Showing posts with label WATZON. Show all posts
Showing posts with label WATZON. Show all posts

Tuesday, October 5, 2021

The LysGEO modelling solution @ Italian Hydrological Society Hydrology days

 @ The Italian Hydrological Society Hydrology days, Concetta D'Amato presented her work on the LysGEO model. As some knows LysGEO put together the WHETGEO 1D component with the (revised) Prospero component. The first estimates infiltration, the second performs evaporation and transpiration. Together they constitute a soil-water-atmosphere model, that it is what LysGEO is. Or if you prefer, it is a tool to investigate the critical zone. 



LysGEO was already described elsewhere in the blog. However, in this case there is a relevant addition, derived from the work done utilizing the funding support of the WATSON cost action in Lausanne with Andrea Rinaldo e Paolo Benettin. They built a lysimeter whose seems to be the right experiment to test LysGEO. The presentation shows the first results (with almost no calibration). Clicking on the image above, you get the slides (in English). Here you can appreciate the presentation in Italian given by Concetta.   LysGEO is a product of the WATZON PRIN project.


Thursday, May 13, 2021

Evaporation and Transpiration

 Evaporation and transpiration are the topics more discussed in this blog, due to the interests I grew in the last few years (almost without publishing). However, I believe I collected enough information to be able to summarize a new view on these processes. Certainly shared with others, but not so widely shared, and not already present in other posts of this blog. In this presentation, that I shrinked in less than half an hour, I tried to summarize part of my current knowledge. For complimentary information, please see the lectures I gave at the GEOframe Winter School, or during the class of hydrology I do



The main result are a complete understanding of what the Penman-Monteith approach is, and that soil evaporation and transpiration can be differentiated from  the computational point of view because of the different dynamics of their energy and water budgets.

Wednesday, March 24, 2021

4 Lysimeter GEO users

  In ten minutes or so I am meeting the first organised group of possible Lysimeter GEO users that are not just my students of the Hydrology Class. It is time, I guess for collecting all the material we organised around it.  Lysimeter GEO is the informatics companion of a real Lysimeter, like the one in Figure.

Installations should follow the standards of the GEOframe systems (edition Rossano in these days)

I assume that Richards theory is known. Otherwise, one should give a look to this old but still valid presentation (if English speaking). Otherwise the most recent class of Hydrology can be useful for this learning task. You can find it here.

Figure is from Nehemy, et al. 2020. “Tree Water Deficit and Dynamic Source Water Partitioning.”  https://doi.org/10.1002/hyp.14004.


Lysimeter GEO uses WHETGEO 1D (the creature of Niccolò Tubini) for estimating infiltration in waters. Information on how using WHETGEO can be found in the lab classes of the Hydrology course (unfortunately  the video material is in Italian but, all the documentation provided trough Jupyter Notebooks is in English. Particularly relevant, when you go to download the code (see below) is giving a look to the Notebook_Zero which give the general information.  A paper on WHETGEO is in the process of writing. As soon as we will have a decent draft, it will be shared with people on this and other posts. 

Lysimeter GEO currently implements the Priestley-Taylor, Penman-Monteith-FAO and the Prospero model for the estimation of evapotranspiration. All of them are well documented in Michele's (Bottazzi) Ph.D. Thesis. It is producing some publications too, and when they will be in preprint, they will be shared. Applications of the GEOframe models of evapotranspiration are available at the GEOframe Winter School pages (here). 

All of it is put together with the Lysimeter GEO model. Concetta D'Amato prepared a couple of seminar for its use which are available at this WATZON project page. The code and material used by Concetta in her presentation is available here.

All of us is committed to promote the use of our tools. Everything is open source, well designed, well documented. Do not esitate to ask us for support, if needed. WHETGEO, Prospero and Lysimeter GEO are on Github. 

Wednesday, December 23, 2020

Lysimiter GEO - Webinar II - An exercise step by step

 This follows the first webinar on Lysimeter Pro, a GEOframe modelling solution intended to estimate the 1D soil-vegetation-atmosphere fluxes using the GEOframe WHETGEO and GEOframe Prospero tools. No more explanations are required than those you already find in the previous webinar and in the Jupyter Notebooks inside the  OMS3 project at here. The OMS project contains all the executable, however you have to do some installations before using the GEOframe working environment

Please find the video of the webinar below.

Executing Lysimeter GEO from Ri Rigon on Vimeo.

