Changes between Version 37 and Version 38 of Documentation/TrunkFunctionality4
- Timestamp:
- 2020-04-14T19:50:21+02:00 (4 years ago)
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Documentation/TrunkFunctionality4
v37 v38 14 14 15 15 == Fair use policy == 16 Before downloading and using the trunk, please, read and adhere to the [https://forge.ipsl.jussieu.fr/orchidee/wiki/GroupActivities/UseOfORCHIDEEpolicy/InternalFair-use-policy '''FAIR USE POLICY''']. 17 The label '''restrictions apply''' implies that if you are interested in setting up a study that heavily relies on this functionality you are requested to contact the developers to discuss beforehand whether your intended use is in conflict with the ongoing work of the developer. If this functionality is not the core of your study, you are free to use it. For example, if you are planning to study global gpp you can use the water stress without any further concern, if you are planning to study the response of a specific PFT to droughts, your study heavily relies on the water stress and so you are requested to contact the developer. In case of doubt contact the ORCHIDEE team. 16 Before downloading and using the trunk, please, read and adhere to the [https://forge.ipsl.jussieu.fr/orchidee/wiki/GroupActivities/UseOfORCHIDEEpolicy/InternalFair-use-policy '''FAIR USE POLICY''']. 18 17 19 18 … … 112 111 113 112 114 === Bark beetles ( '''restrictions apply''';r6614) ===113 === Bark beetles (r6614) === 115 114 The bark beetle module was developed such that it interacts with the windthrow module. If you want to activate it use the flag OK_PEST=y in the run.def. To specify which PFT may be affected by bark beetles use BEETLE_PFT_xxx= TRUE where XXX is the pft you interested in. Note that for the moment bark beetles in ORCHIDEE is parameterized only to work with Picea abies. 116 115 … … 229 228 230 229 231 === Litter raking ( '''restrictions apply''';r6614) ===230 === Litter raking (r6614) === 232 231 Tree litter was collected from the forest and used in the winter in stables instead of straw. In spring the litter and manure was spread on the croplands. This lateral flow of C and N between PFTS in the same pixel can be accounted for in ORCHIDEE trunk 4 by setting '''use_litter_raking''' = y. If litter raking is to be used, the model will search for annual maps. The path of these maps needs to be specified in COMP/stomate.card. Litter raking maps were prepared for Europe. Unless liter raking is your research topic set '''use_litter_raking''' = n. An example of to set up the model to make use of the historical litter raking maps can be found in config/ORCHIDEE_OL/OOL_SEC_STO_FG4 233 232 … … 240 239 ORCHIDEE trunk 4 calculates the number of individuals and uses this as a criterion to initiate a stand replacing disturbance. This approach, guided by the self-thinning relationship, avoids the need for a stand-level turnover time. ORCHIDEE-CN, and ORCHIDEE-CNP still make use of stand-level turnover. Note that the meaning of residence_time is very different between the CAN branch and the trunk. In the trunk biomass has no age and thus the residence time accounts for all forest dynamics including self-thinning, pests, diseases and windthrow. In the CAN branch, biomass does have an age and self-thinning is explicitly accounted for, hence, the residence time should be much higher as it only accounts for pest, diseases and windthrow. Even the latter is not exact because as long as those disturbances are small scale they are probably accounted for in the parametrization of self-thinning. 241 240 242 === Nitrogen cycle ( '''restrictions apply''';r6614) ===241 === Nitrogen cycle (r6614) === 243 242 ORCHIDEE trunk 4 strictly follows ORCHIDEE trunk 3 where it concerns the implementation of the N-cycle. Following mass balance problems caused by negative N mineralization and followed by negative immobilization, the code has been slightly adjusted to ensure mass balance closure. First the flag '''stomate_ok_ncycle''' needs to be set to y, to run the model with a N-cycle. Subsequently the parameter '''impose_cn''' is used to control the N-cycle calculations. If set to y, C/N ratios are calculated but whenever N appears to be limiting, it is taken from the atmosphere to satisfy this need. This is the preferred setting when testing/developing the code without a proper spin-up. N-limitation will only be accounted for when setting impose_cn = n. With this setting the N-cycle is closed (checked when checking for mass balance closure) it requires a spin-up to produce reasonable results. 