynamic ratio of labile to semi-labile DOM production, default = false
415	uB1c_O2: 0.11 # oxygen produced per unit of carbon fixed (mmol O_2/mg C)
416	urB1_O2: 0.1 # oxygen consumed per unit of carbon respired (mmol O_2/mg C)
417	iopABS: 0.023 # specific shortwave absorption (m^2/mg Chl), default = 0.008
418	iopBBS: 0.003 # specific shortwave backscatter (m^2/mg Chl), default = 0.003
419	c0: 0.0088 # background carbon concentration (mg C/m^3), default = 0.0
420	resm: 0.0 # maximum nutrient-limitation-induced sinking velocity (m/d), default = 0.0
421	esni: 0.7 # level of nutrient limitation below which sinking commences (-)
422	cenh: false # enable atmospheric CO2 influence on photosynthesis, default = false
423	ndeposition: 3 # number of target pools for sedimentation, default = 1
424	qxc2: 0.5 # fraction of carbon sinking into deposition target 2 (-)
425	qxc3: 0.05 # fraction of carbon sinking into deposition target 3 (-)
426	qxn2: 0.5 # fraction of nitrogen sinking into deposition target 2 (-)
427	qxn3: 0.05 # fraction of nitrogen sinking into deposition target 3 (-)
428	qxp2: 0.6 # fraction of phosphorus sinking into deposition target 2 (-)
429	qxp3: 0.03 # fraction of phosphorus sinking into deposition target 3 (-)
430	initialization:
431	c: 5.9 # carbon (mg C/m^3)
432	n: 0.0926 # nitrogen (mmol N/m^3)
433	p: 0.0036 # phosphorus (mmol P/m^3)
434	Chl: 0.3 # chlorophyll a (mg/m^3)
435	coupling:
436	RP: R4
437	deposition_target1: Q6/surface
438	deposition_target2: Q1
439	deposition_target3: Q7/surface
440	N1p: N1/p # phosphate (mmol P/m^3)
441	N3n: N3/n # nitrate (mmol N/m^3)
442	N4n: N4/n # ammonium (mmol N/m^3)
443	R1c: R1/c # dissolved organic carbon (mg C/m^3)
444	R1p: R1/p # dissolved organic phosphorus (mmol P/m^3)
445	R1n: R1/n # dissolved organic nitrogen (mmol N/m^3)
446	R2c: R2/c # semi-labile dissolved organic carbon (mg C/m^3)
447	O2o: O2/o # oxygen (mmol O_2/m^3)
448	O3c: O3/c # carbon dioxide (mmol C/m^3)
449	P4:
450	long_name: microphytoplankton
451	model: ersem/primary_producer
452	parameters:
453	sum: 1.125 # maximum specific productivity at reference temperature (1/d)
454	q10: 2.0 # Q_10 temperature coefficient (-)
455	srs: 0.035 # specific rest respiration at reference temperature (1/d)
456	pu_ea: 0.2 # excreted fraction of primary production (-)
457	pu_ra: 0.2 # respired fraction of primary production (-)
458	qnlc: 0.0042 # minimum nitrogen to carbon ratio (mmol N/mg C)
459	qplc: 0.0001 # minimum phosphorus to carbon ratio (mmol P/mg C)
460	xqcp: 1.0 # threshold for phosphorus limitation (relative to Redfield ratio) (-)
461	xqcn: 1.0 # threshold for nitrogen limitation (relative to Redfield ratio) (-)
462	xqp: 2.7 # maximum phosphorus to carbon ratio (relative to Redfield ratio) (-)
463	xqn: 1.1 # maximum nitrogen to carbon ratio (relative to Redfield ratio) (-)
464	qun3: 0.002 # nitrate affinity (m^3/mg C/d)
465	qun4: 0.002 # ammonium affinity (m^3/mg C/d)
466	qurp: 0.002 # phosphate affinity (m^3/mg C/d)
467	snplux: 1.0 # specific tendency of luxuary uptake of nutrients towards maximum quoata (1/d)
468	use_Si: false # use silicate, default = false
469	sdo: 0.045 # 1.1 of minimal specific lysis rate (1/d)
470	alpha: 3.0 # initial slope of PI-curve (mg C m^2/mg Chl/W/d)
471	beta: 0.06 # photoinhibition parameter (mg C m^2/mg Chl/W/d)
472	phim: 0.045 # maximum effective chlorophyll to carbon photosynthesis ratio (mg Chl/mg C)
473	Limnut: 1 # nitrogen-phosphorus colimitation formulation (0: geometric mean, 1: minimum, 2: harmonic mean)
474	docdyn: true # use dynamic ratio of labile to semi-labile DOM production, default = false
475	uB1c_O2: 0.11 # oxygen produced per unit of carbon fixed (mmol O_2/mg C)
476	urB1_O2: 0.1 # oxygen consumed per unit of carbon respired (mmol O_2/mg C)
477	iopABS: 0.008 # specific shortwave absorption (m^2/mg Chl), default = 0.008
478	iopBBS: 0.00048 # specific shortwave backscatter (m^2/mg Chl), default = 0.003
479	c0: 0.0001 # background carbon concentration (mg C/m^3), default = 0.0
480	resm: 5.0 # maximum nutrient-limitation-induced sinking velocity (m/d), default = 0.0
481	esni: 0.7 # level of nutrient limitation below which sinking commences (-)
482	cenh: false # enable atmospheric CO2 influence on photosynthesis, default = false
483	ndeposition: 3 # number of target pools for sedimentation, default = 1
484	qxc2: 0.5 # fraction of carbon sinking into deposition target 2 (-)
485	qxc3: 0.05 # fraction of carbon sinking into deposition target 3 (-)
486	qxn2: 0.5 # fraction of nitrogen sinking into deposition target 2 (-)
487	qxn3: 0.05 # fraction of nitrogen sinking into deposition target 3 (-)
488	qxp2: 0.6 # fraction of phosphorus sinking into deposition target 2 (-)
489	qxp3: 0.03 # fraction of phosphorus sinking into deposition target 3 (-)
490	initialization:
491	c: 5.9 # carbon (mg C/m^3)
492	n: 0.0926 # nitrogen (mmol N/m^3)
493	p: 0.0036 # phosphorus (mmol P/m^3)
494	Chl: 0.3 # chlorophyll a (mg/m^3)
495	coupling:
496	RP: R6
497	deposition_target1: Q6/surface
498	deposition_target2: Q1
499	deposition_target3: Q7/surface
500	N1p: N1/p # phosphate (mmol P/m^3)
501	N3n: N3/n # nitrate (mmol N/m^3)
502	N4n: N4/n # ammonium (mmol N/m^3)
503	R1c: R1/c # dissolved organic carbon (mg C/m^3)
504	R1p: R1/p # dissolved organic phosphorus (mmol P/m^3)
505	R1n: R1/n # dissolved organic nitrogen (mmol N/m^3)
506	R2c: R2/c # semi-labile dissolved organic carbon (mg C/m^3)
507	O2o: O2/o # oxygen (mmol O_2/m^3)
508	O3c: O3/c # carbon dioxide (mmol C/m^3)
509	Z4:
510	long_name: mesozooplankton
511	model: ersem/mesozooplankton
512	parameters:
513	q10: 2.0 # Q_10 temperature coefficient (-)
514	minfood: 12.0 # Michaelis-Menten constant to perceive food (mg C/m^3)
515	chuc: 36.0 # Michaelis-Menten constant for food uptake (mg C/m^3)
516	sum: 1.0 # maximum specific uptake at reference temperature (1/d)
517	pu: 0.6 # assimilation efficiency (-)
518	pu_ea: 0.5 # fraction of unassimilated prey that is excreted (not respired) (-)
519	pu_eaR: 0.9 # fraction of unassimilated detritus that is excreted (not respired) (-)
520	pe_R1: 0.5 # dissolved fraction of excreted/dying matter (-)
521	srs: 0.015 # specific rest respiration at reference temperature (1/d)
522	sd: 0.05 # basal mortality (1/d)
523	sdo: 0.2 # maximum mortality due to oxygen limitation (1/d)
524	chro: 7.81 # Michaelis-Menten constant for oxygen limitation (-)
525	qpc: 0.000786 # phosphorus to carbon ratio (mmol P/mg C)
526	qnc: 0.0126 # nitrogen to carbon ratio (mmol N/mg C)
527	Minprey: 300.0 # food threshold for overwintering state (mg C/m^2)
528	repw: 0.0025 # specific overwintering respiration (1/d)
529	mort: 0.0025 # specific overwintering mortality (1/d)