The previous webinar here.  For any question please do not exitate to contact us using the GEOframe users google group: https://groups.google.com/g/geoframe-components-users

Friday, December 18, 2020

Lysimiter GEO - Webinar I

 Land-Vegetation-Atmosphere interactions are an exciting field of Hydrology. Within our system GEOframe, one branch of work is improving the physics of GEOtop and this talk shows some of the work we made to this goal. Lysimiter GEO builds a virtual lysimiter and modeling infiltration and energy transfer in soil and evaporation and transpiration. The infiltration is modeled by the component WHETGEO 1D (Water, HEat and Transport in GEOframe) that integrates the 1D Richards developed by Niccolò Tubini. The evaporation and Transpiration are modeled by the GEOframe component Prospero  developed by Michele Bottazzi  in his Ph.D. Thesis.  Lysimeter GEO, however, was completed by Concetta D'Amato who is pursuing her Ph.D. on these topics within the PRIN project WATZON.By clicking on the Figure below you can access the slides. 

If you want to run Lysimeter GEO, you have first to install the GEOframe 2021 environment.  Here below, please find the video of the talk.  The OMS project for all the run can be found on OSF here



The second webinar containing an exercise did step by step is in this new post. 

Wednesday, November 11, 2020

Travel times and Residence Times explained

Long time ago it was believed that Residence times and travel times were the same concept. This is not true. Long time ago it was also assumed that they could be chosen as time invariant. Recent literature showed that this is not usually the case.  All of this is explained, hopefully in a clearly definitive way in the following presentation.


Yo can find it by clicking on the figure above. This presentation uses drawings, plots, in a way that it cannot be done in a paper (but would be useful sometimes) and can be considered to be a companion of part of our 2016 paper below. Other presentations will follow on the topics of response time and its relation to life expectation. The talk I gave for the WATZON project is here below

 

 

Rigon, Riccardo, Marialaura Bancheri, and Timothy R. Green. 2016. “Age-Ranked Hydrological Budgets and a Travel Time Description of Catchment Hydrology.” Hydrology and Earth System Sciences 20 (12): 4929–47.

Thursday, October 1, 2020

WATZON seminar series - I

 The Project WATZON  has almost finished the first year of work. It was a troubled year,  since the COVID-19 pandemic and we could not meet and do the field work required. However, we learn to use better the resources Internet brought to us. Upon the initiative of Paolo Nasta we started a series of on-line conferences on the tools and topics of the project. He is providing in these days seminars about the use of Hydrus-1D, a leading software for estimating infiltration by using Richards equation.  He accepted his material to be uploaded on my VIMEO WATZON Channel.



To interested people, Paolo suggest the following material

Lecture 1: Introduction to Hydrus-1D - First part

Lecture 2: Introduction to Hydrus-1D-Second part
Lecture 3: Treating tracers with Hydrus-1d
Lecture 4 - Going deeper isotope transport in Hydrus-1D
Paolo Nasta also wrote: "In the attached Excel file I extracted Fig.6 from the  Stumpp's paper. In this exercise we consider only delta18O transport. First of all, we all need to measure delta18O for each rainfall event. This is quite unfeasible. But...we need to sample rainfall as much as we can in order to make reliable interpolation of delta18O contents in ech daily rainfall episode! Stable isotopes of water are reported in the delta notation as the δ-content (‰), which is a relative deviation from the international standard V-SMOW (Vienna-Standard Mean Ocean Water). Mostly, the δ-content is negative. It is not possible to calculate with negative “concentrations” in HYDRUS-1D, and therefore, the user has to add an arbitrary value to all isotope data for the simulations (input and observation data). Do not take the absolute values though!
In the PRIN WATZON activities, we sample the isotope concentration in the rainfall (very frequently!), plant, soil (at different depths) and groundwater table sporadically (it means every two weeks hopefully). So we use rainfall-isotope conc. as input.
We use the other sporadic isotope concentrations (in soil, plant, groundwater) as observation data for inverse modeling in Hydrus-1D. In inverse modeling we optimize the unknown parameters related to water flow (vG parameters, Feddes parameters) and solute transport (dispersivity, solute root uptake etc.).
Once we get the optimized parameters, we can have fun and run long-term simulations with known precipitation, known rainfall-isotope and calculate soil residence time, or travel times from rainfall to transpired water or to groundwater in each site. Please, let me know. I think it is getting quite clear so far.
"

Thursday, June 13, 2019

Some new Ph.D. positions

The new call for the 2019 doctoral position is out. I am interested in topic "D1/D2 - Agricultural, Environmental and hydro-meteorological sciences and engineering”. There are a few available doctoral grants which will be given to a selection of applicants, according to the rule specified in the call. I am interested in students who wants actively collaborate to the WATZON Prin Project. So please peruse the WATZONE project's pages to write your personal  project which the appllication requires.