244 243 … … 292 291 293 292 294 === Plant water stress ( '''restrictions apply''';r6614) ===293 === Plant water stress (r6614) === 295 294 With ORCHIDEE trunk 4 there are two option to calculate waters stress: 296 295 * Same as in ORCHIDEE 3.0 and previous ORCHIDEE trunks, where a soil moisture stress functions limits C assimilation through constraints on the carboxylation capacity. … … 315 314 316 315 317 === Recruitment ( '''restrictions apply''';r6614) ===316 === Recruitment (r6614) === 318 317 When stands grow old the tree density decreases and under certain conditions the LAI can no longer cover the ground area. When this happens productivity will start to decrease. In nature the decrease in LAI comes with an increase in the amount of light reaching the forest floor which enables seedlings to grow and to restore the LAI. This process is known as recruitment. Note that in managed forest and forest with a lot of stand replacing disturbances (for example, fire) the forest may never reach the stage where the canopy sufficiently opens up to enable recruitment. 319 318 … … 323 322 324 323 325 === River routing ( '''restrictions apply''';r6614) ===324 === River routing (r6614) === 326 325 This functionality works has not been evaluated yet for ORCHIDEE trunk 4, although it technically runs. Unless rivers are your main interest, set '''river_routing''' to n. The functionality still has problem when combined with the zoomed grids because pixels far away from the zoom become so big that some rivers can no longer reach the sea. Stand alone applications of ORCHIDEE trunk 4 with river routing being activated require that the whole watershed in include in the simulation domain. If not the model will crash right at the start. 327 326 … … 346 345 347 346 348 === Single vs multi layer energy budget ( '''restrictions apply''';r6614) ===347 === Single vs multi layer energy budget (r6614) === 349 348 There are still some issues with the multi-layer energy budget, and it is currently only possible to run for one PFT. Thus, we suggest you use the single layer energy budget. In this can, however, be done by two different methods that in theory should give the exact same results: 350 349 A - Use the energy scheme as found in the original enerbil.f90 … … 355 354 Energy_control has 5 possible settings: 356 355 * Single layer, using the multi layer energy scheme (i.e. choice B above) 357 * Multi-layer energy budget ('''restrictions apply''')356 * Multi-layer energy budget 358 357 * User specific as set in the run.def 359 358 * Single layer, using the original enerbil scheme (i.e. choice A above) … … 362 361 2 - option to use enerbil module and original water stress (not hydraulic architecture). 363 362 3 - The energy budget is calculated using the multi-layer energy scheme with a single layer: ok_hydrol_arch, ok_gs_feedback, ok_impose_canopy_structure and ok_mleb all TRUE, but The energy budget is only calculated for a single layer (jnlvls is 1,jnlvls_under is 0,jnlvls_canopy is 1,jnlvls_over is 0). No mleb output, ok_mleb_history_file is set to FALSE. 364 4 - multi-layer energy budget ('''restrictions apply'''): ok_hydrol_arch, ok_gs_feedback and ok_mleb all TRUE. ok_impose_canopy_structure is False, and the energy budget is calculated for multiple layers (jnlvls is 29,jnlvls_under is 10,jnlvls_canopy is 10,jnlvls_over is 9). No mleb output, ok_mleb_history_file is set to FALSE.363 4 - multi-layer energy budget: ok_hydrol_arch, ok_gs_feedback and ok_mleb all TRUE. ok_impose_canopy_structure is False, and the energy budget is calculated for multiple layers (jnlvls is 29,jnlvls_under is 10,jnlvls_canopy is 10,jnlvls_over is 9). No mleb output, ok_mleb_history_file is set to FALSE. 365 364 5 - user specific: user specific settings for these controls and layers as defined in the run.def by the user. 366 365 … … 413 412 In ORCHIDEE trunk 4 the links between sechiba and stomate have been strengthened compared to previous ORCHIDEE trunks. As in previous versions, stomate makes use of variables calculated in sechiba but in ORCHIDEE trunk 4, sechiba requires information from stomate to work properly. It is possible to prescribe the canopy structure and thus only run sechiba. Set '''lai_map''' = y, the data for a canopy structure map need to come from an ORCHIDEE trunk 4 run with stomate. All the required information is stored in the sechiba restart file to enable restarting the model without stomate. 414 413 415 === Tree ring width ( '''restrictions apply''';r6721) ===414 === Tree ring width (r6721) === 416 415 To be completed. 417 416 418 === Vertical discretization soil carbon ( '''restrictions apply''';r6721) ===417 === Vertical discretization soil carbon (r6721) === 419 418 To be completed. 420 419 421 === Wind throw ( '''restrictions apply''';r6614) ===420 === Wind throw (r6614) === 422 421 The calculation of wind storm damage can be activated by setting '''ok_windthrow''' to y in the orchidee.def. This module calculates the critical wind speed of a stand taking stand and soil properties into account. If the stand is managed, the damaged trees are salvaged logged. If the stand is unmanaged the damaged trees are left on-site to decompose. The default setting for ok_windthrow is n. The damaged fractions of the stands are replanted and moved to the first age class (if more than 1 age class is used).