530	R1R2: 1.0 # labile fraction of produced dissolved organic carbon (-)
531	xR1p: 1.2 # transfer of phosphorus to DOM, relative to POM (-), default = 0.0
532	xR1n: 1.0 # transfer of nitrogen to DOM, relative to POM (-), default = 0.0
533	urB1_O2: 0.1 # oxygen consumed per carbon respired (mmol O_2/mg C)
534	gutdiss: 0.5 # fraction of prey calcite that dissolves after ingestion (-)
535	c0: 0.0033 # background concentration (mg C/m^3)
536	nprey: 9 # number of prey types, default = 0
537	suprey1: 0.15 # relative affinity for prey type 1 (-)
538	suprey2: 0.05 # relative affinity for prey type 2 (-)
539	suprey3: 0.0 # relative affinity for prey type 3 (-)
540	suprey4: 0.15 # relative affinity for prey type 4 (-)
541	suprey5: 0.25 # relative affinity for prey type 5 (-)
542	suprey6: 0.25 # relative affinity for prey type 6 (-)
543	suprey7: 0.05 # relative affinity for prey type 7 (-)
544	suprey8: 0.0 # relative affinity for prey type 8 (-)
545	suprey9: 0.1 # relative affinity for prey type 9 (-)
546	prey9ispom: true # prey type 9 is detritus, default = false
547	initialization:
548	c: 1.2 # carbon (mg C/m^3)
549	coupling:
550	prey1: P1
551	prey2: P2
552	prey3: P3
553	prey4: P4
554	prey5: Z4
555	prey6: Z5
556	prey7: Z6
557	prey8: B1
558	prey9: R6
559	RP: R8
560	N1p: N1/p # phosphate (mmol P/m^3)
561	N4n: N4/n # ammonium (mmol N/m^3)
562	R1c: R1/c # dissolved organic carbon (mg C/m^3)
563	R1p: R1/p # dissolved organic phosphorus (mmol P/m^3)
564	R1n: R1/n # dissolved organic nitrogen (mmol N/m^3)
565	R2c: R2/c # semi-labile dissolved organic carbon (mg C/m^3)
566	O2o: O2/o # oxygen source (mmol O_2/m^3)
567	O3c: O3/c # carbon dioxide sink (mmol C/m^3)
568	L2c: L2/c # calcite (mg C/m^3)
569	Z5:
570	long_name: microzooplankton
571	model: ersem/microzooplankton
572	parameters:
573	q10: 2.0 # Q_10 temperature coefficient (-)
574	minfood: 12.0 # Michaelis-Menten constant to perceive food (mg C/m^3)
575	chuc: 32.0 # Michaelis-Menten constant for food uptake (mg C/m^3)
576	sum: 1.25 # maximum specific uptake at reference temperature (1/d)
577	pu: 0.5 # assimilation efficiency (-)
578	pu_ea: 0.5 # fraction of unassimilated prey that is excreted (not respired) (-)
579	pe_R1: 0.5 # dissolved fraction of excreted/dying matter (-)
580	srs: 0.02 # specific rest respiration at reference temperature (1/d)
581	sd: 0.05 # basal mortality (1/d)
582	sdo: 0.25 # maximum mortality due to oxygen limitation (1/d)
583	chro: 7.81 # Michaelis-Menten constant for oxygen limitation (-)
584	qpc: 0.001 # maximum phosphorus to carbon ratio (mmol P/mg C)
585	qnc: 0.0167 # maximum nitrogen to carbon ratio (mmol N/mg C)
586	stempp: 0.5 # specific excretion rate of excess phosphorus (1/d)
587	stempn: 0.5 # specific excretion rate of excess nitrogen (1/d)
588	R1R2: 1.0 # labile fraction of produced dissolved organic carbon (-)
589	xR1p: 1.2 # transfer of phosphorus to DOM, relative to POM (-), default = 1.0
590	xR1n: 1.0 # transfer of nitrogen to DOM, relative to POM (-), default = 1.0
591	urB1_O2: 0.1 # oxygen consumed per carbon respired (mmol O_2/mg C)
592	gutdiss: 0.5 # fraction of prey calcite that dissolves after ingestion (-)
593	c0: 0.0033 # background concentration (mg C/m^3)
594	nprey: 7 # number of prey types, default = 0
595	suprey1: 0.1 # relative affinity for prey type 1 (-)
596	suprey2: 0.15 # relative affinity for prey type 2 (-)
597	suprey3: 0.15 # relative affinity for prey type 3 (-)
598	suprey4: 0.15 # relative affinity for prey type 4 (-)
599	suprey5: 0.1 # relative affinity for prey type 5 (-)
600	suprey6: 0.15 # relative affinity for prey type 6 (-)
601	suprey7: 0.2 # relative affinity for prey type 7 (-)
602	initialization:
603	c: 7.2 # carbon (mg C/m^3)
604	n: 0.12 # nitrogen (mmol N/m^3)
605	p: 0.0113 # phosphorus (mmol P/m^3)
606	coupling:
607	prey1: B1
608	prey2: P1
609	prey3: P2
610	prey4: P3
611	prey5: P4
612	prey6: Z5
613	prey7: Z6
614	RP: R6
615	N1p: N1/p # phosphate (mmol P/m^3)
616	N4n: N4/n # ammonium (mmol N/m^3)
617	R1c: R1/c # dissolved organic carbon (mg C/m^3)
618	R1p: R1/p # dissolved organic phosphorus (mmol P/m^3)
619	R1n: R1/n # dissolved organic nitrogen (mmol N/m^3)
620	R2c: R2/c # semi-labile dissolved organic carbon (mg C/m^3)
621	O2o: O2/o # oxygen source (mmol O_2/m^3)
622	O3c: O3/c # carbon dioxide sink (mmol C/m^3)
623	L2c: L2/c # calcite (mg C/m^3)
624	Z6:
625	long_name: nanoflagellates
626	model: ersem/microzooplankton
627	parameters:
628	q10: 2.0 # Q_10 temperature coefficient (-)
629	minfood: 12.0 # Michaelis-Menten constant to perceive food (mg C/m^3)
630	chuc: 28.0 # Michaelis-Menten constant for food uptake (mg C/m^3)
631	sum: 1.5 # maximum specific uptake at reference temperature (1/d)
632	pu: 0.4 # assimilation efficiency (-)
633	pu_ea: 0.5 # fraction of unassimilated prey that is excreted (not respired) (-)
634	pe_R1: 0.5 # dissolved fraction of excreted/dying matter (-)
635	srs: 0.025 # specific rest respiration at reference temperature (1/d)
636	sd: 0.05 # basal mortality (1/d)
637	sdo: 0.3 # maximum mortality due to oxygen limitation (1/d)
638	chro: 7.81 # Michaelis-Menten constant for oxygen limitation (-)
639	qpc: 0.001 # maximum phosphorus to carbon ratio (mmol P/mg C)
640	qnc: 0.0167 # maximum nitrogen to carbon ratio (mmol N/mg C)
641	stempp: 0.5 # specific excretion rate of excess phosphorus (1/d)
642	stempn: 0.5 # specific excretion rate of excess nitrogen (1/d)
643	R1R2: 1.0 # labile fraction of produced dissolved organic carbon (-)
644	xR1p: 1.2 # transfer of phosphorus to DOM, relative to POM (-), default = 1.0
645	xR1n: 1.0 # transfer of nitrogen to DOM, relative to POM (-), default = 1.0
646	urB1_O2: 0.1 # oxygen consumed per carbon respired (mmol O_2/mg C)
647	gutdiss: 0.5 # fraction of prey calcite that dissolves after ingestion (-)
648	c0: 0.0033 # background concentration (mg C/m^3)
649	nprey: 4 # number of prey types, default = 0
650	suprey1: 0.45 # relative affinity for prey type 1 (-)
651	suprey2: 0.15 # relative affinity for prey type 2 (-)
652	suprey3: 0.25 # relative affinity for prey type 3 (-)
653	suprey4: 0.15 # relative affinity for prey type 4 (-)
654	initialization:
655	c: 2.421 # carbon (mg C/m^3)
656	n: 0.0505 # nitrogen (mmol N/m^3)
657	p: 0.047 # phosphorus (mmol P/m^3)
658	coupling:
659	prey1: B1
660	prey2: P2
661	prey3: P3
662	prey4: Z6
663	RP: R4
664	N1p: N1/p # phosphate (mmol P/m^3)
665	N4n: N4/n # ammonium (mmol N/m^3)
666	R1c: R1/c # dissolved organic carbon (mg C/m^3)
667	R1p: R1/p # dissolved organic phosphorus (mmol P/m^3)
668	R1n: R1/n # dissolved organic nitrogen (mmol N/m^3)
669	R2c: R2/c # semi-labile dissolved organic carbon (mg C/m^3)
670	RPs: R6/s # particulate organic silicate (mmol Si/m^3)