Overview of the state of art of our topic

Plants water-use strategies are driven by plant functional traits (PFT) (examples are leaf size, toughness and longevity, seed size and dispersal mode, canopy height and structure, capacity for nitrogen fixation) (Mitchell et al., 2008) and in recent years, plant-physiology studies provided an increasingly detailed knowledge of plants behaviour (Schymanski and Or, 2017), but only some of them started to be inserted in ecohydrological models (e.g. Fatichi et al., 2016). Models simulating plant-hydraulic processes are still rare and confined to specific studies (Hölä et al., 2009; Mackay et al., 2015; Nikinmaa et al., 2014). Other studies account explicitly for topographic attributes and lateral water and mass exchanges (Ivanov et al., 2008; Shen et al., 2013; Tague et al., 2013), but their treatment of plant processes is often oversimplified (Zhou et al., 2013). In mountain terrain, even the effect of plot-scale (0.01-0.1 km2) spatial variability of the energy fluxes is still largely not understood (Rollinson and Kaye, 2015) notwithstanding pioneering stud- ies which account for various feedbacks are available, which show that vegetation productivity and water use do not change linearly through spatial gradients (Niedrist et al., 2016).
Research questions addressed
  1.  How specific plant water-use strategies can be implemented in hydrological models ?,
  2. Which is the relative role of biotic (PFT) versus abiotic (soils, topography, climate) processes in determining the spatial and temporal variability of ET and soil water?
  3.  Which is the right level of complexity necessary in models to upscale R3 results from plants to catchments?
  4. How to take advantage of a combination of advanced multi-sensor, multiscale observations to constrain eco-hydrological models and improve their spatial accuracy?
  5. How to leverage recent theories of transport to implement the solutes dynamics in plants ?

Other information

The candidate will take care of implementing, besides the code, the appropriate procedures for continuous integration of the evolving source code, and s/he will be also asked to maintain a regular rate of commits to the common open platform. Despite these conditions, and being free and open source, the code will be intellectual property by the coder. This will be guaranteed also by the components-based infrastructure offered by OMS3, which allows to better define the contributions of anyone.
The implementation part will be followed, accompanied by testing activities, either for mathematical consistency, and for physical consistency with experiments and field measurements.
The Ph.D. student is intended to produce, besides working and tested codes, also at least three papers in major journals (VQR Class A), of which, at least one as first Author.
All the code developed will be done in Github (or similar platform), inside the GEOframe community and will be Open Source according to the GPL v3 license.

The candidate will take care of implementing, besides the code, the appropriate procedures for continuous integration of the evolving source code, and s/he will be also asked to maintain a regular rate of commits to the common open platform. Despite these conditions, and being free and open source, the code will be intellectual property by the coder. This will be guaranteed also by the components-based infrastructure offered by OMS3, which allows to better define the contributions of anyone.The implementation part will be followed, accompanied by testing activities, either for mathematical consistency, than for physical consistency with experiments and field measurements.The Ph.D. student is intended to produce, besides working and tested codes, also at least three papers in major journals (VQR Class A), of which, at least one as first Author. Duration of the doctoral studies is three years.

Further information of the policies of the research group can be found:
P.S. - I am also considering:
  • Applicants who wants to apply to build the new GEOtop snow model but with attention to forest-snow interactions.
  • Who wants to work on the infrastructure of the OMS3, GEOframe systems.
  • Who wants to exploit the capabilities of the GEOframe system to pursue the modelling of the river Adige (and/or other rivers in the world), including human infrastructures.

The WATZON project

We had financed (small financial support indeed) a PRIN project called WATZON (WATer mixing in the critical ZONe: observations and predictions under environmental changes). It was reborn on the ashes of the Water MIX and PRECISE projects and its short description is:

"Sustainable land and water resources management is inextricably linked to a detailed knowledge of water availability in the critical zone (CZ), which is the thin outer layer of the Earth extending from the top of the tree canopy to the bottom of water aquifers, and that controls water quality and quantity, sustaining human activity. The CZ is experiencing ever-increasing pressure due to growth in human population and water demands, and changing climatic conditions. Understanding, predicting and managing intensification of water use and associated economic services in the CZ, while mitigating and adapting to rapid climate change and biodiversity decline, is now one of the most pressing societal challenges of the 21st century. Vegetation is a fundamental element of the CZ, as connects water from different storages in the subsurface zone with water in the lower atmosphere, therefore regulating water fluxes among different compartments of the CZ. Several studies in the last years have examined water mixing processes in the soil-vegetation-atmosphere system. However, because of the large spatio-temporal variability of subsurface water movement and the capability of plants to access water from both deep and shallow sources, and the resulting highly-complex feedbacks in water exchanges between vegetation and other ecohydrological compartments, fundamental scientific questions on the effect of vegetation on the hydrological cycle, especially under different climatic forcing and land-use conditions, remain unanswered.
The main objective of the project WATZON (WATer mixing in the critical ZONe: observations and predictions under environmental changes) is to advance the understanding of water mixing in the CZ by investigating ecohydrological processes of water exchange between vegetation and surface and subsurface water compartments."

