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Changed 'infectious virus' to 'virions'

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Luis Aleixo 2021-08-04 13:36:52 +02:00
parent 415ade0185
commit 5ddddf10f8
8 changed files with 14 additions and 14 deletions
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2
README.md
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@ -2,7 +2,7 @@
CARA is a risk assessment tool developed to model the concentration of viruses in enclosed spaces, in order to inform space-management decisions.
CARA models the concentration profile of potential infectious viruses in enclosed spaces with clear and intuitive graphs.
CARA models the concentration profile of potential virions in enclosed spaces with clear and intuitive graphs.
The user can set a number of parameters, including room volume, exposure time, activity type, mask-wearing and ventilation.
The report generated indicates how to avoid exceeding critical concentrations and chains of airborne transmission in spaces such as individual offices, meeting rooms and labs.

4
cara/apps/calculator/report_generator.py
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@ -116,7 +116,7 @@ def plot(times, concentrations, model: models.ExposureModel):
ax.set_xlabel('Time of day')
ax.set_ylabel('Mean concentration ($q/m^3$)')
ax.set_title('Mean concentration of infectious virus')
ax.set_title('Mean concentration of virions')
ax.xaxis.set_major_formatter(matplotlib.dates.DateFormatter("%H:%M"))
# Plot presence of exposed person
@ -237,7 +237,7 @@ def comparison_plot(scenarios: typing.Dict[str, dict], sample_times: np.ndarray)
ax.set_xlabel('Time of day')
ax.set_ylabel('Mean concentration ($q/m^3$)')
ax.set_title('Mean concentration of infectious virus')
ax.set_title('Mean concentration of virions')
return fig

4
cara/apps/calculator/templates/base/calculator.report.html.j2
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@ -247,7 +247,7 @@
<p class="data_text"> <strong> Notes for alternative scenarios: </strong><br>
<ol>
<li>This graph shows the concentration of infectious virus in the air. The filtration of Type I and FFP2 masks, if worn, applies not only to the emission rate but also to the individual exposure (i.e. inhalation).
<li>This graph shows the concentration of virions in the air. The filtration of Type I and FFP2 masks, if worn, applies not only to the emission rate but also to the individual exposure (i.e. inhalation).
For this reason, scenarios with different types of mask will show the same concentration on the graph but have different absorbed doses and infection probabilities.</li>
<li>If you have selected more sophisticated options, such as HEPA filtration or FFP2 masks, alternatives will be indicated in the plot as the "base scenario with/without...", representing a variation on the inputs inserted in the form.<br>
The other alternative scenarios shown for comparison will not include either HEPA filtration or FFP2 masks.</li>
@ -278,7 +278,7 @@
CARA is a risk assessment tool developed to model the concentration of viruses in enclosed spaces, in order to inform space-management decisions.
</p>
<p>
CARA models the concentration profile of potential infectious viruses in enclosed spaces with clear and intuitive graphs.
CARA models the concentration profile of potential virions in enclosed spaces with clear and intuitive graphs.
The user can set a number of parameters, including room volume, exposure time, activity type, mask-wearing and ventilation.
The report generated indicates how to avoid exceeding critical concentrations and chains of airborne transmission in spaces such as individual offices, meeting rooms and labs.
</p>

2
cara/apps/calculator/templates/calculator.form.html.j2
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@ -380,7 +380,7 @@ v{{ calculator_version }} <span style="float:right; font-weight:bold">Please sen
CARA is a risk assessment tool developed to model the concentration of viruses in enclosed spaces, in order to inform space-management decisions.
</p>
<p>
CARA models the concentration profile of potential infectious viruses in enclosed spaces with clear and intuitive graphs.
CARA models the concentration profile of virions in enclosed spaces with clear and intuitive graphs.
The user can set a number of parameters, including room volume, exposure time, activity type, mask-wearing and ventilation.
The report generated indicates how to avoid exceeding critical concentrations and chains of airborne transmission in spaces such as individual offices, meeting rooms and labs.
</p>