671	O2o: O2/o # oxygen source (mmol O_2/m^3)
672	O3c: O3/c # carbon dioxide sink (mmol C/m^3)
673	L2c: L2/c # calcite (mg C/m^3)
674	L2:
675	long_name: calcite
676	model: ersem/calcification
677	parameters:
678	iswcal: 1 # calcification/dissolution dependence on calcite saturation (1: power law, 2: hyperbolic)
679	ncalc: 0.81 # power of the calcification law (Ridgwell et al. 2007, mineral calcite) (-)
680	ndiss: 2.22 # power of the dissolution law (Keir 1980) (-)
681	Rain0: 0.6 # maximum rain ratio from PISCES (-)
682	sedL2: 10.0 # sinking velocity (m/d)
683	sL2O3: 0.03 # maximum specific dissolution rate (1/d), default = 1.0
684	c0: 1e-05 # background concentration (mg C/m^3), default = 0.0
685	ndeposition: 1 # number of target pools for sedimentation, default = 1
686	initialization:
687	c: 0.05 # carbon (mg C/m^3)
688	coupling:
689	deposition_target1: bL2
690	om_cal: O3/Om_cal # calcite saturation (-)
691	O3c: O3/c # total dissolved inorganic carbon (mmol C/m^3)
692	bL2:
693	long_name: benthic calcite
694	model: ersem/benthic_calcite
695	parameters:
696	iswcal: 1 # dissolution dependence on calcite saturation (0: none, 1: power law, 2: hyperbolic)
697	ndiss: 2.22 # power of the dissolution law (Keir 1980) (-)
698	fdissmax: 30.0 # maximum specific dissolution rate (1/d), default = 0.0
699	fdissmin: 0.05 # minimum specific dissolution rate (1/d), default = 0.03
700	c0: 1e-05 # background calcite concentration (mg C/m^2), default = 0.0
701	initialization:
702	c: 0.05 # carbon (mg C/m^2)
703	coupling:
704	Om_Cal: O3/Om_cal # calcite saturation (-)
705	O3c: O3/c # dissolved inorganic carbon (mmol/m^3)
706	ben_col:
707	long_name: benthic column
708	model: ersem/benthic_column
709	parameters:
710	qPW: 0.4 # sediment porosity (-)
711	EDZ_mix: 20.0 # equilibrium diffusive speed between sediment surface water (d/m)
712	d_tot: 0.3 # depth of sediment column (m)
713	Etur: 2e-06 # basal bioturbation rate (m^2/d)
714	mtur: 10.0 # maximum relative turbation enhancement (-)
715	htur: 116.0 # Michaelis-Menten constant for bioturbation (mg C/m^2/d)
716	dtur: 0.02 # bioturbation depth (m)
717	EDZ_1: 5e-05 # diffusivity in oxygenated layer (m^2/d)
718	EDZ_2: 5e-05 # diffusivity in oxidized layer (m^2/d)
719	EDZ_3: 5e-05 # diffusivity in anoxic layer (m^2/d)
720	irr_min: 2.0 # minimum diffusion enhancement through bioirrigation (-)
721	mirr: 10.0 # maximum relative diffusion enhancement due to bioirrigation (-)
722	hirr: 101.0 # Michaelis-Menten constant for bioirrigation (mg C/m^2/d)
723	initialization:
724	D1m: 0.009 # depth of bottom interface of oxygenated layer (m)
725	D2m: 0.05 # depth of bottom interface of oxidized layer (m)
726	K1:
727	long_name: benthic phosphate
728	model: ersem/benthic_column_dissolved_matter
729	parameters:
730	composition: p # composition (any combination of c,n,p,s,o,a)
731	ads1: 100.0 # adsorption in layer 1 (total:dissolved) (-), default = 1.0
732	ads2: 100.0 # adsorption in layer 2 (total:dissolved) (-), default = 1.0
733	ads3: 2.0 # adsorption in layer 3 (total:dissolved) (-), default = 1.0
734	c0: 0.0003 # background concentration (mg C/m^2)
735	initialization:
736	p: 6.8 # phosphorus (mmol/m^2)
737	coupling:
738	p_pel: N1/p # pelagic phosphorus (mmol/m^3)
739	K3:
740	long_name: benthic nitrate
741	model: ersem/benthic_column_dissolved_matter
742	parameters:
743	composition: n # composition (any combination of c,n,p,s,o,a)
744	last_layer: 2 # sediment layer where concentration drops to zero, default = 3
745	relax: 5.0 # rate of relaxation towards equilibrium concentration profile (1/d)
746	minD: 0.0001 # minimum depth of zero-concentration isocline (m)
747	c0: 0.0003 # background concentration (mg C/m^2)
748	initialization:
749	n: 0.584 # nitrogen (mmol/m^2)
750	coupling:
751	n_pel: N3/n # pelagic nitrogen (mmol/m^3)
752	K4:
753	long_name: benthic ammonium
754	model: ersem/benthic_column_dissolved_matter
755	parameters:
756	composition: n # composition (any combination of c,n,p,s,o,a)
757	ads1: 3.0 # adsorption in layer 1 (total:dissolved) (-), default = 1.0
758	ads2: 3.0 # adsorption in layer 2 (total:dissolved) (-), default = 1.0
759	ads3: 3.0 # adsorption in layer 3 (total:dissolved) (-), default = 1.0
760	correction: true # move losses in oxygenic layer to deeper layers if pelagic concentration is limiting, default = false
761	c0: 0.0003 # background concentration (mg C/m^2)
762	initialization:
763	n: 25.0 # nitrogen (mmol/m^2)
764	coupling:
765	n_pel: N4/n # pelagic nitrogen (mmol/m^3)
766	K5:
767	long_name: benthic silicate
768	model: ersem/benthic_column_dissolved_matter
769	parameters:
770	composition: s # composition (any combination of c,n,p,s,o,a)
771	c0: 9.e-05 # background concentration (mg C/m^2)
772	initialization:
773	s: 20.1 # silicate (mmol/m^2)
774	coupling:
775	s_pel: N5/s # pelagic silicate (mmol/m^3)
776	G2:
777	long_name: benthic oxygen
778	model: ersem/benthic_column_dissolved_matter
779	parameters:
780	composition: o # composition (any combination of c,n,p,s,o,a)
781	last_layer: 1 # sediment layer where concentration drops to zero, default = 3
782	relax: 5.0 # rate of relaxation towards equilibrium concentration profile (1/d)
783	minD: 0.0001 # minimum depth of zero-concentration isocline (m)
784	initialization:
785	o: 0.0225 # oxygen (mmol/m^2)
786	coupling:
787	o_pel: O2/o # pelagic oxygen (mmol/m^3)
788	G3:
789	long_name: benthic dissolved inorganic carbon
790	model: ersem/benthic_column_dissolved_matter
791	parameters:
792	composition: c # composition (any combination of c,n,p,s,o,a)
793	initialization:
794	c: 375.0 # carbon (mmol/m^2)
795	coupling:
796	c_pel: O3/c # pelagic carbon (mmol/m^3)
797	Q6s_aerobic:
798	long_name: aerobic particulate silicate
799	model: ersem/benthic_column_particulate_matter_layer
800	parameters:
801	composition: s # elemental composition
802	remin: 0.007 # remineralization rate (1/d), default = 0.0
803	minimum_depth: 0.0 # minimum depth (m), default = 0.0
804	variable_maximum_depth: true # maximum depth is variable, default = false
805	coupling:
806	Q: Q6
807	maximum_depth: ben_col/D1m # maximum depth (m)
808	s_remin_target: K5/per_layer/s1 # sink for remineralized silicate (mmol Si/m^2)
809	Q6s_anaerobic:
810	long_name: anaerobic particulate silicate
811	model: ersem/benthic_column_particulate_matter_layer
812	parameters:
813	composition: s # elemental composition
814	remin: 0.007 # remineralization rate (1/d), default = 0.0
815	variable_minimum_depth: true # minimum depth is variable, default = false
816	maximum_depth: 0.3 # maximum depth (m), default = 0.0
817	source_depth_distribution: 2 # vertical distribution of changes (1: constant absolute rate, 2: constant relative rate, 3: constant carbon-based relative rate), default = 1