There is a OSF website for the project here.

Specifically, the project aims at:
  1. assessing the description of water mixing process across the CZ by using integrated high-resolution isotopic, geophysical and hydrometeorological measurements from point to catchment scale, under different physiographic conditions and climate forcing;
  2. testing water exchange mechanisms between subsurface reservoirs and vegetation, and to assess ecohydrological dynamics in different environments by coupling the high-resolution data set from different CZ study sites of the project consortium with advanced ecohydrological models at multiple spatial scales;
  3. developing a process-based conceptual framework of ecohydrological processes in the CZ to translate scientific knowledge into evidence to support policy and management decisions concerning water and land use in forested and agricultural ecosystems.

The project objectives will be achieved by integrating different methodological tools, such as environmental tracers (isotopes of hydrogen and oxygen), advanced geophysical measurements and detailed ecohydrological models, to develop an interdisciplinary and holistic comprehension of ecohydrological dynamics under different climatic forcing and land use conditions. 
The project will create a new network of study sites in Italy (Critical Zone study sites) representative for different climatic, physiographic and vegetation conditions in the Mediterranean area, including grassland, forested and agricultural ecosystems. High-resolution and detailed experimental data and observations will be collected in a consistent way across all study sites in order to identify water pools potentially involved in ecohydrological water exchanges and fine-study root water uptake dynamics. The high-quality data collected in the field and the experimental results will serve as a basis to implement and apply new-generation, robust, reliable and realistic ecohydrological models aiming at assessing water mixing and exchange mechanisms between subsurface reservoirs, vegetation and atmosphere at the root-plant scale and the stand and catchment scale. Models will be used also to develop scenario-based projections for assessing the impact of land-use change on ecosystem services under different climatic and environmental conditions. 
In addition to the foreseen significant advancement of scientific research on water mixing processes in the CZ, the other main impact of WATZON will regard the communication with stakeholders and interaction with the civil society. Involvement of the most relevant stakeholders (e.g., water agencies, river basin authorities, reclamation and irrigation districts, government agencies for forest management and protection, national parks, municipalities and regional councils) will allow to translate the acquired scientific knowledge into practices to support effective and sustainable land and water resources management across a variety of climate and physiographic settings.

Our specific efforts, in which I will work with Giacomo Bertoldi (GS) and Giuseppe Formetta will be using the Mastch-Mazia Valley measurements made by EURAC and improve its dataset and, at the same time, lead WP3 of the project: Testing water mixing mechanisms through ecohydrological modelling 

WP3 will use data and experimental results provided by the activities  to test, implement and apply robust, reliable and realistic (R3) ecohydrological models aiming at assessing water mixing and exchange mechanisms between surface, subsurface reservoirs, vegetation and atmosphere within the CROSSes. Particularly, the models will be applied at three main scales: i) the scale of the roots-stems-leaves apparatus, to analyse vegetation water uptake dynamics and their possible switches over time; ii) the stand and iii) catchment scale, to examine how plant water use affects streamflow generation within different ecohydrological regimes. The starting set of models for the project is composed by GEOtop-dv, JGrass-NewAge (JN), now called GEOframe.

Task 3.1.This task will model ecohydrological processes. Soil water flow will be modelled through 3D Richards equation, with improved parameterizations of soil water retention curves, hydraulic conductivity and treatments of hydraulic conductivity. Interaction between water and roots will be implemented. New schemes of plants hydraulics will be implemented to obtain the partition between evaporation and transpiration. Energy and the carbon budget will be modeled to properly constraint the transpiration production. Tools for accounting for water age, and tracers concentration, will be coupled to the new modules of GEOtop and GEOframe. New gridding and numerics will be devised to mimic the experiments and measurements domains.

Task 3.2. This task will couple field data and ecohydrological models at the root-stem-plant volume scale. Along with the 3D simulations, 1D models will be used. Fluxes will be analysed both in time domain and estimating residence and travel time to cope with tracers at integrated soil-plant scale. These results will be compared with those identified by isotope data and geophysical measurements in project's catchments.

Task 3.3. This task will couple field data and ecohydrological models at the stand and catchment scale. New models of plants communities functioning based on plant functional traits and optimality principles will be introduced, along with the more mechanistic ones. The model results will be compared in CRitical zOne Study Sites –(CROSSes) 2, 4, 5 and 6 against isotope data.

WP3 provide the following deliverables.
  • Deliverable 3.1: New improved components of the models GEOtop and GEOframe and their documentation at the end of each project’s year (version +1,+2,+3).
  • Deliverable 3.2: Case studies will be provided for all the experimental sites, using the various versions of the model components. All the material for the simulation will be provided to the research community online by Open Science Framework.