8
cara/apps/calculator/templates/userguide.html.j2
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@ -15,7 +15,7 @@ If you are using the expert version of the tool, you should look at the expert
CARA is a risk assessment tool developed to model the concentration of viruses in enclosed spaces, in order to inform space-management decisions.
</p>
<p>
CARA models the concentration profile of potential infectious viruses in enclosed spaces with clear and intuitive graphs.
CARA models the concentration profile of potential virions in enclosed spaces with clear and intuitive graphs.
The user can set a number of parameters, including room volume, exposure time, activity type, mask-wearing and ventilation.
The report generated indicates how to avoid exceeding critical concentrations and chains of airborne transmission in spaces such as individual offices, meeting rooms and labs.
</p>
@ -183,15 +183,15 @@ It is estimated based on the emission rate of virus into the simulated volume, a
This probability is valid for the simulation duration - i.e. the start and end time.
If you are using the natural ventilation option, the simulation is only valid for the selected month, because the following or preceding month will have a different average temperature profile.
The <code>expected number of new cases</code> for the simulation is calculated based on the probability of infection, multiplied by the number of exposed occupants.</p>
<p>The graph shows the variation in the concentration of infectious viruses within the simulated volume.
<p>The graph shows the variation in the concentration of virions within the simulated volume.
It is determined by:</p>
<ul>
<li>The presence of the infected person, who emits airborne viruses in the volume.</li>
<li>The emission rate is related to the type of activity of the infected person (sitting, light exercise), their level of vocalisation (breathing, talking or shouting).</li>
<li>The accumulation of infectious virus in the volume, which is driven, among other factors, by ventilation (if applicable).<ul>
<li>The accumulation of virions in the volume, which is driven, among other factors, by ventilation (if applicable).<ul>
<li>In a mechanical ventilation scenario, the removal rate is constant, based on fresh airflow supply in and out of the simulated space.</li>
<li>Under natural ventilation conditions, the effectiveness of ventilation relies upon the hourly temperature difference between the inside and outside air temperature.</li>
<li>A HEPA filter removes infectious virus from the air at a constant rate and is modelled in the same way as mechanical ventilation, however air passed through a HEPA filter is recycled (i.e. it is not fresh air).</li>
<li>A HEPA filter removes virions from the air at a constant rate and is modelled in the same way as mechanical ventilation, however air passed through a HEPA filter is recycled (i.e. it is not fresh air).</li>
</ul>
</li>
</ul>

4
cara/apps/expert.py
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@ -141,7 +141,7 @@ class ExposureModelResult(View):
ax.set_xlabel('Time (hours)')
ax.set_ylabel('Concentration ($q/m^3$)')
ax.set_title('Concentration of infectious virus')
ax.set_title('Concentration of virions')
else:
self.ax.ignore_existing_data_limits = True
self.line.set_data(ts, concentration)
@ -186,7 +186,7 @@ class ExposureComparissonResult(View):
ax.spines['top'].set_visible(False)
ax.set_xlabel('Time (hours)')
ax.set_ylabel('Concentration ($q/m^3$)')
ax.set_title('Concentration of infectious virus')
ax.set_title('Concentration of virions')
return ax
def scenarios_updated(self, scenarios: typing.Sequence[ScenarioType], _):

2
cara/apps/templates/about.html.j2
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@ -24,7 +24,7 @@ The model used is based on scientific publications relating to airborne transmis
The tool helps assess the potential dose of infectious airborne viruses in indoor gatherings, with people seated, standing, moving around, while breathing, speaking or shouting/singing. The model is based on the Wells-Riley model of aerosol disease transmission, which assumes a fixed value for the average infectious dose. The dose-response models for respiratory diseases is more accurate, although since this parameter for SARS-CoV-2 is not known so far, the Wells-Riley method is recommended in the health science community (see <a href="#references_block">References</a>).
The methodology of the model is divided into three parts:
<ol>
<li>Estimating the emission rate of infectious viruses.</li>
<li>Estimating the emission rate of virions.</li>
<li>Modeling the concentration evolution of viruses within a given volume and consequent inhalation dose during the exposure time.</li>
<li>Estimating the probability of a COVID-19 infection, the expected number of new cases arising from the transmission event and the basic reproduction rate (R0).</li>
</ol>

2
cara/models.py
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@ -677,7 +677,7 @@ class InfectedPopulation(Population):
Note that the rate is not currently time-dependent.
"""
# Emission Rate (infectious virus / h)
# Emission Rate (virions / h)
# Note on units: exhalation rate is in m^3/h, aerosols in mL/cm^3
# and viral load in virus/mL -> 1e6 conversion factor
aerosols = self.expiration.aerosols(self.mask)