818	coupling:
819	Q: Q6
820	minimum_depth: ben_col/D1m # minimum depth (m)
821	s_remin_target: K5/per_layer/s2 # sink for remineralized silicate (mmol Si/m^2)
822	ben_nit:
823	long_name: benthic nitrogen cycle
824	model: ersem/benthic_nitrogen_cycle
825	parameters:
826	q10nit: 2.0 # Q_10 temperature coefficient (-)
827	hM4M3: 10.0 # Michaelis-Menten constant for nitrate limitation (mmol/m^3)
828	ISWph: 1 # pH impact on nitrification (0: off, 1: on), default = 0
829	sM4M3: 4.0 # maximum nitrification rate at 10 degrees Celsius (1/d)
830	xno3: 2.0 # oxygen consumed per nitrate produced (mol O_2/mol N)
831	pammon: 0.5 # fraction of oxygen demand fulfilled by denitrification under anaerobic conditions (-)
832	pdenit: 0.05 # fraction of denitrification producing dinitrogen gas (remainder produces ammonium) (-)
833	xn2: 1.25 # oxygen produced per N2 produced (-)
834	hM3G4: 1.0 # Michaelis-Menten constant for nitrate limitation of denitrification (mmol N/m^3)
835	coupling:
836	K3n: K3/per_layer/n1 # nitrate (mmol N/m^2)
837	K4n: K4/per_layer/n1 # ammonium (mmol N/m^2)
838	G2o: G2/per_layer/o1 # oxygen (mmol O_2/m^2)
839	N4n: N4/n # pelagic ammonium (mmol N/m^3)
840	benTA: zero_hz # benthic alkalinity in aerobic layer (mEq/m^2)
841	benTA2: zero_hz # benthic alkalinity in anaerobic layer (mEq/m^2)
842	K3n2: K3/per_layer/n2 # benthic nitrate in 2nd layer (mmol N/m^2)
843	K4n2: K4/per_layer/n2 # benthic ammonium in 2nd layer (mmol N/m^2)
844	G2o2: G2/per_layer/o2 # oxygen in 2nd layer (mmol O_2/m^2)
845	layer2_thickness: ben_col/layer2_thickness # thickness of 2nd layer (m)
846	H1:
847	long_name: benthic aerobic bacteria
848	model: ersem/benthic_bacteria
849	parameters:
850	qnc: 0.0167 # nitrogen to carbon ratio (mmol N/mg C)
851	qpc: 0.00125 # phosphorus to carbon ratio (mmol P/mg C)
852	c0: 1.e-06 # background carbon concentration (mg C/m^2)
853	q10: 2.0 # Q_10 temperature coefficient (-)
854	dd: 0.001 # Michaelis-Menten constant for oxygen limitation through layer thickness (m)
855	nfood: 3 # number of food sources
856	su1: 0.0005 # base affinity for food source 1 (m^2/mg C/d)
857	su2: 2.e-05 # base affinity for food source 2 (m^2/mg C/d)
858	suf2: 0.0002 # additional affinity for food source 2 subject to nutrient limitation (m^2/mg C/d), default = 0.0
859	puinc2: 2.0 # affinity for nutrients relative to carbon in food source 2 (-), default = 1.0
860	pue2: 0.1 # fraction of consumed food source 2 that is excreted (-), default = 0.0
861	su3: 2.e-06 # base affinity for food source 3 (m^2/mg C/d)
862	pue3: 0.1 # fraction of consumed food source 3 that is excreted (-), default = 0.0
863	pur: 0.3 # fraction of consumed carbon that is respired (-)
864	sr: 0.02 # specific rest respiration (1/d)
865	pdQ1: 0.1 # fraction of dying matter that is dissolved (-)
866	sd: 0.05 # specific maximum mortality related to oxygen limitation (1/d)
867	initialization:
868	c: 25.0 # carbon (mg C/m^2)
869	coupling:
870	Q1: Q1
871	Q6: H1_Q6
872	food1: Q1
873	food2: H1_Q6
874	food3: H1_Q7
875	Dm: ben_col/D1m # depth interval available to bacteria (m)
876	K4n: K4/per_layer/n1_pw # ammonium (mmol N/m^2)
877	K1p: K1/per_layer/p1_pw # phosphate (mmol N/m^2)
878	G2o: G2/per_layer/o1 # oxygen (mmol O_2/m^2)
879	G3c: G3/per_layer/c1 # dissolved inorganic carbon (mmol C/m^2)
880	benTA: zero_hz # benthic alkalinity (mEq/m^2)
881	H1_Q6:
882	long_name: benthic aerobic bacteria POM
883	model: ersem/benthic_column_particulate_matter_layer
884	parameters:
885	composition: cnps # elemental composition
886	minimum_depth: 0.0 # minimum depth (m), default = 0.0
887	variable_maximum_depth: true # maximum depth is variable, default = false
888	coupling:
889	Q: Q6
890	maximum_depth: ben_col/D1m # maximum depth (m)
891	H1_Q7:
892	long_name: benthic aerobic bacteria refractory POM
893	model: ersem/benthic_column_particulate_matter_layer
894	parameters:
895	composition: cnp # elemental composition
896	minimum_depth: 0.0 # minimum depth (m), default = 0.0
897	variable_maximum_depth: true # maximum depth is variable, default = false
898	coupling:
899	Q: Q7
900	maximum_depth: ben_col/D1m # maximum depth (m)
901	H2:
902	long_name: benthic anaerobic bacteria
903	model: ersem/benthic_bacteria
904	parameters:
905	qnc: 0.0167 # nitrogen to carbon ratio (mmol N/mg C)
906	qpc: 0.00125 # phosphorus to carbon ratio (mmol P/mg C)
907	c0: 1.e-06 # background carbon concentration (mg C/m^2)
908	q10: 2.0 # Q_10 temperature coefficient (-)
909	dd: 0.01 # Michaelis-Menten constant for oxygen limitation through layer thickness (m)
910	nfood: 2 # number of food sources
911	su1: 2e-05 # base affinity for food source 1 (m^2/mg C/d)
912	suf1: 0.0002 # additional affinity for food source 1 subject to nutrient limitation (m^2/mg C/d), default = 0.0
913	puinc1: 2.0 # affinity for nutrients relative to carbon in food source 1 (-), default = 1.0
914	pue1: 0.0 # fraction of consumed food source 1 that is excreted (-), default = 0.0
915	su2: 2e-06 # base affinity for food source 2 (m^2/mg C/d)
916	pue2: 0.0 # fraction of consumed food source 2 that is excreted (-), default = 0.0
917	pur: 0.3 # fraction of consumed carbon that is respired (-)
918	sr: 0.02 # specific rest respiration (1/d)
919	pdQ1: 0.0 # fraction of dying matter that is dissolved (-)
920	sd: 0.05 # specific maximum mortality related to oxygen limitation (1/d)
921	initialization:
922	c: 400.0 # carbon (mg C/m^2)
923	coupling:
924	Q1: Q1
925	Q6: H2_Q6
926	food1: H2_Q6
927	food2: H2_Q7
928	Dm: ben_col/layer2_thickness # depth interval available to bacteria (m)
929	K4n: K4/per_layer/n2_pw # ammonium (mmol N/m^2)
930	K1p: K1/per_layer/p2_pw # phosphate (mmol N/m^2)
931	G2o: ben_nit/K6_calculator/K6 # oxygen (mmol O_2/m^2)
932	G3c: G3/per_layer/c2 # dissolved inorganic carbon (mmol C/m^2)
933	benTA: zero_hz # benthic alkalinity (mEq/m^2)
934	H2_Q6:
935	long_name: benthic anaerobic bacteria POM
936	model: ersem/benthic_column_particulate_matter_layer
937	parameters:
938	composition: cnps # elemental composition
939	variable_minimum_depth: true # minimum depth is variable, default = false
940	maximum_depth: 0.3 # maximum depth (m), default = 0.0
941	source_depth_distribution: 3 # vertical distribution of changes (1: constant absolute rate, 2: constant relative rate, 3: constant carbon-based relative rate), default = 1
942	coupling:
943	Q: Q6
944	minimum_depth: ben_col/D1m # minimum depth (m)
945	H2_Q7:
946	long_name: benthic anaerobic bacteria refractory POM
947	model: ersem/benthic_column_particulate_matter_layer
948	parameters:
949	composition: cnp # elemental composition
950	variable_minimum_depth: true # minimum depth is variable, default = false
951	maximum_depth: 0.3 # maximum depth (m), default = 0.0
952	source_depth_distribution: 3 # vertical distribution of changes (1: constant absolute rate, 2: constant relative rate, 3: constant carbon-based relative rate), default = 1
953	coupling:
954	Q: Q7
955	minimum_depth: ben_col/D1m # minimum depth (m)
956	Y2:
957	long_name: benthic deposit feeder
958	model: ersem/benthic_fauna
959	parameters:
960	qnc: 0.0119 # nitrogen to carbon ratio (mmol N/mg C)
961	qpc: 0.000792 # phosphorus to carbon ratio (mmol P/mg C)
962	c0: 0.001 # background carbon concentration (mg C/m^2)
963	q10: 2.0 # Q_10 temperature coefficient (-)
964	rlO2: 0.0 # minimum pelagic oxygen concentration (mmol O2/m^3)
965	hO2: 0.0 # Michaelis-Menten constant for oxygen limitation (mmol O2/m^3)
966	xcl: 2500.0 # abundance above which crowding reduces food uptake (mg C/m^2)
967	xcs: 3000.0 # Michaelis-Menten constant for the impact of crowding (mg C/m^2)
968	xch: 5000.0 # abundance determining asymptotic threshold of crowding limitation (-> xch/(Yc+xch) for Yc-> inf) (mg C/m^2)
969	su: 0.11 # specific maximum uptake at reference temperature (1/d)
970	lu: 250.0 # Michaelis-Menten constant for food preference as function of food concentration (mg C/m^2)
971	hu: 3000.0 # Michaelis-Menten constant for gross carbon uptake (mg C/m^2)
972	pue: 0.35 # fraction of carbon in consumed live food that goes to faeces (-)
973	pueQ: 0.8 # fraction of carbon in consumed detritus that goes to faeces (-)
974	pudil: 0.8 # relative nutrient content of faeces (-)
975	sd: 0.001 # specific mortality at reference temperature (1/d)
976	sdmO2: 1.0 # specific maximum additional mortality due to oxygen stress (1/d)
977	sdc: 0.022 # specific maximum additional mortality induced by cold temperature (1/d)
978	xdc: -0.7 # e-folding temperature factor of cold mortality response (1/degree_C)
979	sr: 0.0027 # specific rest respiration at reference temperature (1/d)
980	pur: 0.35 # fraction of assimilated food that is respired (-)
981	nfood: 4 # number of food sources, default = 0
982	pufood1: 1.0 # preference for food source 1 (-)
983	pufood2: 1.0 # preference for food source 2 (-)
984	pufood3: 0.1 # preference for food source 3 (-)
985	pufood4: 1.0 # preference for food source 4 (-)
986	food3ispom: true # food source 3 is detritus, default = false
987	ptur: 1.0 # relative contribution to bioturbation (-), default = 0.0
988	pirr: 1.0 # relative contribution to bioirrigation (-), default = 0.0
989	initialization:
990	c: 3000.0 # carbon (mg C/m^2)
991	coupling:
992	food1: H1
993	food2: H2
994	food3: Y2_Q6_source
995	food4: Y4
996	Q: Y2_Q6_sink
997	Dm: ben_col/D1m # depth of limiting layer for uptake (m)
998	O2o: O2/o # pelagic oxygen (mmol O_2/m^3)
999	G3c: G3/per_layer/c1 # carbon dioxide (mmol C/m^2)
1000	G2o: G2/per_layer/o1 # oxygen (mmol O_2/m^2)
1001	K1p: K1/per_layer/p1 # benthic phosphate in aerobic layer (mmol P/m^2)
1002	K4n: K4/per_layer/n1 # benthic ammonium in aerobic layer (mmol N/m^2)
1003	K1p2: K1/per_layer/p2 # benthic phosphate in anaerobic layer (mmol P/m^2)
1004	K4n2: K4/per_layer/n2 # benthic ammonium in anaerobic layer (mmol N/m^2)
1005	benTA: zero_hz # benthic alkalinity in aerobic layer (mEq/m^2)
1006	benTA2: zero_hz # benthic alkalinity in anaerobic layer (mEq/m^2)
1007	food2c_an: H2/c # food source 2 carbon in anaerobic layer (mg C/m^2)
1008	food3c_an: Y2_Q6_source_anaerobic/c # food source 3 carbon in anaerobic layer (mg C/m^2)
1009	Y2_Q6_source:
1010	long_name: benthic deposit feeder total POM
1011	model: ersem/benthic_column_particulate_matter_layer
1012	parameters:
1013	composition: cnps # elemental composition
1014	minimum_depth: 0.0025 # minimum depth (m), default = 0.0
1015	maximum_depth: 0.3 # maximum depth (m), default = 0.0
1016	coupling:
1017	Q: Q6
1018	Y2_Q6_source_anaerobic:
1019	long_name: benthic deposit feeder anaerobic POM
1020	model: ersem/benthic_column_particulate_matter_layer
1021	parameters:
1022	composition: cnps # elemental composition
1023	variable_minimum_depth: true # minimum depth is variable, default = false
1024	maximum_depth: 0.3 # maximum depth (m), default = 0.0
1025	coupling:
1026	Q: Q6
1027	minimum_depth: ben_col/D1m # minimum depth (m)
1028	Y2_Q6_sink:
1029	long_name: benthic deposit feeder POM sink
1030	model: ersem/benthic_column_particulate_matter_layer
1031	parameters:
1032	composition: cnps # elemental composition
1033	minimum_depth: 0.0 # minimum depth (m), default = 0.0
1034	variable_maximum_depth: true # maximum depth is variable, default = false
1035	coupling:
1036	Q: Q6
1037	maximum_depth: Q6/pen_depth_c # maximum depth (m)
1038	Y3:
1039	long_name: benthic suspension feeder
1040	model: ersem/benthic_fauna
1041	parameters:
1042	qnc: 0.0119 # nitrogen to carbon ratio (mmol N/mg C)
1043	qpc: 0.000792 # phosphorus to carbon ratio (mmol P/mg C)
1044	c0: 0.001 # background carbon concentration (mg C/m^2)
1045	q10: 2.0 # Q_10 temperature coefficient (-)
1046	rlO2: 0.0 # minimum pelagic oxygen concentration (mmol O2/m^3)
1047	hO2: 0.0 # Michaelis-Menten constant for oxygen limitation (mmol O2/m^3)
1048	xcl: 2500.0 # abundance above which crowding reduces food uptake (mg C/m^2)
1049	xcs: 3000.0 # Michaelis-Menten constant for the impact of crowding (mg C/m^2)
1050	xch: 5000.0 # abundance determining asymptotic threshold of crowding limitation (-> xch/(Yc+xch) for Yc-> inf) (mg C/m^2)
1051	su: 0.09 # specific maximum uptake at reference temperature (1/d)
1052	lu: 10.0 # Michaelis-Menten constant for food preference as function of food concentration (mg C/m^2)
1053	hu: 300.0 # Michaelis-Menten constant for gross carbon uptake (mg C/m^2)
1054	pue: 0.35 # fraction of carbon in consumed live food that goes to faeces (-)
1055	pueQ: 0.85 # fraction of carbon in consumed detritus that goes to faeces (-)
1056	pudil: 0.8 # relative nutrient content of faeces (-)
1057	sd: 0.001 # specific mortality at reference temperature (1/d)
1058	sdmO2: 1.0 # specific maximum additional mortality due to oxygen stress (1/d)
1059	sdc: 0.022 # specific maximum additional mortality induced by cold temperature (1/d)
1060	xdc: -0.7 # e-folding temperature factor of cold mortality response (1/degree_C)
1061	sr: 0.0027 # specific rest respiration at reference temperature (1/d)
1062	pur: 0.4 # fraction of assimilated food that is respired (-)
1063	nfood: 6 # number of food sources, default = 0
1064	food1ispel: true # food source 1 is pelagic, default = false
1065	food2ispel: true # food source 2 is pelagic, default = false
1066	food3ispel: true # food source 3 is pelagic, default = false
1067	food4ispel: true # food source 4 is pelagic, default = false
1068	food5_ll: true # availability of food source 5 is limited by aerobic layer height, default = false
1069	pufood1: 1.0 # preference for food source 1 (-)
1070	pufood2: 1.0 # preference for food source 2 (-)
1071	pufood3: 1.0 # preference for food source 3 (-)
1072	pufood4: 1.0 # preference for food source 4 (-)
1073	pufood5: 1.0 # preference for food source 5 (-)
1074	pufood6: 0.1 # preference for food source 6 (-)
1075	food4ispom: true # food source 4 is detritus, default = false
1076	food6ispom: true # food source 6 is detritus, default = false
1077	dwat: 1.0 # water layer accessible for pelagic food uptake (m), default = 1.0
1078	dQ6: 0.0025 # depth of available sediment layer (m), default = 0.0
1079	initialization:
1080	c: 2000.0 # carbon (mg C/m^2)
1081	coupling:
1082	food1: P1
1083	food2: P2
1084	food3: P3
1085	food4: R6
1086	food5: H1
1087	food6: Y3_Q6
1088	Q: Y3_Q6
1089	Dm: ben_col/D1m # depth of limiting layer for uptake (m)
1090	O2o: O2/o # pelagic oxygen (mmol O_2/m^3)
1091	G3c: G3/per_layer/c1 # carbon dioxide (mmol C/m^2)
1092	G2o: G2/per_layer/o1 # oxygen (mmol O_2/m^2)
1093	K1p: K1/per_layer/p1 # benthic phosphate in aerobic layer (mmol P/m^2)
1094	K4n: K4/per_layer/n1 # benthic ammonium in aerobic layer (mmol N/m^2)
1095	K1p2: K1/per_layer/p2 # benthic phosphate in anaerobic layer (mmol P/m^2)
1096	K4n2: K4/per_layer/n2 # benthic ammonium in anaerobic layer (mmol N/m^2)
1097	benTA: zero_hz # benthic alkalinity in aerobic layer (mEq/m^2)
1098	benTA2: zero_hz # benthic alkalinity in anaerobic layer (mEq/m^2)
1099	Y3_Q6:
1100	long_name: benthic suspension feeder POM
1101	model: ersem/benthic_column_particulate_matter_layer
1102	parameters:
1103	composition: cnps # elemental composition
1104	minimum_depth: 0.0 # minimum depth (m), default = 0.0
1105	maximum_depth: 0.0025 # maximum depth (m), default = 0.0
1106	coupling:
1107	Q: Q6
1108	Y4:
1109	long_name: benthic meiofauna
1110	model: ersem/benthic_fauna
1111	parameters:
1112	qnc: 0.0119 # nitrogen to carbon ratio (mmol N/mg C)
1113	qpc: 0.000792 # phosphorus to carbon ratio (mmol P/mg C)
1114	c0: 0.001 # background carbon concentration (mg C/m^2)
1115	q10: 2.0 # Q_10 temperature coefficient (-)
1116	rlO2: 0.0 # minimum pelagic oxygen concentration (mmol O2/m^3)
1117	hO2: 0.0 # Michaelis-Menten constant for oxygen limitation (mmol O2/m^3)
1118	xcl: 25000.0 # abundance above which crowding reduces food uptake (mg C/m^2)
1119	xcs: 3000.0 # Michaelis-Menten constant for the impact of crowding (mg C/m^2)
1120	xch: 5000.0 # abundance determining asymptotic threshold of crowding limitation (-> xch/(Yc+xch) for Yc-> inf) (mg C/m^2)
1121	su: 0.4 # specific maximum uptake at reference temperature (1/d)
1122	lu: 50.0 # Michaelis-Menten constant for food preference as function of food concentration (mg C/m^2)
1123	hu: 1000.0 # Michaelis-Menten constant for gross carbon uptake (mg C/m^2)
1124	pue: 0.25 # fraction of carbon in consumed live food that goes to faeces (-)
1125	pueQ: 0.4 # fraction of carbon in consumed detritus that goes to faeces (-)
1126	pudil: 0.8 # relative nutrient content of faeces (-)
1127	sd: 0.01 # specific mortality at reference temperature (1/d)
1128	sdmO2: 1.0 # specific maximum additional mortality due to oxygen stress (1/d)
1129	sdc: 0.02 # specific maximum additional mortality induced by cold temperature (1/d)
1130	xdc: -0.7 # e-folding temperature factor of cold mortality response (1/degree_C)
1131	sr: 0.01 # specific rest respiration at reference temperature (1/d)
1132	pur: 0.45 # fraction of assimilated food that is respired (-)
1133	nfood: 4 # number of food sources, default = 0
1134	pufood1: 1.0 # preference for food source 1 (-)
1135	pufood2: 1.0 # preference for food source 2 (-)
1136	pufood3: 1.0 # preference for food source 3 (-)
1137	pufood4: 0.3 # preference for food source 4 (-)
1138	food4ispom: true # food source 4 is detritus, default = false
1139	pirr: 0.2 # relative contribution to bioirrigation (-), default = 0.0
1140	initialization:
1141	c: 200.0 # carbon (mg C/m^2)
1142	coupling:
1143	food1: H1
1144	food2: H2
1145	food3: Y4
1146	food4: Y4_Q6
1147	Q: Y4_Q6
1148	Dm: ben_col/D1m # depth of limiting layer for uptake (m)
1149	O2o: O2/o # pelagic oxygen (mmol O_2/m^3)
1150	G3c: G3/per_layer/c1 # carbon dioxide (mmol C/m^2)
1151	G2o: G2/per_layer/o1 # oxygen (mmol O_2/m^2)
1152	K1p: K1/per_layer/p1 # benthic phosphate in aerobic layer (mmol P/m^2)
1153	K4n: K4/per_layer/n1 # benthic ammonium in aerobic layer (mmol N/m^2)
1154	K1p2: K1/per_layer/p2 # benthic phosphate in anaerobic layer (mmol P/m^2)
1155	K4n2: K4/per_layer/n2 # benthic ammonium in anaerobic layer (mmol N/m^2)
1156	benTA: zero_hz # benthic alkalinity in aerobic layer (mEq/m^2)
1157	benTA2: zero_hz # benthic alkalinity in anaerobic layer (mEq/m^2)
1158	Y4_Q6:
1159	long_name: benthic meiofauna POM
1160	model: ersem/benthic_column_particulate_matter_layer
1161	parameters:
1162	composition: cnps # elemental composition
1163	minimum_depth: 0.0 # minimum depth (m), default = 0.0
1164	maximum_depth: 0.03 # maximum depth (m), default = 0.0
1165	coupling:
1166	Q: Q6
1167	N3_flux:
1168	model: external_surface_flux
1169	coupling:
1170	target: N3/n
1171	N4_flux:
1172	model: external_surface_flux
1173	coupling:
1174	target: N4/n
1175	erosion:
1176	model: ersem/benthic_erosion
1177	#Diagnostics:
1178	PON:
1179	long_name: particulate organic nitrogen
1180	model: weighted_sum
1181	parameters:
1182	n: 11
1183	weight5: 0.0126
1184	coupling:
1185	term1: P1/n
1186	term2: P2/n
1187	term3: P3/n
1188	term4: P4/n
1189	term5: Z4/c
1190	term6: Z5/n
1191	term7: Z6/n
1192	term8: B1/n
1193	term9: R4/n
1194	term10: R6/n
1195	term11: R8/n
1196	POP:
1197	long_name: particulate organic phosphorus
1198	model: weighted_sum
1199	parameters:
1200	n: 11
1201	weight5: 0.000786
1202	coupling:
1203	term1: P1/p
1204	term2: P2/p
1205	term3: P3/p
1206	term4: P4/p
1207	term5: Z4/c
1208	term6: Z5/p
1209	term7: Z6/p
1210	term8: B1/p
1211	term9: R4/p
1212	term10: R6/p
1213	term11: R8/p
1214	POSi:
1215	model: weighted_sum
1216	parameters:
1217	n: 3
1218	coupling:
1219	term1: P1/s
1220	term2: R6/s
1221	term3: R8/s
1222	P1_fPIRIc:
1223	long_name: diatom loss to organic carbon
1224	model: weighted_sum
1225	parameters:
1226	n: 3
1227	coupling:
1228	term1: P1/fPIR1c
1229	term2: P1/fPIR2c
1230	term3: P1/fPIRPc
1231	P2_fPIRIc:
1232	long_name: nanophytoplankton loss to organic carbon
1233	model: weighted_sum
1234	parameters:
1235	n: 3
1236	coupling:
1237	term1: P2/fPIR1c
1238	term2: P2/fPIR2c
1239	term3: P2/fPIRPc
1240	P3_fPIRIc:
1241	long_name: picophytoplankton loss to organic carbon
1242	model: weighted_sum
1243	parameters:
1244	n: 3
1245	coupling:
1246	term1: P3/fPIR1c
1247	term2: P3/fPIR2c
1248	term3: P3/fPIRPc
1249	P4_fPIRIc:
1250	long_name: microphytoplankton loss to organic carbon
1251	model: weighted_sum
1252	parameters:
1253	n: 3
1254	coupling:
1255	term1: P4/fPIR1c
1256	term2: P4/fPIR2c
1257	term3: P4/fPIRPc
1258	phytoplankton_loss_to_labile_DOC:
1259	long_name: phytoplankton loss to labile dissolved organic carbon
1260	model: weighted_sum
1261	parameters:
1262	n: 4
1263	coupling:
1264	term1: P1/fPIR1c
1265	term2: P2/fPIR1c
1266	term3: P3/fPIR1c
1267	term4: P4/fPIR1c
1268	phytoplankton_loss_to_labile_DON:
1269	long_name: phytoplankton loss to labile dissolved organic nitrogen
1270	model: weighted_sum
1271	parameters:
1272	n: 4
1273	coupling:
1274	term1: P1/fPIR1n
1275	term2: P2/fPIR1n
1276	term3: P3/fPIR1n
1277	term4: P4/fPIR1n
1278	phytoplankton_loss_to_labile_DOP:
1279	long_name: phytoplankton loss to labile dissolved organic phosphorus
1280	model: weighted_sum
1281	parameters:
1282	n: 4
1283	coupling:
1284	term1: P1/fPIR1p
1285	term2: P2/fPIR1p
1286	term3: P3/fPIR1p
1287	term4: P4/fPIR1p
1288	phytoplankton_loss_to_non_labile_DOC:
1289	long_name: phytoplankton loss to non-labile dissolved organic carbon
1290	model: weighted_sum
1291	parameters:
1292	n: 4
1293	coupling:
1294	term1: P1/fPIR2c
1295	term2: P2/fPIR2c
1296	term3: P3/fPIR2c
1297	term4: P4/fPIR2c
1298	phytoplankton_loss_to_POC:
1299	long_name: phytoplankton loss to particulate organic carbon
1300	model: weighted_sum
1301	parameters:
1302	n: 4
1303	coupling:
1304	term1: P1/fPIRPc
1305	term2: P2/fPIRPc
1306	term3: P3/fPIRPc
1307	term4: P4/fPIRPc
1308	phytoplankton_loss_to_PON:
1309	long_name: phytoplankton loss to particulate organic nitrogen
1310	model: weighted_sum
1311	parameters:
1312	n: 4
1313	coupling:
1314	term1: P1/fPIRPn
1315	term2: P2/fPIRPn
1316	term3: P3/fPIRPn
1317	term4: P4/fPIRPn
1318	phytoplankton_loss_to_POP:
1319	long_name: phytoplankton loss to particulate organic phosphorus
1320	model: weighted_sum
1321	parameters:
1322	n: 4
1323	coupling:
1324	term1: P1/fPIRPp
1325	term2: P2/fPIRPp
1326	term3: P3/fPIRPp
1327	term4: P4/fPIRPp
1328	phytoplankton_uptake_oxN:
1329	long_name: phytoplankton uptake of oxidized nitrogen
1330	model: weighted_sum
1331	parameters:
1332	n: 4
1333	coupling:
1334	term1: P1/fN3PIn
1335	term2: P2/fN3PIn
1336	term3: P3/fN3PIn
1337	term4: P4/fN3PIn
1338	phytoplankton_uptake_redN:
1339	long_name: phytoplankton uptake of reduced nitrogen
1340	model: weighted_sum
1341	parameters:
1342	n: 4
1343	coupling:
1344	term1: P1/fN4PIn
1345	term2: P2/fN4PIn
1346	term3: P3/fN4PIn
1347	term4: P4/fN4PIn
1348	phytoplankton_uptake_DIP:
1349	long_name: phytoplankton uptake of dissolved inorganic phosphorus
1350	model: weighted_sum
1351	parameters:
1352	n: 4
1353	coupling:
1354	term1: P1/fN1PIp
1355	term2: P2/fN1PIp
1356	term3: P3/fN1PIp
1357	term4: P4/fN1PIp
1358	Z4_fphytoc:
1359	long_name: mesozooplankton grazing of phytoplankton carbon
1360	model: weighted_sum
1361	parameters:
1362	n: 4
1363	coupling:
1364	term1: Z4/fprey1c
1365	term2: Z4/fprey2c
1366	term3: Z4/fprey3c
1367	term4: Z4/fprey4c
1368	Z4_fphyton:
1369	long_name: mesozooplankton grazing of phytoplankton nitrogen
1370	model: weighted_sum
1371	parameters:
1372	n: 4
1373	coupling:
1374	term1: Z4/fprey1n
1375	term2: Z4/fprey2n
1376	term3: Z4/fprey3n
1377	term4: Z4/fprey4n
1378	Z4_fphytop:
1379	long_name: mesozooplankton grazing of phytoplankton phosphorus
1380	model: weighted_sum
1381	parameters:
1382	n: 4
1383	coupling:
1384	term1: Z4/fprey1p
1385	term2: Z4/fprey2p
1386	term3: Z4/fprey3p
1387	term4: Z4/fprey4p
1388	Z4_fzooc:
1389	long_name: mesozooplankton predation of phytoplankton carbon
1390	model: weighted_sum
1391	parameters:
1392	n: 3
1393	coupling:
1394	term1: Z4/fprey5c
1395	term2: Z4/fprey6c
1396	term3: Z4/fprey7c
1397	Z4_fzoon:
1398	long_name: mesozooplankton predation of phytoplankton nitrogen
1399	model: weighted_sum
1400	parameters:
1401	n: 3
1402	coupling:
1403	term1: Z4/fprey5n
1404	term2: Z4/fprey6n
1405	term3: Z4/fprey7n
1406	Z4_fzoop:
1407	long_name: mesozooplankton predation of zooplankton phosphorus
1408	model: weighted_sum
1409	parameters:
1410	n: 3
1411	coupling:
1412	term1: Z4/fprey5p
1413	term2: Z4/fprey6p
1414	term3: Z4/fprey7p
1415	Z5_fphytoc:
1416	long_name: microzooplankton grazing of phytoplankton carbon
1417	model: weighted_sum
1418	parameters:
1419	n: 4
1420	coupling:
1421	term1: Z5/fprey2c
1422	term2: Z5/fprey3c
1423	term3: Z5/fprey4c
1424	term4: Z5/fprey5c
1425	Z5_fphyton:
1426	long_name: microzooplankton grazing of phytoplankton nitrogen
1427	model: weighted_sum
1428	parameters:
1429	n: 4
1430	coupling:
1431	term1: Z5/fprey2n
1432	term2: Z5/fprey3n
1433	term3: Z5/fprey4n
1434	term4: Z5/fprey5n
1435	Z5_fphytop:
1436	long_name: microzooplankton grazing of phytoplankton phosphorus
1437	model: weighted_sum
1438	parameters:
1439	n: 4
1440	coupling:
1441	term1: Z5/fprey2p
1442	term2: Z5/fprey3p
1443	term3: Z5/fprey4p
1444	term4: Z5/fprey5p
1445	Z5_fzooc:
1446	long_name: microzooplankton predation of zooplankton carbon
1447	model: weighted_sum
1448	parameters:
1449	n: 2
1450	coupling:
1451	term1: Z5/fprey6c
1452	term2: Z5/fprey7c
1453	Z5_fzoon:
1454	long_name: microzooplankton predation of zooplankton nitrogen
1455	model: weighted_sum
1456	parameters:
1457	n: 2
1458	coupling:
1459	term1: Z5/fprey6n
1460	term2: Z5/fprey7n
1461	Z5_fzoop:
1462	long_name: microzooplankton predation of zooplankton phosphorus
1463	model: weighted_sum
1464	parameters:
1465	n: 2
1466	coupling:
1467	term1: Z5/fprey6p
1468	term2: Z5/fprey7p
1469	Z6_fphytoc:
1470	long_name: heterotrophic flagellate grazing of phytoplankton carbon
1471	model: weighted_sum
1472	parameters:
1473	n: 2
1474	coupling:
1475	term1: Z6/fprey2c
1476	term2: Z6/fprey3c
1477	Z6_fphyton:
1478	long_name: heterotrophic flagellate grazing of phytoplankton nitrogen
1479	model: weighted_sum
1480	parameters:
1481	n: 2
1482	coupling:
1483	term1: Z6/fprey2n
1484	term2: Z6/fprey3n
1485	Z6_fphytop:
1486	long_name: heterotrophic flagellate grazing of phytoplankton phosphorus
1487	model: weighted_sum
1488	parameters:
1489	n: 2
1490	coupling:
1491	term1: Z6/fprey2p
1492	term2: Z6/fprey3p
1493	total_microzooplankton_loss_to_POC:
1494	long_name: total microzooplankton loss to particulate organic carbon
1495	model: weighted_sum
1496	parameters:
1497	n: 2
1498	coupling:
1499	term1: Z5/fZIRPc
1500	term2: Z6/fZIRPc
1501	total_microzooplankton_loss_to_PON:
1502	long_name: total microzooplankton loss to particulate organic nitrogen
1503	model: weighted_sum
1504	parameters:
1505	n: 2
1506	coupling:
1507	term1: Z5/fZIRPn
1508	term2: Z6/fZIRPn
1509	total_microzooplankton_loss_to_POP:
1510	long_name: total microzooplankton loss to particulate organic phosphorus
1511	model: weighted_sum
1512	parameters:
1513	n: 2
1514	coupling:
1515	term1: Z5/fZIRPp
1516	term2: Z6/fZIRPp
1517	total_microzooplankton_loss_to_DOC:
1518	long_name: total microzooplankton loss to dissolved organic carbon
1519	model: weighted_sum
1520	parameters:
1521	n: 2
1522	coupling:
1523	term1: Z5/fZIRDc
1524	term2: Z6/fZIRDc
1525	total_microzooplankton_loss_to_DON:
1526	long_name: total microzooplankton loss to dissolved organic nitrogen
1527	model: weighted_sum
1528	parameters:
1529	n: 2
1530	coupling:
1531	term1: Z5/fZIRDn
1532	term2: Z6/fZIRDn
1533	total_microzooplankton_loss_to_DOP:
1534	long_name: total microzooplankton loss to dissolved organic phosphorus
1535	model: weighted_sum
1536	parameters:
1537	n: 2
1538	coupling:
1539	term1: Z5/fZIRDp
1540	term2: Z6/fZIRDp
1541	total_microzooplankton_respiration:
1542	long_name: total microzooplankton respiration
1543	model: weighted_sum
1544	parameters:
1545	n: 2
1546	coupling:
1547	term1: Z5/fZIO3c
1548	term2: Z6/fZIO3c
1549	total_microzooplankton_loss_to_DIN:
1550	long_name: total microzooplankton loss to dissolved inorganic nitrogen
1551	model: weighted_sum
1552	parameters:
1553	n: 2
1554	coupling:
1555	term1: Z5/fZINIn
1556	term2: Z6/fZINIn
1557	total_microzooplankton_loss_to_DIP:
1558	long_name: total microzooplankton loss to dissolved inorganic phosphorus
1559	model: weighted_sum
1560	parameters:
1561	n: 2
1562	coupling:
1563	term1: Z5/fZINIp
1564	term2: Z6/fZINIp
1565	gross_calcification_rate:
1566	long_name: gross calcification rate
1567	model: weighted_sum
1568	parameters:
1569	n: 4
1570	coupling:
1571	term1: P2/calcification
1572	term2: Z4/calcification
1573	term3: Z5/calcification
1574	term4: Z6/calcification
1575	ben_PON:
1576	long_name: benthic particulate organic nitrogen
1577	model: horizontal_weighted_sum
1578	parameters:
1579	n: 2
1580	coupling:
1581	term1: Q6/n
1582	term2: Q7/n
1583	ben_POP:
1584	long_name: benthic particulate organic phosphate
1585	model: horizontal_weighted_sum
1586	parameters:
1587	n: 2
1588	coupling:
1589	term1: Q6/p
1590	term2: Q7/p
1591	benthic_denitrification_ammonification:
1592	long_name: benthic denitrification and ammonification
1593	model: horizontal_weighted_sum
1594	parameters:
1595	n: 2
1596	coupling:
1597	term1: ben_nit/jM3G4n
1598	term2: ben_nit/jM3M4n
1599	Y3_fphytoc:
1600	long_name: benthic suspension feeder grazing of phytoplankton carbon
1601	model: horizontal_weighted_sum
1602	parameters:
1603	n: 3
1604	coupling:
1605	term1: Y3/fprey1c
1606	term2: Y3/fprey2c
1607	term3: Y3/fprey3c
1608	Y3_fphyton:
1609	long_name: benthic suspension feeder grazing of phytoplankton nitrogen
1610	model: horizontal_weighted_sum
1611	parameters:
1612	n: 3
1613	coupling:
1614	term1: Y3/fprey1n
1615	term2: Y3/fprey2n
1616	term3: Y3/fprey3n
1617	Y3_fphytop:
1618	long_name: benthic suspension feeder grazing of phytoplankton phosphorus
1619	model: horizontal_weighted_sum
1620	parameters:
1621	n: 3
1622	coupling:
1623	term1: Y3/fprey1p
1624	term2: Y3/fprey2p
1625	term3: Y3/fprey3p
1626	Ymacro_fYG3c:
1627	long_name: benthic macrofauna respiration
1628	model: horizontal_weighted_sum
1629	parameters:
1630	n: 2
1631	coupling:
1632	term1: Y2/fYG3c
1633	term2: Y3/fYG3c
1634	Ymacro_fYQPc:
1635	long_name: benthic macrofauna loass to particulate organic carbon
1636	model: horizontal_weighted_sum
1637	parameters:
1638	n: 2
1639	coupling:
1640	term1: Y2/fYQPc
1641	term2: Y3/fYQPc
1642	Ymacro_fYQPn:
1643	long_name: benthic macrofauna loass to particulate organic nitrogen
1644	model: horizontal_weighted_sum
1645	parameters:
1646	n: 2
1647	coupling:
1648	term1: Y2/fYQPn
1649	term2: Y3/fYQPn
1650	Ymacro_fYQPp:
1651	long_name: benthic macrofauna loass to particulate organic phosphorus
1652	model: horizontal_weighted_sum
1653	parameters:
1654	n: 2
1655	coupling:
1656	term1: Y2/fYQPp
1657	term2: Y3/fYQPp
1658	Ymacro_fYKIn:
1659	long_name: benthic macrofauna loass to dissolved inorganic nitrogen
1660	model: horizontal_weighted_sum
1661	parameters:
1662	n: 2
1663	coupling:
1664	term1: Y2/fYKIn
1665	term2: Y3/fYKIn
1666	Ymacro_fYK1p:
1667	long_name: benthic macrofauna loass to dissolved inorganic phosphorus
1668	model: horizontal_weighted_sum
1669	parameters:
1670	n: 2
1671	coupling:
1672	term1: Y2/fYK1p
1673	term2: Y3/fYK1p
1674	Q6_remins:
1675	long_name: benthic remineralisation of silicate
1676	model: horizontal_weighted_sum
1677	parameters:
1678	n: 1
1679	weight1: 0.007
1680	coupling:
1681	term1: Q6/s
1682	net_PelBen_POC:
1683	long_name: flux of particulate organic carbon from pelagic to benthos
1684	model: horizontal_weighted_sum
1685	parameters:
1686	n: 17
1687	weight17: -1.
1688	coupling:
1689	term1: R4/dep1c
1690	term2: R4/dep2c
1691	term3: R6/dep1c
1692	term4: R6/dep2c
1693	term5: R8/dep1c
1694	term6: R8/dep2c
1695	term7: P1/dep1c
1696	term8: P1/dep2c
1697	term9: P1/dep3c
1698	term10: P4/dep1c
1699	term11: P4/dep2c
1700	term12: P4/dep3c
1701	term13: Y3/fprey1c
1702	term14: Y3/fprey2c
1703	term15: Y3/fprey3c
1704	term16: Y3/fprey4c
1705	term17: Q6/resuspension_flux_c
1706	net_PelBen_PON:
1707	long_name: flux of particulate organic nitrogen from pelagic to benthos
1708	model: horizontal_weighted_sum
1709	parameters:
1710	n: 17
1711	weight17: -1.
1712	coupling:
1713	term1: R4/dep1n
1714	term2: R4/dep2n
1715	term3: R6/dep1n
1716	term4: R6/dep2n
1717	term5: R8/dep1n
1718	term6: R8/dep2n
1719	term7: P1/dep1n
1720	term8: P1/dep2n
1721	term9: P1/dep3n
1722	term10: P4/dep1n
1723	term11: P4/dep2n
1724	term12: P4/dep3n
1725	term13: Y3/fprey1n
1726	term14: Y3/fprey2n
1727	term15: Y3/fprey3n
1728	term16: Y3/fprey4n
1729	term17: Q6/resuspension_flux_n
1730	net_PelBen_POP:
1731	long_name: flux of particulate organic phosphorus from pelagic to benthos
1732	model: horizontal_weighted_sum
1733	parameters:
1734	n: 17
1735	weight17: -1.
1736	coupling:
1737	term1: R4/dep1p
1738	term2: R4/dep2p
1739	term3: R6/dep1p
1740	term4: R6/dep2p
1741	term5: R8/dep1p
1742	term6: R8/dep2p
1743	term7: P1/dep1p
1744	term8: P1/dep2p
1745	term9: P1/dep3p
1746	term10: P4/dep1p
1747	term11: P4/dep2p
1748	term12: P4/dep3p
1749	term13: Y3/fprey1p
1750	term14: Y3/fprey2p
1751	term15: Y3/fprey3p
1752	term16: Y3/fprey4p
1753	term17: Q6/resuspension_flux_p
1754	net_PelBen_POSi:
1755	long_name: flux of particulate organic silicate from pelagic to benthos
1756	model: horizontal_weighted_sum
1757	parameters:
1758	n: 6
1759	weight6: -1.
1760	coupling:
1761	term1: R6/dep1s
1762	term2: R8/dep1s
1763	term3: P1/dep1s
1764	term4: Y3/fprey1s
1765	term5: Y3/fprey4s
1766	term6: Q6/resuspension_flux_s

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source: NEMO/branches/UKMO/AMM15_v3_6_STABLE_new_ersem/NEMOGCM/CONFIG/AMM7_FABM_ERSEM/EXP2020/fabm.yaml @ 15480

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